Gene loci information

Transcript annotation

  • This transcript has been annotated as DNApol-eta.

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_1 g13083 g13083.t1 TSS g13083.t1 27859270 27859270
chr_1 g13083 g13083.t1 isoform g13083.t1 27859397 27862364
chr_1 g13083 g13083.t1 exon g13083.t1.exon1 27859397 27859460
chr_1 g13083 g13083.t1 cds g13083.t1.CDS1 27859397 27859460
chr_1 g13083 g13083.t1 exon g13083.t1.exon2 27859519 27859761
chr_1 g13083 g13083.t1 cds g13083.t1.CDS2 27859519 27859761
chr_1 g13083 g13083.t1 exon g13083.t1.exon3 27859831 27862364
chr_1 g13083 g13083.t1 cds g13083.t1.CDS3 27859831 27862364
chr_1 g13083 g13083.t1 TTS g13083.t1 27862419 27862419

Sequences

>g13083.t1 Gene=g13083 Length=2841
ATGGATTGTTTTTACTGCCAAGTTGAGGAATTGCTTGATGAAAAATTGCGCGGTCAACCA
ATAGCTGTTGTACAGTATGTCGAAAATGCAGGAATCATTGCTGTAAATTATAAAGCTCGC
GCCATGGGAGTTACGCGACATATGCGAGAAAAGGAAGCCAAAGCAGTTTGCAGCAGTTTA
GTATGTGTAAAAGTTCCATCTAAATATAATAAAGCTGATATCTCGAAATATAAAGAAGCT
GGCAAACGTGTAGCTGATGTTTTTGAGAAATTTACAAAGAACTTAGAAAGAGCGAGCATT
GACGAAGCATATTTAGATATAACAGAAAATGTTGCTGCTCGCATGCTTGAAATGCGACAG
AAAAAATTCTCTCTTCAACCTCATCATCTTTTTAATACATACGCAGTAGGATACGACAAT
ATTGGGCAATTCATAAAGGATGTTTCTTCGACAGTTGACATAAATTTAGAGAGTTCAGAT
CATGAGACACAAGCACTACAAAGTAGTAAGTTACGACTATTGTTAGGAGCTTCAATAGTC
AGTGATATTCGAAAAGCAGTTAAAGAAGAGACAGGGTATGAATGCAGTGCTGGAATAGCT
ATGAACAAGATTTTAGCGAAACTTGTTTGCGGTATGAATAAACCAAACAAACAGACGCTA
TTACCAATTGATTCAATACCAAAATTTTTTGACACTCTTGATATTTCGAAAATCAAAGGG
ATGGGAGGCAAAATTGGAGAAGATGTATGCAAAAAATTAAATGTCAAAAAAATGAATGAT
CTGCTGGTATATCAAGAAAGTGAATTACAAAAAAATTTCGGAGCTCGTATTGGTAGCTTC
CTTTATTTGATTGCACGTGGAATTGATTTGGAAAAAGTCGAAAGAAAAGTAATGAATAAG
TGCATAGCAGTTTCAAAAAATTTTCGTGGTAAAAATGAAATCTGTAATGTAAATTCATTG
AAATTTTGGCTTAAGGAGCTGTCAAAACAATTAAAAGAACGACTCGATTTAGATCATGCT
GAAAATGGTCGTGTTGCGAAGCAAATGACTGTTCAATTTACACAACATATTGAGAATAAA
