Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein translocase subunit SecA.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_2 g8757 g8757.t1 isoform g8757.t1 32881820 32888431
chr_2 g8757 g8757.t1 exon g8757.t1.exon1 32881820 32882011
chr_2 g8757 g8757.t1 cds g8757.t1.CDS1 32881820 32882011
chr_2 g8757 g8757.t1 exon g8757.t1.exon2 32882075 32883551
chr_2 g8757 g8757.t1 cds g8757.t1.CDS2 32882075 32883551
chr_2 g8757 g8757.t1 exon g8757.t1.exon3 32883609 32888431
chr_2 g8757 g8757.t1 cds g8757.t1.CDS3 32883609 32888431
chr_2 g8757 g8757.t1 TSS g8757.t1 NA NA
chr_2 g8757 g8757.t1 TTS g8757.t1 NA NA

Sequences

>g8757.t1 Gene=g8757 Length=6492
ATGAACATTTCTGGAGCTAGAAGAGCAAAACATCAACGTTGTCTCAATATAGACAAATTA
AAACTTGATGTGAATAACGAACTTATTGCAAAATTTTCATCAAAAAATTCTTCATTGACA
AGTGATGAAATTTTCAAAATTGGCAAATATTTATTGGAACTCAACGGTTTCAATTCAGAA
CAAAAATTCTTTGTCGCTAAAAATTCTAAAGAATTCACTGATGCAATTTCTAAGTTGCAA
ACGAAATTGTTTATAATTTTCAAACTTGATCGTTCAACCTATTGGAATGTGGCTTATCTT
ACTAAAATTTCAAATACAGACTACAATTATTTGATGAATCCTTTTAATGATAATTCTTTA
AATTCTATCAGATTAAATGGTTCAGTAAAAATTAACAATCAAAGATCAAATGACAATTTG
AATGATGACTTTTTGGCTTTGATAAATTTGGAAAAAATTGTGAAAGAAAATTTGGTTAAT
TTTCAAATTTTTTCAATTCCAACATCAAGAGAAATTGAAAATTTCAAATCACGACTGAAT
ACAGAAATTTTTGGAAATATTTTTCAAAAAGTTTTATGTGATTTAGAAAATGCAAATTTT
TTGGGAGAATTTAAAAATTTCATGGGAGAATTGAGTGAATACTCAAATTTGTCAATTCTT
GCTGAAGAATATAAAAATATTCTGATTAACGAAAATGAAAATTCTGAAAATTTGACTTCA
ACTGCAATAGACAGAATTAATCGAAAAAGAGCTGAATTTATTGGAAATAATTCAATCAGA
AAACTGTCGGAAATTCAAAAAACTGAAAATAACAAAATTCATTATGAAGTTAAAATTGAG
AAAAATTTTCCAAGTGAAATGAGAAATTTTAGTAATTTTCTTGATATTTTATTTAATGCT
ACTGATCAAACTGTGATTGATGAACGACTGCAAACAATTGCATCAAAAATTAATTCTGAC
ATTGAAATTTTAAAAATCATTTTAAGAAAGAAAAATCAAGAAGAAAAACCGGAAAATGAG
AAAAAAGCAGTTTTAAGTTGGGATAAAATAAAAATTAAACCAGTTAAAGACGGTAAAGTT
GATGAAAATATCAAAAGTTTTACAGAATTGTTAAATGGCATGGAAATTGAAGATCATGAT
TTAGAAAATGACTCAAGAGTTATTGAAGATTTAAAATTTCAATTAAATCAAGTTGAAATT
TTTATGCAAATTTGGAAGAATAAAGACAAATTTGAAATCCGTAATTGGGCAGATTCAAAG
CGAGGAAAATTACAAAAGTCAGAAATTCCTGAAGCAATTGCTGTTTTAAGTCGTGCAAAT
ACTCTTGTCAAAGGTTGGAAAAATTTAAGAAATCCTCAACTTTTGACAGTTTTACTTTAT
TTTCAAATGAAAGAAAATCATGGAGTTCTCTATCAAGTTTTAACTGGTGAAGGAAAAACC
ACAATTGTTTCATTACTTGCAGTCATAAAAATTCTTATGGGTGAAAAATTTATTGATGTC
