Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative C16orf52-like protein.

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 g607 g607.t5 TTS g607.t5 4490128 4490128
chr_3 g607 g607.t5 isoform g607.t5 4490823 4491386
chr_3 g607 g607.t5 exon g607.t5.exon1 4490823 4491386
chr_3 g607 g607.t5 cds g607.t5.CDS1 4490823 4491206
chr_3 g607 g607.t5 TSS g607.t5 4491471 4491471

Sequences

>g607.t5 Gene=g607 Length=564
ATGGACAAATTTTCATTAATATCTGCTGGATTATTTTCAACTGCTGGCATTTGTGCTGTA
AGAGACATTAAAATATATTGAAATATGTCATTATGTTCTCAAAAATTTTTACTTTAGATA
ATTGCAATTTCAAGCAGTGAATGGATTGTTGAAGTTGGAAATAACTCTAAATATGGATTA
ATGTGGTCATGCTTGACATTAGTGAATAGAACCCATCAAATTTGTTACACACCTGTTCTT
TCTGTGGAATGGCTCATTACATTAATTTTAATTTTTCTCGGAATTATTTGCATTACGACA
GTTGTCATATTATTATTTGCAAGTCGATGGGACAGAAATGTGATTTTCTATGCTCGTTGG
ATTGGATTTACAGCAATGGTTGTTTTTTGTCTGGCAGCCGTTATTTTCCCTCTAGGATTT
TACATTGAAGAAATTAACGGAGCTCAATTTCAACTACCAAACAGTCATCAAGTTGGTATT
AGTTACATTTTCTTTATATTAGCACTTTGGATTACGGTCATATCAGAGCTTTTTGCTGGA
AAAATTTGTTTACCGCATTTTTAA

>g607.t5 Gene=g607 Length=127
MWSCLTLVNRTHQICYTPVLSVEWLITLILIFLGIICITTVVILLFASRWDRNVIFYARW
IGFTAMVVFCLAAVIFPLGFYIEEINGAQFQLPNSHQVGISYIFFILALWITVISELFAG
KICLPHF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g607.t5 PANTHER PTHR31186 MODULATOR OF SMOOTHENED PROTEIN 1 126 1.4E-47
1 g607.t5 Pfam PF18800 Attenuator of Hedgehog 1 125 2.5E-55
9 g607.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 23 -
12 g607.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 24 48 -
7 g607.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 49 59 -
11 g607.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 82 -
8 g607.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 83 101 -
10 g607.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 102 124 -
6 g607.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 125 127 -
4 g607.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 25 47 -
5 g607.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 60 82 -
3 g607.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -

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