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NBDC - LSDB Archive
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AcEST | BlastX Result : Swiss-Prot | BlastX Result : TrEMBL | AcESTcontig | About Libraries
BP920251
Clone id YMU001_000134_G09
Library
Length 526
Definition Adiantum capillus-veneris mRNA. clone: YMU001_000134_G09.
Accession
Tissue type prothallium
Developmental stage -
Contig ID -
Sequence 
TTTTTTTTTTTTTTTTCATAAAGCTTTGGTCACCCTTTCCCTGAAATTTTGCACTTGGCA
ATACTGCAGTACAAAATTGAGAAACCTGCAAATGCCAATTTCAAGAGGATTAAGGAACCA
CAAGAATAATATGTGCATCATGTGGTATTTACAAGGGGCATATATACTAATGCCCTAGAT
TGCTCAAGGTACATAACAACCAGGTAGCCTAAAGGCAGATAAACAGAGAAACAGCCCTCT
TTGTTTGGTTGCCTATCATCAACAATGCCTCTATACCATGAACTGCCTTAATCACTTGCA
AATTGCTTCAACAATCACCATTTTCACAACTGTGTCCCGATATCTACTAGGAAGGCGGAA
CCACCATCGCCCTCCTTTGGCCTCATTTTGGATAAAGCACGACCCTTTATCTGTCTCACT
CTCTCTTTCGACAAGCCATATTTTACAGCAATGCTCGTCATGTTTGCTCGGGCGCCCTCC
TCCGTACCGATTCCGAAAACCCACCGAATGAGTACCTGCAGGTAAT
■■Homology search results ■■ -
sp_hit_id Q59914
Definition sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor hrdD OS=Streptomyces griseus
Align length 43
Score (bit) 35.8
E-value 0.12
Report 
BLASTX 2.2.19 [Nov-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= BP920251|Adiantum capillus-veneris mRNA, clone:
YMU001_000134_G09.
         (510 letters)

Database: uniprot_sprot.fasta 
           412,525 sequences; 148,809,765 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor hrdD ...    36   0.12 
sp|P33118|RPSB_CORDI RNA polymerase sigma factor sigB OS=Coryneb...    35   0.20 
sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor hrdD ...    35   0.27 
sp|P18249|HRDD_STRCO RNA polymerase principal sigma factor hrdD ...    35   0.27 
sp|P50509|RP32_PROMI RNA polymerase sigma-32 factor OS=Proteus m...    34   0.35 
sp|P52328|RPSD2_BACSP RNA polymerase sigma factor rpoD OS=Bacill...    33   0.78 
sp|Q59996|RPSC_SYNY3 Probable RNA polymerase sigma-C factor OS=S...    33   0.78 
sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|Q5HNY7|RPOD_STAEQ RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|P0A0I8|RPOD_STAAM RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|P0A0J0|RPOD_STAA8 RNA polymerase sigma factor rpoD OS=Staphyl...    33   0.78 
sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor rpoD OS=Mycobac...    33   0.78 
sp|P0A603|RPOD_MYCBO RNA polymerase sigma factor rpoD OS=Mycobac...    33   0.78 
sp|P52329|RPOD_ENTFA RNA polymerase sigma factor rpoD OS=Enteroc...    33   0.78 
sp|P06224|RPOD_BACSU RNA polymerase sigma factor rpoD OS=Bacillu...    33   0.78 
sp|O66381|RPOD_BACHD RNA polymerase sigma factor rpoD OS=Bacillu...    33   0.78 
sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synec...    33   0.78 
sp|P50508|RP32_ENTCL RNA polymerase sigma-32 factor OS=Enterobac...    33   0.78 
sp|P0AGB3|RP32_ECOLI RNA polymerase sigma-32 factor OS=Escherich...    33   0.78 
sp|P0AGB4|RP32_ECOL6 RNA polymerase sigma-32 factor OS=Escherich...    33   0.78 
sp|P0AGB5|RP32_ECO57 RNA polymerase sigma-32 factor OS=Escherich...    33   0.78 
sp|P11539|RP32_CITFR RNA polymerase sigma-32 factor OS=Citrobact...    33   0.78 
sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor hrdB ...    33   0.78 
sp|P18183|HRDB_STRCO RNA polymerase principal sigma factor hrdB ...    33   0.78 
sp|P52331|RPOD_LISMO RNA polymerase sigma factor rpoD OS=Listeri...    33   1.0  

>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor hrdD
           OS=Streptomyces griseus GN=hrdD PE=3 SV=1
          Length = 332