ATCACTTCCAATTCCGTTCTTGCTCAAGAAGGAATGAATGATCGAGAAAGTTTTTATGCA
ATTTTTAACATCAGTGTTGGTTGTAATAATTTTGTTAGGGATTATGTCAGAGATATGAAA
GAATGTTACAAAGCTGATGTTGTTTATGGAACTATGGGAAATTTTCAAGGTGATTATTTA
CGTCATGGTTTTGAAAATTTAAACACAAGAGGCAATCGTGGTTTTGGCTGCATTATTTTG
GATGAAGTTGACAGCATTTTGCTTGATAATGGTGGACATATTACTAAACTTGCAACACCT
TTTCCTGGAATGGATTTCATCAAGTATGTTTACATCAAAATTTGGCAAGAATTATTAAAA
TATGATGCAGAAATCCCTAAATTATTTGAAGACAAGTTGAAAATTAAAAGTGAAGAACTC
AAAAGAAATGGAACAAATGAAAATGAACTTCAAGAAAAACTTTTTGAATTTCAACAAGAT
TTTAAATTGAATGCTTTTGAAGATATGAAACAAGCAATAATAAATTCAGATCCAACAAAT
ATTGACATAATTCCATCACATTTACGTGATTTTACAAAAGAAATGCTTGAAAAATGGATT
AAGAATGCAATTTTTGCCAAATATCAATGCCATGAAAATATTCGTTATGTTATTAAAAAG
AATAAAGATGGAGAAGATTCTGTGATGCCAGTTGATTTTGAAAATACTGGTGTGACTTTA
AAAAATACAGTTTGGTCTGTTGGTTTGCATCAATTTATTCAATTGAAACATAATTTGGCA
ATTAAAAGTGAAACTCTTACAAGTTCATTTATTTCAAATATTGGCTATGTTAAATTGTAC
AATAAAAATATCATTGGAATGACTGGAACACTTGGATCAAAAGCAGAATATGATTTGCTT
TCAAAAGTTTATGATTTGTGCTTTGCCAAAGTTCCACCATATAAAACAAAAGATCAAAAA
GAAGAATTAGGTTCATTAATTGAAGATGATTCATGGATTGATTTTATTGCAATGAATTCC
TTCTTACATGTTAAAAATAATCGATCAGTGCTAATTATTTGTCGAACTATTCATGATGTT
TATGCAATAAAGAAATCAATTGAATTTATAAAAGAAGCTGAAAATTTTACAAAATTAAAA
ATCAAACTTTATCCAGATGAAACTAGCAGTCATATTGTGTCAAAAGTAATTGATACAAGT
GAAGTTATCATTGCTACAAATATTGCAGGCAGAGGAGCAGATTTTAAGACGACTGATGCA
TTAGAATCAAATGGTGGACTTCATGTTTGTGTCACTTTTCTGCCAACTAATCAAAGAGTT
CAAGATCAAGCATTTGGTAGAACTTCAAGACAAGGAAAGAAAGGAACAGTGCAAATAATC
GCAAAAGCCAGTGATATTAAAATGTTTGGAGGAAGAATTGAAGACTTTATTGAAGTCGAT
ACTTTTTATGATGTTCAAGATTTCCGTGATGAAACTGAAAAAGCAAGACTTGATAAAATA
AGTGAGAAAGAATTGCCAAAAATTAATTTTATGGATGAAATTTTTCAAAAATTCATGTCA
TATCATAATGATTTAAGAGGTGCTGACACTTACTCAAAACCTTATCTAAAAGATTTAAAA
GAACATTGGGCATTTTGGTTGAAAAAGCAAGATTATAAAAATGTTGAAAATTTAACAACC
GAACTCGAGTTTGAAAAATTTAAAGCTGTTGTAAAATCAAATTTGGACAATAAAATTTAC
AGAAATCCTTTTTATTATCTTGAGGAAGCTGAGCAAGCAATTGCAGAAAAAGAATTCAAA
AAGGCAAAAGAAATTTTACAAAAAGCTTTGAATCAAAATAGCAATTACACAGATTTACTC
TATGGTGCACATATAAAATTATTTGAAATTTCAATTGAAGAAGGTGATGCATTAATGGAT
CGGTTTAAAACAACTCTAAGTAAAGTTGCATTTTATGGTTACATCATTGATCAAGATGCT
AAAAGAGAATATAAATGGAATGCTATAAAATATTTAAAGAAAGCACAAGATGGTTTGCAA
AAAGAAATTGATTTTATCAACAATAACATAATAAATGATCAAAATTCAATGAATGAGAAA
