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_2 g8977 g8977.t12 isoform g8977.t12 34310775 34315040
chr_2 g8977 g8977.t12 exon g8977.t12.exon1 34310775 34310886
chr_2 g8977 g8977.t12 cds g8977.t12.CDS1 34310775 34310886
chr_2 g8977 g8977.t12 exon g8977.t12.exon2 34313832 34313894
chr_2 g8977 g8977.t12 cds g8977.t12.CDS2 34313832 34313894
chr_2 g8977 g8977.t12 exon g8977.t12.exon3 34313967 34314231
chr_2 g8977 g8977.t12 cds g8977.t12.CDS3 34313967 34314115
chr_2 g8977 g8977.t12 exon g8977.t12.exon4 34314981 34315040
chr_2 g8977 g8977.t12 TSS g8977.t12 34315042 34315042
chr_2 g8977 g8977.t12 TTS g8977.t12 NA NA

Sequences

>g8977.t12 Gene=g8977 Length=500
TGTAGCCGTCGGTTTAAGTCACAACAAGTTGTAACATTCTTCAATAAAGTTGAGAAAAGT
AAAGAGAGCAAGATAACCAAAAGGAAGTTACAGTTTGTTGTTACTGAAGAATAAATTATT
ATCTAGTGGTGTGTGCTTTAAAAAGGAGACGGAAAAAATATAGTTAATCAATCAAAATGC
AAGTCGATTTAGAATCAATCGGTAAATGGAATTATGACATCAGTGAAGTCAAACCAAATT
ATTCCTACATGTTTGACTTTGAGGCTCATTTCACTCATCAAAAAACTCGCCTTTGGATGC
AAGAAAATTGGACATATGTGTTTTGGTACTCGGGAATTTACATGATCGTAATATTTGCTG
GACAACAGTTTATGGCAAATAGACCGAGATTTGAACTAAGAGGACTTTTAGTATTGTGGA
ATTCAATGTTAGCATTATTCAGTATAATTGGTTTTACTCGTACAGCACCCGAATTAATTC
ACGTTTTAAAGAACTTCGGA

>g8977.t12 Gene=g8977 Length=108
MQVDLESIGKWNYDISEVKPNYSYMFDFEAHFTHQKTRLWMQENWTYVFWYSGIYMIVIF
AGQQFMANRPRFELRGLLVLWNSMLALFSIIGFTRTAPELIHVLKNFG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g8977.t12 PANTHER PTHR11157 FATTY ACID ACYL TRANSFERASE-RELATED 21 107 1.9E-21
3 g8977.t12 PANTHER PTHR11157:SF154 ELONGATION OF VERY LONG CHAIN FATTY ACIDS PROTEIN-RELATED 21 107 1.9E-21
1 g8977.t12 Pfam PF01151 GNS1/SUR4 family 40 105 2.9E-12
7 g8977.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 44 -
9 g8977.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 45 62 -
6 g8977.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 63 73 -
10 g8977.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 74 94 -
8 g8977.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 95 108 -
4 g8977.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 45 67 -
5 g8977.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 94 -

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:0016021 integral component of membrane 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.

Raw TPM values