Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative IST1-like protein.

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 g6212 g6212.t3 isoform g6212.t3 15278793 15280878
chr_2 g6212 g6212.t3 exon g6212.t3.exon1 15278793 15279259
chr_2 g6212 g6212.t3 cds g6212.t3.CDS1 15279128 15279259
chr_2 g6212 g6212.t3 exon g6212.t3.exon2 15279324 15279368
chr_2 g6212 g6212.t3 cds g6212.t3.CDS2 15279324 15279368
chr_2 g6212 g6212.t3 exon g6212.t3.exon3 15279887 15280567
chr_2 g6212 g6212.t3 cds g6212.t3.CDS3 15279887 15280552
chr_2 g6212 g6212.t3 exon g6212.t3.exon4 15280755 15280878
chr_2 g6212 g6212.t3 TSS g6212.t3 15280963 15280963
chr_2 g6212 g6212.t3 TTS g6212.t3 NA NA

Sequences

>g6212.t3 Gene=g6212 Length=1317
ATGTTTTCTAGTGGACCTAATTACAATAAACTTAAAACCAATCTTAGGTTGGCAGTGAAT
CGATTAAAGTTACTTGAGAAAAAGAAAACAGAAACAAATCAAAAAGCAAGAAAGGAAATT
GCTGTACCTTGTAGAAGCAATGGAGATTTTAGAAATGTTTTGCGATTTAATTCTTGCAAG
ATTTGGATTGATAACGCAGTTAAAAGAACTTGATGAGGGAATTTCGGAAGCAGTTGCAAG
CATAATTTGGGTTGCACCTCGACTCATTTCTGATGTTCCTGAACTTAAAATCATTTCTGA
TCAGTTAACTTTGAAGTATGGCAAGGCTTATGCAGATGCATGTAGAGCTGCAGTTCCACC
ATCAAATGTTTCAGAGAAATTGCAGCATAAAATGTCGATTCAGGCTCCACCAAAATTATT
GGTTGAAAAGTATCTAATTGAGATTGCAAAAATCTTCAATATCGATTATGAGCCTGATCA
GAGTATAATGAAAGAAGATACAAGACCAGAAGGCTTTTTGATTGATTTTGGAAACAGTAA
CAATTTGGATGGCAACAATCCAGGAAATTTCCCACCGCAACCAGGTTTTTCGGGATATCC
TTTGCCTCCACAACTTCCAATTTTGCCCGGTCCTCCACCATTTAATTATCCAGCTCCATC
AAACTCATTCACAGGACCAAGTGCTCCTTTTAACTATAATATACCACCTATGCCTCAATC
GCAAATGCCACCACAATTACCACAACAACCAAATGCATCACATGGACAATCTGAAAAGAA
AGATTTGAATGTCAACTTTTTGAATTTTACTCCAAACATGGCGATGCCAAAACCTGCTCC
ACGTTCAAAGGTTTTGCCTGATGTACCAACAAATTTGCCGGATGTTCCAGCTGATGACGA
TAACAATGCTAATGTAGACGATTCTGAAATTGATTTTGATGATTTGTCAAGAAGATTCGA
AGAATTAAAGAAACGACATTAAATGGAAAAATTTTTAATTTGATTGATAACTAATCTATC
ACATAAAGTTTATTATTATCAAATGTTTATCCTTTTATTTACATATAAAATACATATTTC
GTTATTAACATTATCTTTTGGTAAATTTAAAATTTCTATGCGATGGATTCTATAATTTTA
TAAAAAGGGACAAAAAATATTTTTTAGAAATTAAAAATTTCTTTTCGCATAAAAATTTTA
AGCGTATTACAATACAGAATACAGCTTGATTCATATTTAAATAAAAACTTTAAATTATCT
TAATCAAATAATGTCTAATAAATTTCATAAACTAAAAAATTACAGCTAGAAACTTTA

>g6212.t3 Gene=g6212 Length=280
MEILEMFCDLILARFGLITQLKELDEGISEAVASIIWVAPRLISDVPELKIISDQLTLKY
GKAYADACRAAVPPSNVSEKLQHKMSIQAPPKLLVEKYLIEIAKIFNIDYEPDQSIMKED
TRPEGFLIDFGNSNNLDGNNPGNFPPQPGFSGYPLPPQLPILPGPPPFNYPAPSNSFTGP
SAPFNYNIPPMPQSQMPPQLPQQPNASHGQSEKKDLNVNFLNFTPNMAMPKPAPRSKVLP
DVPTNLPDVPADDDNNANVDDSEIDFDDLSRRFEELKKRH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g6212.t3 Coils Coil Coil 259 279 -
5 g6212.t3 Gene3D G3DSA:1.20.1260.60 - 1 122 5.5E-38
4 g6212.t3 MobiDBLite mobidb-lite consensus disorder prediction 228 266 -
2 g6212.t3 PANTHER PTHR12161:SF56 IST1 HOMOLOG 1 279 4.6E-51
3 g6212.t3 PANTHER PTHR12161 IST1 FAMILY MEMBER 1 279 4.6E-51
1 g6212.t3 Pfam PF03398 Regulator of Vps4 activity in the MVB pathway 1 109 6.7E-34

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:0015031 protein transport BP

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. There were no conditions that were differentially expressed