TTCTCACTTGTTATTTCTAACAAAATTTCATATGAATTAAAAGAAGAAGAATCAAATAGA
GAAACAAGAGAAATATCAGAAAATAATGAAAATCTCATGTTTAAGCATATTTTGTTACGA
TTGTATGCATTGAAAACTTTTCAACAACATTGTAAACTTTTTGAAGATCAACTTAGATCT
ATGAGTAATGCAATAATTAAATCAAGAATTCCACAATATTTTAAAGATTTCAAACCTGAA
TCAAGAGATGAAAAGTTACAAAAAGATTCACTTCTTTCTAATGAGCTCAATGAACTTGGA
ATGCTTGGACTTGGAGTTGTTTATTCATTGCAAGAAGTTTATGATGCACATCCGGCTGTA
ATTGCAGCAGCACAGGCACAAATTTTGTCGGGATTAGCTGCATTAGGCATTGGACTTGCT
TTTCCTCCTTCTTTGTCTATAATGGGACGAATTGCTGGTGCTTTAATTAGTGAAGGCATT
TCAGATATTGTCATTGAATTAATTACAAAAATGGGAACAGAATATAATGTAGTAAATCAT
ATTAAAGAGAAAGCAATCAGTTATGGAATTGCAATTGCTACAGCTGGATTATCTACTATT
GTAACATGCACAAAAATACTCTCGAAAGCAGTCTACATTTTAAGAAATGTCGCAAGTGTT
TTACGAAAATGTCCAATTATGAAAACTCTTTGCACTAAAATTGCTGCATATTTAGAAGGA
AGAGCTGCGAAAATTGCTTTAGTTATTTTACAGAAAGGATTGATAAACAAAAATGTAACA
ACTTTACGTCAAATAACTATGACAGTAGCAGCAGAATCATTACAAGATGCAATGTTTACA
GTAGTTTCTGAAAAGATCACAACAAAAGTTTTAGAAGAAACTTTAGAAAGTTTAAAGCCA
AAATTAAAACAACAAAATGAATCCAAAGTTAGAGAAAAAATTCCAAGAAATTTACTTGAA
AAACTTTCAGTTTCTAAACTTAATGAAATTCTTGTAAATCTTTCAACTGAAAGTGCTGTA
GAGGCAATTGGTAATGTTGCAAAAGAAATTGGATTTGGCATTATGAGAGTACAAAGAAGT
TGGGCAATGAAAATTACAACTCTTGCTCTTGATTCAATTATCACAACTTCAAATTTAACC
ACAGGAATTTCAAAGTATTGTGATAGTTTAAAAGTAAAATTGACCACAGAAAATCGAAAT
GATGATGGAAATTATTCAACTGATTTTAAATATGATGTGGTTTCTACTCACATTTCGGAA
TACATGTATTCACAAATAATGAAAGTTGCTGGAAAAGGAGCAAATACTTTGATTGTTAGA
CCAATTGCAGGAGTTGTTATGCAATCATTTAGAAAGAAAGAAAATGAAGAAACAAGTTCA
GATATTTCTGATTTATTTAAACGTCTCAAACTTGATCCAAATGCAACTGAAAGTGAACTT
AAAACAAAAATCCATGAATCAGCTGGAAATGATGCAAAAAAATTGTCAAATTTATTACAA
GCGAGTAATGAAGTTTTGGATATTTATAAAAATCGAAATAATCTAAAATTGCCAGTCACA
ACTGGAGTTCCAAAAATGGCGCATTTTGGAAATTTAAAAACTATGAGTAATTTAATGAAA
TTTCATCTTGTAGTAAATTATATGAAACAAAATGGAGAAATTGATAAAGTTCATGAATTT
GGTAAAAATTTCAAAGATAAGCAAACAATTGAAATTAATTTTTATCCTGGAAATAGAATG
AAAGTTGGTCATTATATTTTGAGTGATAAAACTATTGAAATTCAATCAAGTGCTAAAAAT
AATTGTCTTTATGATGCAGTTTCTGCTTCATTTAAATCTAAAGGCATTGAAATTCCTTCT
GAAAAGCTTAGAGAAGTTGCAGAATTTCCAAGTCAAGCAAATTTAATTTTTAATAAATTA
GAAAAATTTTCTCAAATACTAAACAATCCAATAACAAGAAATCTTTATGTAAAAGCTCAA
AATGCAATTTTACTTGGAGGTGATCAACTTGAAAGATTGCCGATAAATCAAAATGGTATT
GGTTACTATCCAAATGGTGCAAAATTTGATCGAAGCAAAATTGGAAACGATACAATTACA
ATCATAAACAAAATAATTGAGTTTAGTAAAACTGTAGAAAATGCAAAAGCTAATAAAATT
