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.t11 TSS g1896.t11 13734218 13734218
chr_3 g1896 g1896.t11 isoform g1896.t11 13734316 13736582
chr_3 g1896 g1896.t11 exon g1896.t11.exon1 13734316 13734388
chr_3 g1896 g1896.t11 cds g1896.t11.CDS1 13734316 13734388
chr_3 g1896 g1896.t11 exon g1896.t11.exon2 13734842 13735043
chr_3 g1896 g1896.t11 cds g1896.t11.CDS2 13734842 13735043
chr_3 g1896 g1896.t11 exon g1896.t11.exon3 13735198 13735345
chr_3 g1896 g1896.t11 cds g1896.t11.CDS3 13735198 13735243
chr_3 g1896 g1896.t11 exon g1896.t11.exon4 13735410 13736582
chr_3 g1896 g1896.t11 TTS g1896.t11 13736528 13736528

Sequences

>g1896.t11 Gene=g1896 Length=1596
ATGAAGAACTATGGCATAGCTCTTGCTTTATTGTGCATTTTGAGTGCTCAATTAGTATAT
TCGGCTCCGAATACTATTGATTTATCAATGAATGTAGAACAAAAGGCACCTAAAGTTACC
ACTGAAGCTCCTATTGAAATTTCGGTTTCAATTATGACTTCAGAAACTCCAAAAAAAGAT
GAACAAGTTACACAGATCCCAATTGTTGTTGGAACTGAAATATCAGTAGTAAAGGATCAG
GAACAAAAATCAGTTGACGATAGTGACAACATTTCCTTCGACCACATCAACAACAAGTGT
TTCTCCTCCAAATTCCGATAATACAACAACTACAAGTACCACTACTTCAACCACCACAAC
AACAACACTTGCTCCTGTTCCAGATACTACAACCACTGCTCCAACTACATCCACGACACC
AACTCCTCTTCCAACAACTACAAAGCCAACTCCTGCACCAGACCATGATCGCTCGCAATT
TTCAGTTACTGCTTTCATTGGAGGAATGGTGTTTGCTTTTGGTATGATGGCAATTGGTTT
CATTGCTTTTAAGTTCTACAAGGCTCGAAATGAGCGTAATTATCACACTTTGTAAAGAGA
GCTAATCGGAATGGATTACACAACACCTTAATCCATTTTCAATGTAAGAAGCCATTTATT
AATCAATCTCAAGTGATTTTCCATCGAATATCTTACATATTTTCTTTTTAATCAAAACTT
AATAATCTCGTAATGCTTTTTATATATTTAAATTCTGTTTATTTTTTTAATTTGTCGTAT
GATAACGAGATTATCCTATTATTGAATTCTTTTAATATGTCACTATTTTCTAAACAGTTT
ATTCCTATCTAAAGAAATTACACTTACTTATCGATTAGATTTCTACGTAATATATCTCAT
TTACTTTATTTGATTGATGTTGCAATATAAGGCAGAAGAAAAGCAGCTGAACATAAATTT
TTCATATCATATAAAAATGTAATCTCAAAATTTAGTAGGAAGAACAAGAATAAATATGTA
AGTAATAAATACTATGCGTGTATGTAAAGATTATGAAAACGATAGCTATAAAATTCTGAA
ATGCTAAACTATAAGTAATAAGGCAGGTTCTGTTTCACCTAAGAAATAATCTGCTATTCA
AAATTGATAGCTTACTTGTGAAAATTAAGATTTTGCTATGGATAAGATATAATCGATGAT
TGTATGTGAAAAGATGCAATTAAAGCCATTAAATAAATATTATCTCTAATAAACCAAGTC
TGATTAAAAGATGGTAAAGAAAAATGTGAAGTGCTCTTTTAAAAATAAAATTCAAAAAAA
AAAAAATATTTATGACGAAATGATAAAAAATCTGAAATATTTAAAAGATTTTGAAAGAAA
TATAATAAAAAAGATGTAAATTTTAAATTGATTTATTTTTTCAATAATAATATTACCTAT
ATAACCATTAAGCTTTTTTGATGTGTAAAAGAATAATATTTAAGCGTTATAAATATATAA
CATACTTTAAGTCATGAATAAAGAAGTTAAAATAAAACAAGATTGGTAATTTTCAAAAGA
TTTTTCTCTTTTTTTCATATGTGTATGAAAAAATTT

>g1896.t11 Gene=g1896 Length=106
MKNYGIALALLCILSAQLVYSAPNTIDLSMNVEQKAPKVTTEAPIEISVSIMTSETPKKD
EQVTQIPIVVGTEISVVKDQEQKSVDDSDNISFDHINNKCFSSKFR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g1896.t11 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
6 g1896.t11 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
7 g1896.t11 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 16 -
8 g1896.t11 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 21 -
4 g1896.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 106 -
3 g1896.t11 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -
1 g1896.t11 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 21 -
2 g1896.t11 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 21 -

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