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 g5087 g5087.t4 isoform g5087.t4 6823864 6828491
chr_2 g5087 g5087.t4 exon g5087.t4.exon1 6823864 6824499
chr_2 g5087 g5087.t4 cds g5087.t4.CDS1 6823864 6824499
chr_2 g5087 g5087.t4 exon g5087.t4.exon2 6828399 6828491
chr_2 g5087 g5087.t4 cds g5087.t4.CDS2 6828399 6828434
chr_2 g5087 g5087.t4 TSS g5087.t4 6828537 6828537
chr_2 g5087 g5087.t4 TTS g5087.t4 NA NA

Sequences

>g5087.t4 Gene=g5087 Length=729
ACTCAAAGAATTAAAATATCGTGAACCTTAAAGGTCATTAGAGAATAAACAAATAAAATG
TATCAAAATGTTCCTACTCATCATATGTCAAATAATTTCGCTACCGCTGATCGTCCACGA
TGCATGTTACGCGATGATTTTTATCCCAGACAGCGTCAATTGCCACAACAGCAACGGAAA
TATCGAAAATTTGATTATTACAGAGAGAATAATGATGAATTTGACGATGACAGCACATGG
TATTGGAATATGAACCAAAATCAATCAATCAATTGTAATGGATCGTCTTCAGTAAATGCT
AGAGGATCATATTACAACAATAACAATAAATATTATAATAAGCCTTCAGCTAGAAATGTT
TCATCTGCATCTTCTGAACGCTCATCGACTTCTGGTTTTCAGTCTTTTTTTCGCTGGTTC
AAACGTGACGATAAATCTCATAGAAATTCAAAAGACATTCGCTATCCACGCGATTTAACA
AGCTCAACAGATACACTTGAGTTTGAATATGAAAGACGTGCACCACCACCAGTTCAGTAT
CGTAAAAAAGTGAAGGGAGGATATCATAAAAATGAACCAACTGTGATCACACCACCTCAA
CAACCATCAAATTCTCACTTTAGCTATACATTTTCACAAAGTTCAAGTTGTGATAGTGTT
TTTAGTACGGCTTCTTCTTTTGCTTTTGTACCACCAATTAAATATTTACTCAACAGAAAC
CATAAGCAA

>g5087.t4 Gene=g5087 Length=224
MYQNVPTHHMSNNFATADRPRCMLRDDFYPRQRQLPQQQRKYRKFDYYRENNDEFDDDST
WYWNMNQNQSINCNGSSSVNARGSYYNNNNKYYNKPSARNVSSASSERSSTSGFQSFFRW
FKRDDKSHRNSKDIRYPRDLTSSTDTLEFEYERRAPPPVQYRKKVKGGYHKNEPTVITPP
QQPSNSHFSYTFSQSSSCDSVFSTASSFAFVPPIKYLLNRNHKQ

Protein features from InterProScan

No InterPro annotations for this transcript.

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5087/g5087.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5087.t4.fa.iupred3.txt does not exist

GO terms from InterProScan

There are no GO annotations for this transcript.

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