Gene loci information

Transcript annotation

  • This transcript has been annotated as Werner Syndrome-like exonuclease.

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 g10555 g10555.t2 isoform g10555.t2 10454793 10456245
chr_1 g10555 g10555.t2 exon g10555.t2.exon1 10454793 10456245
chr_1 g10555 g10555.t2 cds g10555.t2.CDS1 10454793 10456193
chr_1 g10555 g10555.t2 TSS g10555.t2 10456493 10456493
chr_1 g10555 g10555.t2 TTS g10555.t2 NA NA

Sequences

>g10555.t2 Gene=g10555 Length=1453
AACTTCAAGTTTTTCATGGAAACCCGTTGAATATGGAGGAAAAATTGAATACATGTTTCA
ATATGATGAAATTGAAGAAGCATTTACTGAAATTAATAAGAATATTTTTAAGCGTGTAGC
AAATCCAGATGAAAAAATTCCAGTTGCTTTTGATCTTGAGTGGAATTTCAATTTTTTGAC
TCAGAAAAAATATAAGACGGCAGTTATGCAAATTTGTATTGATTTAGACAAGTGCTATGT
ATTACAAGTGTTTAAATTCAACAATTTGCCTCAATCTCTATTAGATTTTCTATTTAATGA
GAAAATATTACTACACGGATTAAATATAAGCATGGATATTGAAAAACTCAATGAAGATTT
TCCTGAAACAAAAGCAGGACTATTGTTATCGAAATGTATTGATTTGCGAGATTATTATAA
TCAAGTTTTTAACAATAACACTTTTTGGAGTCTTGCATCTTTATGCGGTCAAACGCTGAA
TTTGCAAATGAGCAAAAAGTTAAGAATTAGTAATTGGCAATCGACATTATCTCATGATCA
AAAATTGTATGCTGCTATTGATGTATATATTGGTCAAAGAATCTATTATCATATACGTGA
TAAACAAAGAAGTAATGAAAAAATTTATGATGAGAAGTTTGGTAAAAAAAGTGATCACAT
GCTAGCTCAGAGATCAGATGAACGCGTTCAAAAATGTGACTCAGAAGTGTTTACATACAA
ATTTGATAATCTAAAAGATTTAAAAATGATTGATTACAAAGGAAAAATTCATTATTTGAT
AGATTTTATAACTGTCGCTGAGACTTTTGATCGACTTAATTCTGAAATTAATAAAATGGC
CGAATCACTGGAGACGAATGAAAAAATTCCTGTTGCTTTTGATATGGAATGGTCGTTTGA
TTATAAATCGGGAGCGGGTAAAACTGCTGTAATACAAATATGCTATGATGTGAAGGAATG
TTATGTTGTACATATGTCAAAAGTTCAAAGAGTACCTGCAGCATTAACAATTTTTCTTAA
GAATGAACATATAGTTTTACATGGAGTCAACATTAAAAATGATTTTCGCAAACTAGAACG
CGATTTTCCATGCATCAAGGCAGATCCTTTAATTGAAAAATGCGTCGATCTTCGAACTTA
TTATAATGATGTTTTCAATAGTAGTGAAAAGTGGAGTTTACAGACATTATGCGCTCATAC
ACTTAAAGCAAATATGGATAAATCTCGAAATGTTAGAATGAGTAAATGGGATTACTCGAA
ATTATCTCAAAAACAACTTTTATATGCTAGTATTGATGTTTATGTTGGACAATTGATCTA
TCTGTTCATTAATTCTAAGGAAAAAGAAAACTCGAATAAGTACACTGGCTTCTTTACTGT
ATATGAAGAACTCGAGAAATCAGCAATGAGTAATAATTTAAACGATGATATCAATGCCTT
GATGAACTCATAA

>g10555.t2 Gene=g10555 Length=466
MFQYDEIEEAFTEINKNIFKRVANPDEKIPVAFDLEWNFNFLTQKKYKTAVMQICIDLDK
CYVLQVFKFNNLPQSLLDFLFNEKILLHGLNISMDIEKLNEDFPETKAGLLLSKCIDLRD
YYNQVFNNNTFWSLASLCGQTLNLQMSKKLRISNWQSTLSHDQKLYAAIDVYIGQRIYYH
IRDKQRSNEKIYDEKFGKKSDHMLAQRSDERVQKCDSEVFTYKFDNLKDLKMIDYKGKIH
YLIDFITVAETFDRLNSEINKMAESLETNEKIPVAFDMEWSFDYKSGAGKTAVIQICYDV
KECYVVHMSKVQRVPAALTIFLKNEHIVLHGVNIKNDFRKLERDFPCIKADPLIEKCVDL
RTYYNDVFNSSEKWSLQTLCAHTLKANMDKSRNVRMSKWDYSKLSQKQLLYASIDVYVGQ
LIYLFINSKEKENSNKYTGFFTVYEELEKSAMSNNLNDDINALMNS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g10555.t2 CDD cd06141 WRN_exo 26 182 2.38671E-43
16 g10555.t2 CDD cd06141 WRN_exo 246 424 1.92738E-49
11 g10555.t2 Gene3D G3DSA:3.30.420.10 - 2 195 3.5E-40
12 g10555.t2 Gene3D G3DSA:3.30.420.10 - 227 437 1.6E-43
3 g10555.t2 PANTHER PTHR13620 3-5 EXONUCLEASE 23 190 9.8E-117
5 g10555.t2 PANTHER PTHR13620:SF86 WERNER SYNDROME-LIKE EXONUCLEASE 23 190 9.8E-117
4 g10555.t2 PANTHER PTHR13620 3-5 EXONUCLEASE 226 435 9.8E-117
6 g10555.t2 PANTHER PTHR13620:SF86 WERNER SYNDROME-LIKE EXONUCLEASE 226 435 9.8E-117
2 g10555.t2 Pfam PF01612 3’-5’ exonuclease 16 183 5.3E-17
1 g10555.t2 Pfam PF01612 3’-5’ exonuclease 258 427 5.5E-18
14 g10555.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 408 -
15 g10555.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 409 426 -
13 g10555.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 427 466 -
10 g10555.t2 SMART SM00474 35exoneu6 2 186 3.1E-7
9 g10555.t2 SMART SM00474 35exoneu6 243 431 1.4E-7
8 g10555.t2 SUPERFAMILY SSF53098 Ribonuclease H-like 30 182 1.39E-25
7 g10555.t2 SUPERFAMILY SSF53098 Ribonuclease H-like 273 425 3.49E-28

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:0008408 3’-5’ exonuclease activity MF
GO:0006139 nucleobase-containing compound metabolic process BP
GO:0003676 nucleic acid binding MF

KEGG

Orthology

Pathway

This gene does not belong to any 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