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 g1896 g1896.t4 TSS g1896.t4 13734218 13734218
chr_3 g1896 g1896.t4 isoform g1896.t4 13734316 13736017
chr_3 g1896 g1896.t4 exon g1896.t4.exon1 13734316 13734388
chr_3 g1896 g1896.t4 exon g1896.t4.exon2 13734842 13735043
chr_3 g1896 g1896.t4 exon g1896.t4.exon3 13735107 13735130
chr_3 g1896 g1896.t4 cds g1896.t4.CDS1 13735115 13735130
chr_3 g1896 g1896.t4 exon g1896.t4.exon4 13735198 13735345
chr_3 g1896 g1896.t4 cds g1896.t4.CDS2 13735198 13735345
chr_3 g1896 g1896.t4 exon g1896.t4.exon5 13735410 13736017
chr_3 g1896 g1896.t4 cds g1896.t4.CDS3 13735410 13735581
chr_3 g1896 g1896.t4 TTS g1896.t4 13736528 13736528

Sequences

>g1896.t4 Gene=g1896 Length=1055
ATGAAGAACTATGGCATAGCTCTTGCTTTATTGTGCATTTTGAGTGCTCAATTAGTATAT
TCGGCTCCGAATACTATTGATTTATCAATGAATGTAGAACAAAAGGCACCTAAAGTTACC
ACTGAAGCTCCTATTGAAATTTCGGTTTCAATTATGACTTCAGAAACTCCAAAAAAAGAT
GAACAAGTTACACAGATCCCAATTGTTGTTGGAACTGAAATATCAGTAGTAAAGGATCAG
GAACAAAAATCAGTTGACGATAGTGACAACATTTCTACTCCAGATGATACAACAAGTAAC
TTCGACCACATCAACAACAAGTGTTTCTCCTCCAAATTCCGATAATACAACAACTACAAG
TACCACTACTTCAACCACCACAACAACAACACTTGCTCCTGTTCCAGATACTACAACCAC
TGCTCCAACTACATCCACGACACCAACTCCTCTTCCAACAACTACAAAGCCAACTCCTGC
ACCAGACCATGATCGCTCGCAATTTTCAGTTACTGCTTTCATTGGAGGAATGGTGTTTGC
TTTTGGTATGATGGCAATTGGTTTCATTGCTTTTAAGTTCTACAAGGCTCGAAATGAGCG
TAATTATCACACTTTGTAAAGAGAGCTAATCGGAATGGATTACACAACACCTTAATCCAT
TTTCAATGTAAGAAGCCATTTATTAATCAATCTCAAGTGATTTTCCATCGAATATCTTAC
ATATTTTCTTTTTAATCAAAACTTAATAATCTCGTAATGCTTTTTATATATTTAAATTCT
GTTTATTTTTTTAATTTGTCGTATGATAACGAGATTATCCTATTATTGAATTCTTTTAAT
ATGTCACTATTTTCTAAACAGTTTATTCCTATCTAAAGAAATTACACTTACTTATCGATT
AGATTTCTACGTAATATATCTCATTTACTTTATTTGATTGATGTTGCAATATAAGGCAGA
AGAAAAGCAGCTGAACATAAATTTTTCATATCATATAAAAATGTAATCTCAAAATTTAGT
AGGAAGAACAAGAATAAATATGTAAGTAATAAATA

>g1896.t4 Gene=g1896 Length=111
MIQQVTSTTSTTSVSPPNSDNTTTTSTTTSTTTTTTLAPVPDTTTTAPTTSTTPTPLPTT
TKPTPAPDHDRSQFSVTAFIGGMVFAFGMMAIGFIAFKFYKARNERNYHTL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g1896.t4 MobiDBLite mobidb-lite consensus disorder prediction 1 70 -
6 g1896.t4 MobiDBLite mobidb-lite consensus disorder prediction 1 57 -
2 g1896.t4 PANTHER PTHR11337 MUCIN/PORIMIN 5 111 2.5E-21
3 g1896.t4 PANTHER PTHR11337:SF8 VISGUN, ISOFORM E 5 111 2.5E-21
1 g1896.t4 Pfam PF05283 Multi-glycosylated core protein 24 (MGC-24), sialomucin 10 111 2.7E-11
9 g1896.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 73 -
10 g1896.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 74 97 -
8 g1896.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 98 111 -
7 g1896.t4 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 21 -
4 g1896.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -

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

Pathway

  • This transcript belongs to the following pathways

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