 Score = 35.8 bits (81), Expect = 0.12
 Identities = 15/43 (34%), Positives = 27/43 (62%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMRPKEGDGG 344
           G E+G    +T +  ++GL++ER+RQI+  AL +++    D G
Sbjct: 285 GIEDGRERTLTEVGKQHGLTRERIRQIEKHALLELKRMAHDTG 327


>sp|P33118|RPSB_CORDI RNA polymerase sigma factor sigB
           OS=Corynebacterium diphtheriae GN=sigB PE=3 SV=2
          Length = 329

 Score = 35.0 bits (79), Expect = 0.20
 Identities = 15/36 (41%), Positives = 24/36 (66%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           G ++G    +  I  ++GLS+ERVRQI+   +SK+R
Sbjct: 281 GLDDGVPRTLDQIGRQFGLSRERVRQIEREVMSKLR 316


>sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor hrdD
           OS=Streptomyces viridifaciens GN=hrdD PE=3 SV=1
          Length = 332

 Score = 34.7 bits (78), Expect = 0.27
 Identities = 14/43 (32%), Positives = 27/43 (62%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMRPKEGDGG 344
           G ++G    +T +  ++GL++ER+RQI+  AL +++    D G
Sbjct: 285 GIDDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLARDTG 327


>sp|P18249|HRDD_STRCO RNA polymerase principal sigma factor hrdD
           OS=Streptomyces coelicolor GN=hrdD PE=3 SV=2
          Length = 332

 Score = 34.7 bits (78), Expect = 0.27
 Identities = 14/43 (32%), Positives = 27/43 (62%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMRPKEGDGG 344
           G ++G    +T +  ++GL++ER+RQI+  AL +++    D G
Sbjct: 285 GIDDGRERTLTEVGKEHGLTRERIRQIEKHALLELKKLARDTG 327


>sp|P50509|RP32_PROMI RNA polymerase sigma-32 factor OS=Proteus
           mirabilis GN=rpoH PE=3 SV=1
          Length = 284

 Score = 34.3 bits (77), Expect = 0.35
 Identities = 16/42 (38%), Positives = 27/42 (64%)
 Frame = -3

Query: 490 RWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           RW+     E+  ++ +  +A KYG+S ERVRQ++  A+ K+R
Sbjct: 243 RWL-----EDDNKSTLQELADKYGVSAERVRQLEKNAMKKLR 279


>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor rpoD OS=Bacillus
           sp. GN=sigA PE=3 SV=1
          Length = 377

 Score = 33.1 bits (74), Expect = 0.78
 Identities = 12/36 (33%), Positives = 24/36 (66%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           G ++G    +  +   +G+++ER+RQI+ +AL K+R
Sbjct: 329 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 364


>sp|Q59996|RPSC_SYNY3 Probable RNA polymerase sigma-C factor
           OS=Synechocystis sp. (strain PCC 6803) GN=sigC PE=3 SV=1
          Length = 404

 Score = 33.1 bits (74), Expect = 0.78
 Identities = 17/42 (40%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR-PKEGD 350
           G ++G   +++ I     LS+ERVRQI+ +AL K+R P+  D
Sbjct: 353 GFQDGVAHSLSEIGRILNLSRERVRQIEAKALQKLRHPRRRD 394


>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor rpoD
           OS=Staphylococcus epidermidis (strain ATCC 12228)
           GN=rpoD PE=3 SV=1
          Length = 368

 Score = 33.1 bits (74), Expect = 0.78
 Identities = 12/36 (33%), Positives = 24/36 (66%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           G ++G    +  +   +G+++ER+RQI+ +AL K+R
Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355


>sp|Q5HNY7|RPOD_STAEQ RNA polymerase sigma factor rpoD
           OS=Staphylococcus epidermidis (strain ATCC 35984 /
           RP62A) GN=rpoD PE=3 SV=1
          Length = 368

 Score = 33.1 bits (74), Expect = 0.78
 Identities = 12/36 (33%), Positives = 24/36 (66%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           G ++G    +  +   +G+++ER+RQI+ +AL K+R
Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355


>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor rpoD
           OS=Staphylococcus aureus (strain MW2) GN=rpoD PE=3 SV=1
          Length = 368

 Score = 33.1 bits (74), Expect = 0.78
 Identities = 12/36 (33%), Positives = 24/36 (66%)
 Frame = -3

Query: 472 GTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           G ++G    +  +   +G+++ER+RQI+ +AL K+R
Sbjct: 320 GLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
tr_hit_id Q93V67
Definition tr|Q93V67|Q93V67_PHYPA PpSIG1 OS=Physcomitrella patens
Align length 51
Score (bit) 45.8
E-value 0.001
Report 
BLASTX 2.2.19 [Nov-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= BP920251|Adiantum capillus-veneris mRNA, clone:
YMU001_000134_G09.
         (510 letters)