AAACCTAAAAAAGTTCTTGCAAATGCACCAGCTAAATTTGGAGAAGGTGCAGATGCATTG
GAAAAGAAATTGAAGAAAGCTGGAGTGATGATTGGTTTGATGAATGTTCAATTGAAAAAT
GAAGAAACTGGCGAAGTAAAAACAGTAAAAATGTATGCATTATCAGGTGAAACTGAATTT
TATTTTAGAGATTATGGACAAAGTGAAGATTTAACAAGAATTAATAACTATGAATTGGTA
AATATTAATACCACAGGATTTCCTAATGTTCATAATGTCATTTTAAAAGAAGATATTATA
ACATCAACAAAGCAATCATGTGCTGCAACAAGATTAAATATTGGATTATCAAATGAACTT
AGAAAACCCGAAAATGATGGATTTCATGTTAAAGAAATTTTATTAGCTGAAGTTTATTAC
AAAAAAGATCATAAAACAACTTTTATTAATAATCAAGGAGAAAAGGTTGAAATAGACCAT
GGAGAAAATTTGACAGATCAAAATTTAAACGATAGAATTGTTGATTCATGTAAAGAATGC
AAAACAAATTTACCACATTCTGTTGATCTTGTTCCACATTTTAAATGGAACAATGAGCTA
GATCGTTTTGAGCTTAATTTTGATGAAATCAAATTGAAGAACCAAAGTACATTCTTTCCT
GATGTTGAATTTACACCCGATGTAAAAAAAGATAGGTCAAAAGGTGCTGGAAGTTCTCGT
CAAATAACTTAA

>g8757.t1 Gene=g8757 Length=2163
MNISGARRAKHQRCLNIDKLKLDVNNELIAKFSSKNSSLTSDEIFKIGKYLLELNGFNSE
QKFFVAKNSKEFTDAISKLQTKLFIIFKLDRSTYWNVAYLTKISNTDYNYLMNPFNDNSL
NSIRLNGSVKINNQRSNDNLNDDFLALINLEKIVKENLVNFQIFSIPTSREIENFKSRLN
TEIFGNIFQKVLCDLENANFLGEFKNFMGELSEYSNLSILAEEYKNILINENENSENLTS
TAIDRINRKRAEFIGNNSIRKLSEIQKTENNKIHYEVKIEKNFPSEMRNFSNFLDILFNA
TDQTVIDERLQTIASKINSDIEILKIILRKKNQEEKPENEKKAVLSWDKIKIKPVKDGKV
DENIKSFTELLNGMEIEDHDLENDSRVIEDLKFQLNQVEIFMQIWKNKDKFEIRNWADSK
RGKLQKSEIPEAIAVLSRANTLVKGWKNLRNPQLLTVLLYFQMKENHGVLYQVLTGEGKT
TIVSLLAVIKILMGEKFIDVITSNSVLAQEGMNDRESFYAIFNISVGCNNFVRDYVRDMK
ECYKADVVYGTMGNFQGDYLRHGFENLNTRGNRGFGCIILDEVDSILLDNGGHITKLATP
FPGMDFIKYVYIKIWQELLKYDAEIPKLFEDKLKIKSEELKRNGTNENELQEKLFEFQQD
FKLNAFEDMKQAIINSDPTNIDIIPSHLRDFTKEMLEKWIKNAIFAKYQCHENIRYVIKK
NKDGEDSVMPVDFENTGVTLKNTVWSVGLHQFIQLKHNLAIKSETLTSSFISNIGYVKLY
NKNIIGMTGTLGSKAEYDLLSKVYDLCFAKVPPYKTKDQKEELGSLIEDDSWIDFIAMNS
FLHVKNNRSVLIICRTIHDVYAIKKSIEFIKEAENFTKLKIKLYPDETSSHIVSKVIDTS
EVIIATNIAGRGADFKTTDALESNGGLHVCVTFLPTNQRVQDQAFGRTSRQGKKGTVQII
AKASDIKMFGGRIEDFIEVDTFYDVQDFRDETEKARLDKISEKELPKINFMDEIFQKFMS
YHNDLRGADTYSKPYLKDLKEHWAFWLKKQDYKNVENLTTELEFEKFKAVVKSNLDNKIY
RNPFYYLEEAEQAIAEKEFKKAKEILQKALNQNSNYTDLLYGAHIKLFEISIEEGDALMD
RFKTTLSKVAFYGYIIDQDAKREYKWNAIKYLKKAQDGLQKEIDFINNNIINDQNSMNEK
FSLVISNKISYELKEEESNRETREISENNENLMFKHILLRLYALKTFQQHCKLFEDQLRS
MSNAIIKSRIPQYFKDFKPESRDEKLQKDSLLSNELNELGMLGLGVVYSLQEVYDAHPAV
IAAAQAQILSGLAALGIGLAFPPSLSIMGRIAGALISEGISDIVIELITKMGTEYNVVNH
