Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g6631 g6631.t5 isoform g6631.t5 17873965 17876174
chr_2 g6631 g6631.t5 exon g6631.t5.exon1 17873965 17874102
chr_2 g6631 g6631.t5 TTS g6631.t5 17873978 17873978
chr_2 g6631 g6631.t5 exon g6631.t5.exon2 17874162 17874295
chr_2 g6631 g6631.t5 cds g6631.t5.CDS1 17874177 17874295
chr_2 g6631 g6631.t5 exon g6631.t5.exon3 17874357 17874502
chr_2 g6631 g6631.t5 cds g6631.t5.CDS2 17874357 17874502
chr_2 g6631 g6631.t5 exon g6631.t5.exon4 17875894 17875953
chr_2 g6631 g6631.t5 cds g6631.t5.CDS3 17875894 17875953
chr_2 g6631 g6631.t5 exon g6631.t5.exon5 17876009 17876174
chr_2 g6631 g6631.t5 cds g6631.t5.CDS4 17876009 17876172
chr_2 g6631 g6631.t5 TSS g6631.t5 17876690 17876690

Sequences

>g6631.t5 Gene=g6631 Length=644
GTGATGCCGAAGATTCAGTTAGAGGATTAGATGGTCGAACAATTTGTGGACGCCGAGCAA
GAGTTGAATTGTCAACTGGCAAATCAGCACGCGGATTTCGTTCTAGAGGTGGCCGTGGGC
GTTCACCTAATCGTCGAGAAGATCGCTGTTACGAATGTGGAAATAGAGGTCATTTTGCTC
GTGATTGTCGTCGGCGTAATGGAGGAGGAAGTCGTCGTGGTGGCAGATCTCGAAGCCGCT
CTCGATCGCGTAGATCTCGTAGTCACTCGAGAGATCATAGATACAGTCGTTCACCAGCAG
ATCGAACAAGAGATCGCAGATCTCATTCAAGCGACCGTAGATCTGCTTCTGAACTTAGCG
AAACACGAAAAAAAAAACATAGTGACAAGTCATGGAAGAGTTCAAGGACAAATTCACCAC
AGTCAGATAGATCTCGAAGAAGTCGTTCCCAAGACACTCAAGCCTCCAATTCGGAACCGC
GTAAAGAGTGAAATGAGATTCATTCCGTTGGTAGTTACATCTTTAAGAACATCTAATAAT
TGCCGTATGACTTACGAGAAAAGTGACCTATTCATCAGTCATACATTATATAATATAAAT
TATAGTTTGAATAAATTGATTTATATTATATAAAAAAAAAATAT

>g6631.t5 Gene=g6631 Length=162
DAEDSVRGLDGRTICGRRARVELSTGKSARGFRSRGGRGRSPNRREDRCYECGNRGHFAR
DCRRRNGGGSRRGGRSRSRSRSRRSRSHSRDHRYSRSPADRTRDRRSHSSDRRSASELSE
TRKKKHSDKSWKSSRTNSPQSDRSRRSRSQDTQASNSEPRKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g6631.t5 Gene3D G3DSA:4.10.60.10 - 25 78 1.5E-7
7 g6631.t5 MobiDBLite mobidb-lite consensus disorder prediction 21 162 -
9 g6631.t5 MobiDBLite mobidb-lite consensus disorder prediction 39 68 -
10 g6631.t5 MobiDBLite mobidb-lite consensus disorder prediction 69 91 -
8 g6631.t5 MobiDBLite mobidb-lite consensus disorder prediction 92 127 -
6 g6631.t5 MobiDBLite mobidb-lite consensus disorder prediction 139 162 -
2 g6631.t5 PANTHER PTHR23147 SERINE/ARGININE RICH SPLICING FACTOR 1 116 1.1E-13
3 g6631.t5 PANTHER PTHR23147:SF18 SERINE/ARGININE-RICH SPLICING FACTOR 7 1 116 1.1E-13
1 g6631.t5 Pfam PF00098 Zinc knuckle 48 63 1.1E-5
12 g6631.t5 ProSiteProfiles PS50158 Zinc finger CCHC-type profile. 48 64 10.79
5 g6631.t5 SMART SM00343 c2hcfinal6 48 64 0.0017
4 g6631.t5 SUPERFAMILY SSF57756 Retrovirus zinc finger-like domains 33 69 1.29E-7

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:0008270 zinc ion binding MF
GO:0003676 nucleic acid binding MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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