GATGTGTCAAGTTCACGAGTATGTCAATTAAATGGAGGCACAGTTAATTCATTAAGTCTT
GATGAAATTGTACAGGAAACATTCAATACAATTGAACGAAATACAAGCAAATTATTGAGA
ATTGAGGGCAAATGCGTGCTAAATAATAATATAAAAAATTTAGGTATAACAGTAACGAAA
CTTGAAGACCAAAATGCACCTTCCACCAATAAAATTCAAAATTTATTGAAAAATCATGCA
AAAAAGTCACCAAAAGTAAAAGCTTCAACATCAAAAAGAACTCGTGTGAGTAATGTTACG
GAAAATATCGAAAACCCTAAAAACGATGAAAGCAACGCATATGAAGTAGAAAAAGATCAA
AAGATTATTCAGCAATATAGCAATGAAGACATTTTTTCTGAAATTGATAATCAACCAAGT
GAATTTGAATTAGTGGCCGGAAGTGAATTTTTCAAAGATTTCATTAAAGGTGAGAAGACT
TTACGACACTGGCTTCAGCAAATTTTAATTAAACTCAATGAAGATATTCGAGAGAAATGT
TCAAAGGAAAAGGTTGGGCCTAAAAATATTCAACTACTATGGCGACAATTAATTGGTAAT
GATGAAAGAAACTTCGCAGAAACAATCCCTTTGAATATATTCACAAACAATTCCATCAAA
GTAGAATTTCTTTATAATGTTATGAATGATTCAACTAAAGAATTTTCCACAAACGAAATT
TTAAATCCAATTAGTTTGATTGAAATTAAGGCAATCGACTTTGAAACAAGACACTCGGAA
TGGAATTTAACAGTCGAAAAGTCAATCTATGAGAATGAGGTAGTGGAGGAAAATGAAGAA
ACTTATTCAACAGAAAATAAAGAAGAAGAGGAAGAGGGTAAAACGCAAATAGAACATGAC
ATTGTAAAACACAATATTCAGGGAAATAGTCGAGAGAATGACATTGAAATGGATTTGCAA
AATGACATTGAACCTTATTTGAATAATCAGGAAACAAAACAAGACAATATTGACAATGAT
GAAGACCTTAAAGAGCTAGAAAATGCATATCAAAGTTTCAGTAACGAAATTGATAACCCT
CCATTGAATAATATTGAAGAGAATTTGAAAACTGATTCAGATCAATTGAATGATACTGTG
ATAGATATAAAAACAGATGATGCTAAGAGCATGCCATGTATTAAAGTAAAAAGTGCAGAA
GAGTTAGGAGTCGCTAGTACCTCATATATGCAAACGTATGCAGAATTTCAACAAAATCCA
ATCATAGATACATTGAATCCACTTGAAGAATGTTTAGAATGTGGAAAGATGATAAGAAAA
TTCGATATGCTTACTCATATTGATGGTCACATTGCAATGCAAATTTCTATGTCACAACGT
GAAGAGTATCGAGCCGAGCAAAAACGAAAGTTATTAAACCAAACAATTGTAAAGAGTGCG
AAAAAGAGTATAGACAAAGCTACTAAATCAAAAATAAATATCAGTAGTCTGTCAATTGAA
AAATTTGTGAAGAAACCACATCAGGATGAAAATTTAGAAGTATCAAATGAAAAAGAATTA
TGTTTAGAATGCAACACATTAATTTCAAAAGAAGACATCATCACACATCAAGATTATCAT
TTTGCGCAAAAACTGAGAATGGAGCAGCTAAAATCAACAACAATTACAAAAAAAACACCT
GGTACTTCAAAAAATAAAAGACCGCTTACTCAAAATGATAATAAAAAGGTAAAAAGTTTA
AGAGCGTATTTTACAGAATAG