IKEKAISYGIAIATAGLSTIVTCTKILSKAVYILRNVASVLRKCPIMKTLCTKIAAYLEG
RAAKIALVILQKGLINKNVTTLRQITMTVAAESLQDAMFTVVSEKITTKVLEETLESLKP
KLKQQNESKVREKIPRNLLEKLSVSKLNEILVNLSTESAVEAIGNVAKEIGFGIMRVQRS
WAMKITTLALDSIITTSNLTTGISKYCDSLKVKLTTENRNDDGNYSTDFKYDVVSTHISE
YMYSQIMKVAGKGANTLIVRPIAGVVMQSFRKKENEETSSDISDLFKRLKLDPNATESEL
KTKIHESAGNDAKKLSNLLQASNEVLDIYKNRNNLKLPVTTGVPKMAHFGNLKTMSNLMK
FHLVVNYMKQNGEIDKVHEFGKNFKDKQTIEINFYPGNRMKVGHYILSDKTIEIQSSAKN
NCLYDAVSASFKSKGIEIPSEKLREVAEFPSQANLIFNKLEKFSQILNNPITRNLYVKAQ
NAILLGGDQLERLPINQNGIGYYPNGAKFDRSKIGNDTITIINKIIEFSKTVENAKANKI
KPKKVLANAPAKFGEGADALEKKLKKAGVMIGLMNVQLKNEETGEVKTVKMYALSGETEF
YFRDYGQSEDLTRINNYELVNINTTGFPNVHNVILKEDIITSTKQSCAATRLNIGLSNEL
RKPENDGFHVKEILLAEVYYKKDHKTTFINNQGEKVEIDHGENLTDQNLNDRIVDSCKEC
KTNLPHSVDLVPHFKWNNELDRFELNFDEIKLKNQSTFFPDVEFTPDVKKDRSKGAGSSR
QIT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8757.t1 Coils Coil Coil 1087 1112 -
13 g8757.t1 Coils Coil Coil 1692 1712 -
11 g8757.t1 Gene3D G3DSA:3.40.50.300 - 362 641 6.2E-45
12 g8757.t1 Gene3D G3DSA:3.90.1440.10 - 653 764 2.2E-8
10 g8757.t1 Gene3D G3DSA:3.40.50.300 - 820 1004 1.9E-27
2 g8757.t1 PANTHER PTHR30612 SECA INNER MEMBRANE COMPONENT OF SEC PROTEIN SECRETION SYSTEM 335 1275 2.7E-129
3 g8757.t1 PANTHER PTHR30612:SF0 SI:DKEY-187J14.7-RELATED 335 1275 2.7E-129
6 g8757.t1 PRINTS PR00906 SecA protein signature 472 486 2.4E-7
5 g8757.t1 PRINTS PR00906 SecA protein signature 543 563 2.4E-7
4 g8757.t1 PRINTS PR00906 SecA protein signature 735 757 2.4E-7
1 g8757.t1 Pfam PF07517 SecA DEAD-like domain 386 795 1.6E-28
16 g8757.t1 ProSiteProfiles PS51196 SecA family profile. 373 989 32.052
15 g8757.t1 SMART SM00957 SecA_DEAD_2 413 798 4.2E-9
9 g8757.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 423 812 1.36E-26
7 g8757.t1 SUPERFAMILY SSF81767 Pre-protein crosslinking domain of SecA 687 764 8.24E-7
8 g8757.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 843 970 1.26E-13

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016020 membrane CC
GO:0006886 intracellular protein transport BP
GO:0006605 protein targeting BP
GO:0005524 ATP binding MF
GO:0017038 protein import BP

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed