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 g2272 g2272.t12 TSS g2272.t12 16356194 16356194
chr_3 g2272 g2272.t12 isoform g2272.t12 16357126 16359306
chr_3 g2272 g2272.t12 exon g2272.t12.exon1 16357126 16358178
chr_3 g2272 g2272.t12 exon g2272.t12.exon2 16358237 16358465
chr_3 g2272 g2272.t12 exon g2272.t12.exon3 16358524 16358654
chr_3 g2272 g2272.t12 cds g2272.t12.CDS1 16358640 16358654
chr_3 g2272 g2272.t12 exon g2272.t12.exon4 16358718 16358860
chr_3 g2272 g2272.t12 cds g2272.t12.CDS2 16358718 16358860
chr_3 g2272 g2272.t12 exon g2272.t12.exon5 16358924 16359306
chr_3 g2272 g2272.t12 cds g2272.t12.CDS3 16358924 16359155
chr_3 g2272 g2272.t12 TTS g2272.t12 16359946 16359946

Sequences

>g2272.t12 Gene=g2272 Length=1939
ATTGTTTAAAAGGACTCTTTATTTCATGTTTTTTGTCTGCATGTTAATTATACAGTTATA
ATTTAAAATTTATTAAATTTTACATTTATCGGATGCATTCACTATTTATATTATCTGATT
ATAAATTAAACTTTTATTGTATTATTCTTTTTTCAAGAGCTTCTAACAACAACGTAATGC
AAGCATAAAGTAAAATTCAATTTTTCAAAAGATACATTGATTTTTATAGCAAGATAAAAA
TCGCTCTCGCTAGTCTTGTAATTTAGTAAATTTCCAATTCAAAAAAATTAAATTAAAAGA
AAAAATCAAAAAAAAAAATTAGAACAATGCGATGAAAACTTTGTTTTTATCATTACAACA
AATGTCTAATAGACAGTGTGAGATATGGGAATTATAAATAATTTCAAGCCCAACATCGCA
ATTAATTATTTATAAAAATCTGCATATAATATTGGCTCTTGTTTCATAAGCGAATCTTCA
TTAAAAATTTGATTTAATAACGACATCTTCATTCTTCGACAAAACGTTTTATCACTTTTG
TTTTGTGTTTATTTTCACGTATTTTGTGATTCTCATAAAAAGACAAAAAGAAGTGAGTCG
AAAAAAAAAAAAAAAATAGTATCATTCTATTGATCTGCCTTCTAATAACTATATATGCAG
GATGAAAGGAAGAGGGAGATTAAAGAGAAAGAAAAATATATACACTTTCACAGGTACGAT
TAATGAAACTTTCAAAAAATAAATGAAGAAAATCAATAGTTATTTTTTATGCATATATGC
ATTTTTGAATTTGGTGTTTAATTAATGAATGTGAAAGATTTTTTTGGTTCAAAGAAATAT
GAATCTCTTAGTACGTGTATAGTTAAAAATGATGCTGACGATGACTCTGTTTCTCTATAT
TTTAGCACTAATTACGCTTCACTTTAAATTGTGATGCGTACGTGTATGTATACGATCTTT
TCTGTCAATTTAATTTTATTCGACATATTCCCACCAGTCTTTATCATATCCTTCATTCAC
ATGATCTAGAAGCACTTTTCTTCGTTTTTCGCATTACCGATATTTGTCTTGTACTTTCTG
CTTAATGTCCGCCAAGTTTTCGCTTGTTATGTCTCTCTCGAGATATTCACTTAATTTTTC
AGTGGCAGATTCCAAATCTTTTTGATTATCTTCGAAAATCATTGATTGATTATTCTTTTT
CAGATAGTAAGCAAACACATAAGTGCACATGAGAGTTTGTCGGCATTGACATAAAATATC
TACAGCTTTCTTCAAAAATTGAACCTCAATCCATGACATGTTATGCTGTTGCATTTCTTC
CATCTTTACTTTAACTGAAGCGTAAAGCTTGTGTTCGAATTTCAGTGATTGCATGTGATT
CATGTAGCGATTGTAGTAATGCAAGTATCTAAACCAATGAAGATCTTAATTTCTCTTGTG
CATCACGAGCAACGCGTGCTTCGTCTTCATCATAACGATTACAATTATACCATGAACTTC
CATGTGGTTCCCAAGATCCCAAGCAAACCCAACAAAATTCGTGTTTACAGTTTTGATTTT
TATCTCACCATGTGGTTACATCCTCCATCCTTTTCAATAGTCACATTACATTTTGGACAC
TCTTTTGTATTGGCAGCAATCCAATTGGACGTTTCAGAATCATCATCACATTTTTTAATC
CACTTCCTAAGTAATCGACATTGCACAGGATCGTGCCATTGCTCACCGCATTCGAAACAG
AACACGTGTCCACATTTGCATTCTACAGGACGAGCTTCGACATACTGAACTTTAATAGCA
TAACTGCAATCAGCTGACGGACACCATCTCAATAAACGATTACACTCAACAAAACTATTT
GTTATCAATTGCTGATATTTCGTACGGACCCTTGGTTCAATCAATAAACTCATCACTGTT
GCATCATCCACCAGAATAT

>g2272.t12 Gene=g2272 Length=129
MQVSKPMKILISLVHHEQRVLRLHHNDYNYTMNFHVVPKIPSKPNKIRVYSFDFYLTMWL
HPPSFSIVTLHFGHSFVLAAIQLDVSESSSHFLIHFLSNRHCTGSCHCSPHSKQNTCPHL
HSTGRASTY

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.

Raw TPM values