Database: uniprot_trembl.fasta 
           7,341,751 sequences; 2,391,615,440 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

tr|Q93V67|Q93V67_PHYPA PpSIG1 OS=Physcomitrella patens GN=Sig1 P...    46   0.001
tr|A9SW01|A9SW01_PHYPA Plastid sigma factor SIG1 OS=Physcomitrel...    46   0.001
tr|A9ESS1|A9ESS1_SORC5 RNA polymerase sigma factor OS=Sorangium ...    41   0.038
tr|Q3SLV5|Q3SLV5_THIDA RNA polymerase sigma factor OS=Thiobacill...    40   0.085
tr|A6L8X9|A6L8X9_PARD8 RNA polymerase sigma factor rpoD OS=Parab...    39   0.15 
tr|B7B4Y4|B7B4Y4_9PORP Putative uncharacterized protein OS=Parab...    39   0.15 
tr|A7ALD3|A7ALD3_9PORP Putative uncharacterized protein OS=Parab...    39   0.15 
tr|A7PT61|A7PT61_VITVI Chromosome chr8 scaffold_29, whole genome...    39   0.15 
tr|Q8A863|Q8A863_BACTN RNA polymerase sigma factor rpoD (Sigma-A...    39   0.19 
tr|Q64SN7|Q64SN7_BACFR RNA polymerase sigma factor RpoD (RpoD) O...    39   0.19 
tr|Q5LBR4|Q5LBR4_BACFN Putative sigma factor A OS=Bacteroides fr...    39   0.19 
tr|A6L3X4|A6L3X4_BACV8 RNA polymerase sigma factor rpoD OS=Bacte...    39   0.19 
tr|B7AH53|B7AH53_9BACE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|B6WJ05|B6WJ05_9BACE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|B6W430|B6W430_9BACE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|B5CZB2|B5CZB2_9BACE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|B3JJS2|B3JJS2_9BACE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|B3CB36|B3CB36_9BACE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|B0VH07|B0VH07_9BACT RNA polymerase sigma factor OS=Candidatus...    39   0.19 
tr|B0NMM1|B0NMM1_BACSE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|A7V9P6|A7V9P6_BACUN Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|A7LS34|A7LS34_BACOV Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|A5ZI66|A5ZI66_9BACE Putative uncharacterized protein OS=Bacte...    39   0.19 
tr|Q5P2E1|Q5P2E1_AZOSE RNA polymerase sigma factor OS=Azoarcus s...    38   0.25 
tr|B6YQJ6|B6YQJ6_AZOPC Putative RNA polymerase primary sigma fac...    38   0.25 
tr|Q7UXE0|Q7UXE0_RHOBA Probable RNA polymerase sigma 70 OS=Rhodo...    38   0.32 
tr|B7KAB6|B7KAB6_9CHRO RNA polymerase, sigma 70 subunit, RpoD su...    38   0.32 
tr|A0NWS4|A0NWS4_9RHOB RNA polymerase sigma factor OS=Labrenzia ...    38   0.32 
tr|Q9SMV8|Q9SMV8_ARATH Putative sigma-like transcription factor ...    38   0.32 
tr|Q9LD95|Q9LD95_ARATH Sigma factor-like protein (Putative RNA p...    38   0.32 

>tr|Q93V67|Q93V67_PHYPA PpSIG1 OS=Physcomitrella patens GN=Sig1 PE=2
           SV=1
          Length = 677

 Score = 45.8 bits (107), Expect = 0.001
 Identities = 19/51 (37%), Positives = 37/51 (72%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMRPKEGDGG 344
           ++R  +G+G E+G+  ++ SI+ +YG+S+ERVRQ++  A+ K++ K  + G
Sbjct: 618 IVRLHYGVGREDGSVMSLESISYRYGVSRERVRQLETAAMRKLQIKSREQG 668


>tr|A9SW01|A9SW01_PHYPA Plastid sigma factor SIG1 OS=Physcomitrella
           patens subsp. patens GN=PpSig1 PE=4 SV=1
          Length = 677

 Score = 45.8 bits (107), Expect = 0.001
 Identities = 19/51 (37%), Positives = 37/51 (72%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMRPKEGDGG 344
           ++R  +G+G E+G+  ++ SI+ +YG+S+ERVRQ++  A+ K++ K  + G
Sbjct: 618 IVRLHYGVGREDGSVMSLESISYRYGVSRERVRQLETAAMRKLQIKSREQG 668


>tr|A9ESS1|A9ESS1_SORC5 RNA polymerase sigma factor OS=Sorangium
           cellulosum (strain So ce56) GN=sce7244 PE=3 SV=1
          Length = 715