>g13083.t1 Gene=g13083 Length=946
MDCFYCQVEELLDEKLRGQPIAVVQYVENAGIIAVNYKARAMGVTRHMREKEAKAVCSSL
VCVKVPSKYNKADISKYKEAGKRVADVFEKFTKNLERASIDEAYLDITENVAARMLEMRQ
KKFSLQPHHLFNTYAVGYDNIGQFIKDVSSTVDINLESSDHETQALQSSKLRLLLGASIV
SDIRKAVKEETGYECSAGIAMNKILAKLVCGMNKPNKQTLLPIDSIPKFFDTLDISKIKG
MGGKIGEDVCKKLNVKKMNDLLVYQESELQKNFGARIGSFLYLIARGIDLEKVERKVMNK
CIAVSKNFRGKNEICNVNSLKFWLKELSKQLKERLDLDHAENGRVAKQMTVQFTQHIENK
DVSSSRVCQLNGGTVNSLSLDEIVQETFNTIERNTSKLLRIEGKCVLNNNIKNLGITVTK
LEDQNAPSTNKIQNLLKNHAKKSPKVKASTSKRTRVSNVTENIENPKNDESNAYEVEKDQ
KIIQQYSNEDIFSEIDNQPSEFELVAGSEFFKDFIKGEKTLRHWLQQILIKLNEDIREKC
SKEKVGPKNIQLLWRQLIGNDERNFAETIPLNIFTNNSIKVEFLYNVMNDSTKEFSTNEI
LNPISLIEIKAIDFETRHSEWNLTVEKSIYENEVVEENEETYSTENKEEEEEGKTQIEHD
IVKHNIQGNSRENDIEMDLQNDIEPYLNNQETKQDNIDNDEDLKELENAYQSFSNEIDNP
PLNNIEENLKTDSDQLNDTVIDIKTDDAKSMPCIKVKSAEELGVASTSYMQTYAEFQQNP
IIDTLNPLEECLECGKMIRKFDMLTHIDGHIAMQISMSQREEYRAEQKRKLLNQTIVKSA
KKSIDKATKSKINISSLSIEKFVKKPHQDENLEVSNEKELCLECNTLISKEDIITHQDYH
FAQKLRMEQLKSTTITKKTPGTSKNKRPLTQNDNKKVKSLRAYFTE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g13083.t1 Coils Coil Coil 632 652 -
15 g13083.t1 Coils Coil Coil 689 709 -
10 g13083.t1 Gene3D G3DSA:3.30.70.270 - 1 223 2.8E-75
11 g13083.t1 Gene3D G3DSA:2.30.40.20 - 3 72 2.8E-75
12 g13083.t1 Gene3D G3DSA:1.10.150.20 5’ to 3’ exonuclease 235 291 5.0E-18
13 g13083.t1 Gene3D G3DSA:3.30.1490.100 - 293 423 3.8E-24
21 g13083.t1 MobiDBLite mobidb-lite consensus disorder prediction 636 656 -
20 g13083.t1 MobiDBLite mobidb-lite consensus disorder prediction 914 928 -
22 g13083.t1 MobiDBLite mobidb-lite consensus disorder prediction 914 935 -
4 g13083.t1 PANTHER PTHR45873:SF1 DNA POLYMERASE ETA 1 481 3.1E-139
6 g13083.t1 PANTHER PTHR45873 DNA POLYMERASE ETA 1 481 3.1E-139
5 g13083.t1 PANTHER PTHR45873:SF1 DNA POLYMERASE ETA 514 945 3.1E-139
7 g13083.t1 PANTHER PTHR45873 DNA POLYMERASE ETA 514 945 3.1E-139
18 g13083.t1 PIRSF PIRSF036603 DNA_pol_eta 1 504 2.3E-148
16 g13083.t1 PIRSF PIRSF036603 DNA_pol_eta 509 676 4.0E-5
19 g13083.t1 PIRSF PIRSF036603 DNA_pol_eta 636 867 1.7E-6
17 g13083.t1 PIRSF PIRSF036603 DNA_pol_eta 864 945 7.5E-4
1 g13083.t1 Pfam PF00817 impB/mucB/samB family 1 210 2.2E-44
2 g13083.t1 Pfam PF11799 impB/mucB/samB family C-terminal domain 299 426 2.4E-8
3 g13083.t1 Pfam PF18439 Ubiquitin-Binding Zinc Finger 880 907 3.1E-7
24 g13083.t1 ProSiteProfiles PS50173 UmuC domain profile. 1 242 34.042
23 g13083.t1 ProSiteProfiles PS51907 Zinc finger UBZ3-type profile. 874 908 14.907
8 g13083.t1 SUPERFAMILY SSF56672 DNA/RNA polymerases 1 291 1.6E-67
9 g13083.t1 SUPERFAMILY SSF100879 Lesion bypass DNA polymerase (Y-family), little finger domain 298 422 7.77E-11

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:0006281 DNA repair BP
GO:0003684 damaged DNA binding MF

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.

Raw TPM values