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_1 g13260 g13260.t3 TSS g13260.t3 28833632 28833632
chr_1 g13260 g13260.t3 isoform g13260.t3 28833869 28842657
chr_1 g13260 g13260.t3 exon g13260.t3.exon1 28833869 28833873
chr_1 g13260 g13260.t3 exon g13260.t3.exon2 28837458 28837647
chr_1 g13260 g13260.t3 cds g13260.t3.CDS1 28837536 28837647
chr_1 g13260 g13260.t3 exon g13260.t3.exon3 28840991 28841044
chr_1 g13260 g13260.t3 cds g13260.t3.CDS2 28840991 28841044
chr_1 g13260 g13260.t3 exon g13260.t3.exon4 28841929 28841986
chr_1 g13260 g13260.t3 cds g13260.t3.CDS3 28841929 28841986
chr_1 g13260 g13260.t3 exon g13260.t3.exon5 28842055 28842345
chr_1 g13260 g13260.t3 cds g13260.t3.CDS4 28842055 28842345
chr_1 g13260 g13260.t3 exon g13260.t3.exon6 28842415 28842657
chr_1 g13260 g13260.t3 cds g13260.t3.CDS5 28842415 28842655
chr_1 g13260 g13260.t3 TTS g13260.t3 NA NA

Sequences

>g13260.t3 Gene=g13260 Length=841
GAGTGTAACGGCCACCAGACCATACCAATAGTTACAATAGTAGACAAACCCCATCAATTT
GATTAAATCATCGAAACACCGATATGTCAAATATTGACAAATGGATGAAATTATGGAAGG
CACTGTTCTGTGGTAGTTTCCTAATAACCATCATATGCGATCATCTTGGCACTGTTACGG
GTCAAGAGAATATCGGTTGCCTGTTTGCGGAGCAACTGTGTGTTCCACATCTAGAATGGT
GCTTTGATGATTTTGCATTTGGGAAATGTCTTCCATATTATGAATCAGATCCACAGCAAT
TTGAACGTGAGCCGCTGACGCAAGAGCAAGTCTCTATATTAAAACAAATGCTGCAGGAGC
TTCATGCTGCTGGTCTTGACTGGGATCATCCGTTCACTCAATGTCGCATGCAGAATGCCA
TGTTTGCAATGCGAAATCGAATCGATATGGAACGCGACGCTTGCGTGTCTTTGGCACCTC
CACCAATCATTCCGAAGTTTCTTGATCCAACCAATCCGCTCGCCTTCATACGATTCACAC
AGCCCATCATTGATCTTAACGATGAGTACATTTACCCGCCTTTGAAGAAATCTTACGAGT
ATGAAAATATCCCCAAAACTCCACACCATCGACAACAACAACAACAGCCATCAATGGAGC
AAATTCTATCATCACCTGACCAGTATGAATTTCTTCAACGCGAGTATAATGTACCACCAT
CAAATGAGATTATCGATCCAGCAGTAGAGAACGAAATGCTGAATGTACTTGAGCGAACGA
ATGATTTACAGAATCGTATTAGCGACATCAAAAATCGTATGGAATTGCATCGAATGTTGG
C

>g13260.t3 Gene=g13260 Length=252
MSNIDKWMKLWKALFCGSFLITIICDHLGTVTGQENIGCLFAEQLCVPHLEWCFDDFAFG
KCLPYYESDPQQFEREPLTQEQVSILKQMLQELHAAGLDWDHPFTQCRMQNAMFAMRNRI
DMERDACVSLAPPPIIPKFLDPTNPLAFIRFTQPIIDLNDEYIYPPLKKSYEYENIPKTP
HHRQQQQQPSMEQILSSPDQYEFLQREYNVPPSNEIIDPAVENEMLNVLERTNDLQNRIS
DIKNRMELHRML

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g13260.t3 PANTHER PTHR46106 IA-2 PROTEIN TYROSINE PHOSPHATASE, ISOFORM C 45 210 6.5E-22
2 g13260.t3 PANTHER PTHR46106:SF4 IA-2 PROTEIN TYROSINE PHOSPHATASE, ISOFORM C 45 210 6.5E-22
5 g13260.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 33 -
6 g13260.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 12 -
7 g13260.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 13 25 -
8 g13260.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 26 33 -
4 g13260.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 34 252 -
3 g13260.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 33 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0030141 secretory granule CC

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