 Score = 40.8 bits (94), Expect = 0.038
 Identities = 20/49 (40%), Positives = 31/49 (63%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMRPKEGD 350
           +IRW FG+  E+     +  I  KY LS+ER+RQ++ +AL K+R +  D
Sbjct: 668 IIRWRFGLDDED--ELTLKEIGDKYNLSRERIRQLQEQALGKIRKQMRD 714


>tr|Q3SLV5|Q3SLV5_THIDA RNA polymerase sigma factor OS=Thiobacillus
           denitrificans (strain ATCC 25259) GN=Tbd_0345 PE=3 SV=1
          Length = 281

 Score = 39.7 bits (91), Expect = 0.085
 Identities = 20/42 (47%), Positives = 27/42 (64%)
 Frame = -3

Query: 490 RWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           RW+      EG  A +  +A +YG+S ER+RQI+ RAL KMR
Sbjct: 240 RWL-----SEGDVATLHELAAQYGVSAERIRQIEARALQKMR 276


>tr|A6L8X9|A6L8X9_PARD8 RNA polymerase sigma factor rpoD
           OS=Parabacteroides distasonis (strain ATCC 8503 / DSM
           20701 / NCTC 11152) GN=BDI_0360 PE=4 SV=1
          Length = 286

 Score = 38.9 bits (89), Expect = 0.15
 Identities = 19/44 (43%), Positives = 30/44 (68%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           +I+  FGIG +E     +  I  K+GL++ERVRQIK +A+ ++R
Sbjct: 233 IIKMFFGIGCQE---MTLEEIGDKFGLTRERVRQIKEKAIRRLR 273


>tr|B7B4Y4|B7B4Y4_9PORP Putative uncharacterized protein
           OS=Parabacteroides johnsonii DSM 18315
           GN=PRABACTJOHN_00076 PE=4 SV=1
          Length = 286

 Score = 38.9 bits (89), Expect = 0.15
 Identities = 19/44 (43%), Positives = 30/44 (68%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           +I+  FGIG +E     +  I  K+GL++ERVRQIK +A+ ++R
Sbjct: 233 IIKMFFGIGCQE---MTLEEIGDKFGLTRERVRQIKEKAIRRLR 273


>tr|A7ALD3|A7ALD3_9PORP Putative uncharacterized protein
           OS=Parabacteroides merdae ATCC 43184 GN=PARMER_04266
           PE=4 SV=1
          Length = 286

 Score = 38.9 bits (89), Expect = 0.15
 Identities = 19/44 (43%), Positives = 30/44 (68%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           +I+  FGIG +E     +  I  K+GL++ERVRQIK +A+ ++R
Sbjct: 233 IIKMFFGIGCQE---MTLEEIGDKFGLTRERVRQIKEKAIRRLR 273


>tr|A7PT61|A7PT61_VITVI Chromosome chr8 scaffold_29, whole genome
           shotgun sequence OS=Vitis vinifera GN=GSVIVT00023225001
           PE=4 SV=1
          Length = 284

 Score = 38.9 bits (89), Expect = 0.15
 Identities = 20/44 (45%), Positives = 30/44 (68%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           +IR  FGIG  +G    ++ I + +G SKERVRQ++ RAL K++
Sbjct: 227 IIRLRFGIG--DGIPRTLSEIGLVFGFSKERVRQLEQRALHKLK 268


>tr|Q8A863|Q8A863_BACTN RNA polymerase sigma factor rpoD (Sigma-A)
           OS=Bacteroides thetaiotaomicron GN=BT_1311 PE=4 SV=1
          Length = 286

 Score = 38.5 bits (88), Expect = 0.19
 Identities = 19/44 (43%), Positives = 30/44 (68%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           +I+  FGIG +E     +  I  K+GL++ERVRQIK +A+ ++R
Sbjct: 233 IIQMFFGIGQQE---MTLEEIGDKFGLTRERVRQIKEKAIRRLR 273


>tr|Q64SN7|Q64SN7_BACFR RNA polymerase sigma factor RpoD (RpoD)
           OS=Bacteroides fragilis GN=rpoD PE=4 SV=1
          Length = 286

 Score = 38.5 bits (88), Expect = 0.19
 Identities = 19/44 (43%), Positives = 30/44 (68%)
 Frame = -3

Query: 496 LIRWVFGIGTEEGARANMTSIAVKYGLSKERVRQIKGRALSKMR 365
           +I+  FGIG +E     +  I  K+GL++ERVRQIK +A+ ++R
Sbjct: 233 IIQMFFGIGQQE---MTLEEIGDKFGLTRERVRQIKEKAIRRLR 273