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.t1 isoform g10555.t1 10454793 10456402
chr_1 g10555 g10555.t1 exon g10555.t1.exon1 10454793 10456245
chr_1 g10555 g10555.t1 cds g10555.t1.CDS1 10454793 10456245
chr_1 g10555 g10555.t1 exon g10555.t1.exon2 10456305 10456402
chr_1 g10555 g10555.t1 cds g10555.t1.CDS2 10456305 10456402
chr_1 g10555 g10555.t1 TSS g10555.t1 10456493 10456493
chr_1 g10555 g10555.t1 TTS g10555.t1 NA NA

Sequences

>g10555.t1 Gene=g10555 Length=1551
ATGAGTGGTGAAAAGAGAAAAATTCCTGACTGGATGAGAAAAAATAATTCAAAAAAGACT
GACGATTTAAAAGAAGAACCAACTAAAAAACTTCCCAAAACTTCAAGTTTTTCATGGAAA
CCCGTTGAATATGGAGGAAAAATTGAATACATGTTTCAATATGATGAAATTGAAGAAGCA
TTTACTGAAATTAATAAGAATATTTTTAAGCGTGTAGCAAATCCAGATGAAAAAATTCCA
GTTGCTTTTGATCTTGAGTGGAATTTCAATTTTTTGACTCAGAAAAAATATAAGACGGCA
GTTATGCAAATTTGTATTGATTTAGACAAGTGCTATGTATTACAAGTGTTTAAATTCAAC
AATTTGCCTCAATCTCTATTAGATTTTCTATTTAATGAGAAAATATTACTACACGGATTA
AATATAAGCATGGATATTGAAAAACTCAATGAAGATTTTCCTGAAACAAAAGCAGGACTA
TTGTTATCGAAATGTATTGATTTGCGAGATTATTATAATCAAGTTTTTAACAATAACACT
TTTTGGAGTCTTGCATCTTTATGCGGTCAAACGCTGAATTTGCAAATGAGCAAAAAGTTA
AGAATTAGTAATTGGCAATCGACATTATCTCATGATCAAAAATTGTATGCTGCTATTGAT
GTATATATTGGTCAAAGAATCTATTATCATATACGTGATAAACAAAGAAGTAATGAAAAA
ATTTATGATGAGAAGTTTGGTAAAAAAAGTGATCACATGCTAGCTCAGAGATCAGATGAA
CGCGTTCAAAAATGTGACTCAGAAGTGTTTACATACAAATTTGATAATCTAAAAGATTTA
AAAATGATTGATTACAAAGGAAAAATTCATTATTTGATAGATTTTATAACTGTCGCTGAG
ACTTTTGATCGACTTAATTCTGAAATTAATAAAATGGCCGAATCACTGGAGACGAATGAA
AAAATTCCTGTTGCTTTTGATATGGAATGGTCGTTTGATTATAAATCGGGAGCGGGTAAA
ACTGCTGTAATACAAATATGCTATGATGTGAAGGAATGTTATGTTGTACATATGTCAAAA
GTTCAAAGAGTACCTGCAGCATTAACAATTTTTCTTAAGAATGAACATATAGTTTTACAT
GGAGTCAACATTAAAAATGATTTTCGCAAACTAGAACGCGATTTTCCATGCATCAAGGCA
GATCCTTTAATTGAAAAATGCGTCGATCTTCGAACTTATTATAATGATGTTTTCAATAGT
AGTGAAAAGTGGAGTTTACAGACATTATGCGCTCATACACTTAAAGCAAATATGGATAAA
TCTCGAAATGTTAGAATGAGTAAATGGGATTACTCGAAATTATCTCAAAAACAACTTTTA
TATGCTAGTATTGATGTTTATGTTGGACAATTGATCTATCTGTTCATTAATTCTAAGGAA
AAAGAAAACTCGAATAAGTACACTGGCTTCTTTACTGTATATGAAGAACTCGAGAAATCA
GCAATGAGTAATAATTTAAACGATGATATCAATGCCTTGATGAACTCATAA

>g10555.t1 Gene=g10555 Length=516
MSGEKRKIPDWMRKNNSKKTDDLKEEPTKKLPKTSSFSWKPVEYGGKIEYMFQYDEIEEA
FTEINKNIFKRVANPDEKIPVAFDLEWNFNFLTQKKYKTAVMQICIDLDKCYVLQVFKFN
NLPQSLLDFLFNEKILLHGLNISMDIEKLNEDFPETKAGLLLSKCIDLRDYYNQVFNNNT
FWSLASLCGQTLNLQMSKKLRISNWQSTLSHDQKLYAAIDVYIGQRIYYHIRDKQRSNEK
IYDEKFGKKSDHMLAQRSDERVQKCDSEVFTYKFDNLKDLKMIDYKGKIHYLIDFITVAE
TFDRLNSEINKMAESLETNEKIPVAFDMEWSFDYKSGAGKTAVIQICYDVKECYVVHMSK
VQRVPAALTIFLKNEHIVLHGVNIKNDFRKLERDFPCIKADPLIEKCVDLRTYYNDVFNS
SEKWSLQTLCAHTLKANMDKSRNVRMSKWDYSKLSQKQLLYASIDVYVGQLIYLFINSKE
KENSNKYTGFFTVYEELEKSAMSNNLNDDINALMNS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g10555.t1 CDD cd06141 WRN_exo 76 232 2.20974E-43
15 g10555.t1 CDD cd06141 WRN_exo 296 474 1.79006E-49
10 g10555.t1 Gene3D G3DSA:3.30.420.10 - 37 245 5.3E-42
9 g10555.t1 Gene3D G3DSA:3.30.420.10 - 277 487 2.0E-43
18 g10555.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 33 -
19 g10555.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 31 -
3 g10555.t1 PANTHER PTHR13620 3-5 EXONUCLEASE 30 240 3.0E-120
5 g10555.t1 PANTHER PTHR13620:SF86 WERNER SYNDROME-LIKE EXONUCLEASE 30 240 3.0E-120
4 g10555.t1 PANTHER PTHR13620 3-5 EXONUCLEASE 276 485 3.0E-120
6 g10555.t1 PANTHER PTHR13620:SF86 WERNER SYNDROME-LIKE EXONUCLEASE 276 485 3.0E-120
1 g10555.t1 Pfam PF01612 3’-5’ exonuclease 66 233 7.5E-17
2 g10555.t1 Pfam PF01612 3’-5’ exonuclease 308 477 6.9E-18
12 g10555.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 458 -
13 g10555.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 459 476 -
11 g10555.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 477 516 -
16 g10555.t1 SMART SM00474 35exoneu6 48 236 1.3E-7
17 g10555.t1 SMART SM00474 35exoneu6 293 481 1.4E-7
8 g10555.t1 SUPERFAMILY SSF53098 Ribonuclease H-like 80 232 1.64E-25
7 g10555.t1 SUPERFAMILY SSF53098 Ribonuclease H-like 323 475 4.35E-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