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_4 g16433 g16433.t5 isoform g16433.t5 9421499 9422579
chr_4 g16433 g16433.t5 exon g16433.t5.exon1 9421499 9421563
chr_4 g16433 g16433.t5 exon g16433.t5.exon2 9421770 9422002
chr_4 g16433 g16433.t5 cds g16433.t5.CDS1 9421907 9422002
chr_4 g16433 g16433.t5 exon g16433.t5.exon3 9422056 9422289
chr_4 g16433 g16433.t5 cds g16433.t5.CDS2 9422056 9422289
chr_4 g16433 g16433.t5 exon g16433.t5.exon4 9422359 9422579
chr_4 g16433 g16433.t5 cds g16433.t5.CDS3 9422359 9422403
chr_4 g16433 g16433.t5 TSS g16433.t5 NA NA
chr_4 g16433 g16433.t5 TTS g16433.t5 NA NA

Sequences

>g16433.t5 Gene=g16433 Length=753
ACTTGTGACAAATAAAAAAATAAATAATTTAGATTTTTATTCTTCATCAAATGGTGGCAA
ACCAAATTCTTCAGGTCGGAAACAATTGAGTGATTTTAGAATTACTGTTGCATTTTTGAC
TTTAGTTTTTGAAATTCGATGATCAGGTACAGCAACGACTTGCATTCCAGCTGATAATGC
TGCTTGAACACCACTTGGTGAATCTTCAAAAACGAGGCACTTTTTCATTCTTAGGGCAAT
CATCAAATCTTTTAGCAGCAATTAAAAAAATGTCAGGTGCCGGTTTTCCATTCTTGACTT
CACAATCACTAGCGCCCATGACAATGTGGTTAAATTTTTTAAAAAGCTCTTTATGGTTCA
TTGTTTTCACCATAAACGCTTCTCTCGAGCTACTTGTGGCAATACAAATTGGTATCTTGT
TATTGAATAAATGTCGAATGAGACGATCAGCACCTCATCACAAACTTGACAATTTTGCAT
TAAAATTTTTGCTTCCGTTTTTGCAATTTCTTTGTATTCTTGCCATGTTATTGGAAGATC
ATAAGTGTTGACAATTTTTTTTGCAACATCATCAGCTTGAAGACCTAAGAGACTTTCTTT
GACTGCCCATGTATGAATTTTTGGAGGATTTGAAAAACGATTTAGGATGTTTTGAGTTAC
TTGAAATGCCAAAGTTTCTGTGTCTAAAATCAATCCATCAAGGTCAAAAATGCAATGTGT
AACAGGACGATATTTATAAAACGATCCGTTCAT

>g16433.t5 Gene=g16433 Length=124
MLLEHHLVNLQKRGTFSFLGQSSNLLAAIKKMSGAGFPFLTSQSLAPMTMWLNFLKSSLW
FIVFTINASLELLVAIQIGILLLNKCRMRRSAPHHKLDNFALKFLLPFLQFLCILAMLLE
DHKC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g16433.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 57 -
7 g16433.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 58 80 -
3 g16433.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 81 99 -
6 g16433.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 119 -
4 g16433.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 120 124 -
2 g16433.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
1 g16433.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 100 119 -

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