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_3 g3847 g3847.t111 isoform g3847.t111 28350080 28358891
chr_3 g3847 g3847.t111 exon g3847.t111.exon1 28350080 28350370
chr_3 g3847 g3847.t111 exon g3847.t111.exon2 28350423 28350590
chr_3 g3847 g3847.t111 exon g3847.t111.exon3 28350649 28351033
chr_3 g3847 g3847.t111 cds g3847.t111.CDS1 28350657 28350971
chr_3 g3847 g3847.t111 exon g3847.t111.exon4 28351099 28351482
chr_3 g3847 g3847.t111 exon g3847.t111.exon5 28351539 28351770
chr_3 g3847 g3847.t111 exon g3847.t111.exon6 28358862 28358891
chr_3 g3847 g3847.t111 TTS g3847.t111 28359738 28359738
chr_3 g3847 g3847.t111 TSS g3847.t111 NA NA

Sequences

>g3847.t111 Gene=g3847 Length=1490
GAATTTAATAAATTTCAATCATATATATCAAAAAAAAATCATTCATGTGACTATTAATTT
TATTAATCAATTTACGGTGAAAGCAATTTTATGATTATTATATTAAATGTATGGAGATAC
TTAAATAATTCAAAAAAGTTAAGTTAAAATACACTTAAACCAAATCTGCTACATTCATAG
GCATCTCATCGATCTGCGTTGAATAGTATTGTTCAATATCTCTAAGAATCCTTATGTCGT
CTGATTTTACAAAATTAATGCCAACACCTTTGCGACCGAAACGACCTGAGCAAGTTAAAT
TTATCTACCTGTGAATATACAATTCTCTGTTGTTTGGTAGATCATAATTGATAACGAGAG
AAACTTGTTGAACATCAATACCTCTTGCCCAAACGTCAGTTGTGATTAAAACTCTTGTTT
GTCCAGATCGGAATTCTTTCATAATCTCATCACGTTCCTTTTGTGGCATGTCACCATGCA
TAGAACTGACAGTGAAATTTGCTTCACGCATTTTTTCAGTCAACCAATCGACTTTTCTCT
TTGTATTACAAAAAATGACTGCTTGTGTGATTGTCAGTGTATCGTATAAATCACACAGTG
TATCAAACTTCCATTCTTCTCTTTCGACAGCAACAAAAAACTGTTTGATACCTTCAAGTG
TTAATTCATCACGTTTTACAAGAATACGAATGGGATCCGTCATGAATTTGCTAGTCATTT
CCAGAATTTCGTGTGGTAATGTAGCAGAAATTAAACATACTTGTGTAGCTGGTGGCAAAT
AACGATATACATCATAAATTTGTTCTTTAAAACCTTTGTTTAACATTTCATCAGCTTCAT
CCAAACCAGCATTTTAATTGCACGAGTTCTCAGCACTCGACGTTTTATCATGTCAAAAAC
TCGACCTGGAGTTCCACTTACAACATGTTGACCATAATCTAATTTGCGAATATCTTCTCC
CAAATTTGTACCTCCAATACAAGCATGGCATTGAACGTTCATAAAATCTCCAAGAGCGAG
AATGACTTTTTGAATCTGTACGGCCAATTCGCGAGTAGGAGATAAGCAAAGAACTTGAGT
TTCACGAAGAGCCGTGTCTAATTTCTCTAAAATTGCGATTGAAAAAGTTGCGGTTTTACC
AGTACCGGATTGAGCTTGTGCTATTACATCGCGTCCCTTTACAATCGGTAAAATACTTCT
CTGCTGAATGGCTGATGGTTTCTCAAATCCATAAGCATATATTCCTCTTAAGAGTTCTTC
ACGTAATTTCATCGATTGAAATGTTGGAACAACTTCAACATCTTCACTTGTCTCAAATTC
AACATTTGATAAATCTTCCGTCACTGATTTTTTCGAAGTTGATGCCATTTTTGTTGCTTC
ACATACAAAAATTGTTTATATTGATAAAATAATTTCTTTTGCTTGTTATTTATATTTTTA
TATTAAAATTTATATTAAAAATATTAAATGATAAAAGATTATTAATAAAT

>g3847.t111 Gene=g3847 Length=104
MSPCIELTVKFASRIFSVNQSTFLFVLQKMTACVIVSVSYKSHSVSNFHSSLSTATKNCL
IPSSVNSSRFTRIRMGSVMNLLVISRISCGNVAEIKHTCVAGGK

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.

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