Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein roadkill.

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_3 g1128 g1128.t7 TTS g1128.t7 8337214 8337214
chr_3 g1128 g1128.t7 isoform g1128.t7 8337327 8338549
chr_3 g1128 g1128.t7 exon g1128.t7.exon1 8337327 8337435
chr_3 g1128 g1128.t7 cds g1128.t7.CDS1 8337327 8337435
chr_3 g1128 g1128.t7 exon g1128.t7.exon2 8337495 8337967
chr_3 g1128 g1128.t7 cds g1128.t7.CDS2 8337495 8337967
chr_3 g1128 g1128.t7 exon g1128.t7.exon3 8338027 8338064
chr_3 g1128 g1128.t7 cds g1128.t7.CDS3 8338027 8338064
chr_3 g1128 g1128.t7 exon g1128.t7.exon4 8338126 8338340
chr_3 g1128 g1128.t7 cds g1128.t7.CDS4 8338126 8338132
chr_3 g1128 g1128.t7 exon g1128.t7.exon5 8338396 8338549
chr_3 g1128 g1128.t7 TSS g1128.t7 8338570 8338570

Sequences

>g1128.t7 Gene=g1128 Length=989
ATGGTAAATATTGCTTTGCATTTTATAATGTTAATAATAAAAAAAGAAATTAAATATCAT
TGCAGAACGACAAATTTAAGTTTTTTTTGTCATTTAATCAATCCAAGTTGGGATTAGGAA
AATTTGGAAATTTTAAAAACGATTATGGACTTTGGTTTATTCGTACTAATGGAAATCCTC
AATCATTCACTGGTACAATAGGTCTTGATCCTGCTTTTGACAAAAATTTAGTTGATTGGA
AGCAAATTGAAATTAATGTAAGATTGATTAAAAGTGCATTCAATCGTCACTCGGATACAA
TTGCCTCTGTAACTGCCCGTTATCTGGAAAAAAATATCTTTAAGTTCGGATTAACTAAAT
CAATGACAGGTGACTTGACTCAAATAAATTTTTCTTGTATTGTCGAGATCAATATGCCAA
TCATTTTAAACAATAAAAAAAATAGCAAACGTGATGGTGCAAAAAATCATTTAAAGTCTA
TGTTTGAATCAGGAAATGATGCTGATATCACAATTATGTCAGAAGGAAAAGAGCTCAAAG
TTCATAATTTCATTTTAAAACGATCAGAAGTTTTTTCGAAAATGTTTAGTGGTGAAATGA
AGGAATCTCGAAATAGAATCGTAGTTATTGAAGACATCAAACACGAAGTGATTGTTGAAA
TGTGCCGATATTTATATTACGATGAAATTCCTAAAATTAAATCACTTGCTCTTCCTTTAT
TAGTTGCTGCTTCAAAATATTTAATCGATGATTTAGTTGAAGAATGTGAAGATTTTTTGA
TGACAAACATTACTCTTGACAATTATCATGAGGTTATAGTAATTGCTGATCAACTTAATA
AGGAAAAGTTGCGAGAAGCTGCTATTGATTATATTATTACCAATTGTAAATCAATTTTCC
CGTCTACTGCTTGGAAGGAATTAAAAACTAGTCACGTGCAACTTGCATTGACTGTCATGG
AAAAATTTATGTTAACTTTTCAACTATGA

>g1128.t7 Gene=g1128 Length=208
MTGDLTQINFSCIVEINMPIILNNKKNSKRDGAKNHLKSMFESGNDADITIMSEGKELKV
HNFILKRSEVFSKMFSGEMKESRNRIVVIEDIKHEVIVEMCRYLYYDEIPKIKSLALPLL
VAASKYLIDDLVEECEDFLMTNITLDNYHEVIVIADQLNKEKLREAAIDYIITNCKSIFP
STAWKELKTSHVQLALTVMEKFMLTFQL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g1128.t7 Gene3D G3DSA:3.30.710.10 Potassium Channel Kv1.1; Chain A 24 137 0.00
6 g1128.t7 Gene3D G3DSA:1.25.40.420 - 142 206 0.00
2 g1128.t7 PANTHER PTHR24413:SF213 FI01029P-RELATED 24 202 0.00
3 g1128.t7 PANTHER PTHR24413 SPECKLE-TYPE POZ PROTEIN 24 202 0.00
1 g1128.t7 Pfam PF00651 BTB/POZ domain 37 141 0.00
8 g1128.t7 ProSiteProfiles PS50097 BTB domain profile. 47 113 13.86
5 g1128.t7 SMART SM00225 BTB_4 47 143 0.00
4 g1128.t7 SUPERFAMILY SSF54695 POZ domain 33 141 0.00

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:0005515 protein 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