Gene loci information

Transcript annotation

  • This transcript has been annotated as RING finger and CHY zinc finger domain-containing protein 1.

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 g9371 g9371.t7 TTS g9371.t7 2286391 2286391
chr_1 g9371 g9371.t7 isoform g9371.t7 2287041 2288089
chr_1 g9371 g9371.t7 exon g9371.t7.exon1 2287041 2288089
chr_1 g9371 g9371.t7 cds g9371.t7.CDS1 2287051 2287722
chr_1 g9371 g9371.t7 TSS g9371.t7 2288762 2288762

Sequences

>g9371.t7 Gene=g9371 Length=1049
TTTTTATTTGCTTATGTCTGATGATTTTCACATTTAAAGGACGAAATTTGAATAAATTTA
AATAACCAAATGGATTTTTTGTTATGGAAATTTTCATTATAAGATAAAGGGATTCTCAAT
TTATTAATTTACTAAACCAAAACAACAATTTAATGCCTATTTATTACACGCGAGCGAATG
AACGAGAGAGGAGACTTAATCATTTGCGACGTCATTTGTTCGACAAGATCCCATTGAGAA
GATTTTTTTTTGTACATGTACATCTTGTCTCACTCATGTTCTTCTTTCTTTTTTTCATCA
ATTTAATATGTGTATATATGAACGTTGTCGCCGTTGCTACACAAAAATGAAAAAATTACA
CATATATATGCAGAGTCCATGCTGTGGAAAAATTTATGTGTGCCGCTATTGTCACGATGA
TAATGAAGATCACACATTTAATAGAAAGAATGTGACACAACTAATCTGTACAGAATGTGA
TACACGACAAAAAGTGCAAATGAACTGCGAAAAATGTGGAATAAGATTTGGCCGATATAC
CTGCCTCATTTGTAATTTATTTGATGATGACGATAAAGCCCAATATCACTGCGATCTTTG
TGGAATATGCAGAGTTGGAGGAAAAGATCGTTTTTTTCACTGTGAAGTCTGCAATATGTG
TTTACCTATTCAGCTAAAAACAGATGGTCATCGATGCGTTGAAAACGTGTCAAGATCAAA
TTGTGCTGTGTGTCTTGAGGACATTCATACTTCTAGGATTCCTTGTCACATACCCTCATG
TGGGCATTTACTTCATCGAACTTGTTTCGAACAACTTCTTTGTTCGGGTTATTATGCATG
TCCAACGTGCCAGCAATCAATGCTCGATATGAAACAACTTTGGAATTATCTCGATAATGA
AGTTATTATTACTCCAATGCCGAAAGAGTACGAAAATTTTTATGTTGACATTTTGTGCAA
AGATTGTCATCAAGTGAGTGAAATAAAATTTTTGATTTTAAAAAAAATATTGAATGAAAT
TACTTTTTTAATTTTTTAGGAATCAAATG

>g9371.t7 Gene=g9371 Length=223
MQSPCCGKIYVCRYCHDDNEDHTFNRKNVTQLICTECDTRQKVQMNCEKCGIRFGRYTCL
ICNLFDDDDKAQYHCDLCGICRVGGKDRFFHCEVCNMCLPIQLKTDGHRCVENVSRSNCA
VCLEDIHTSRIPCHIPSCGHLLHRTCFEQLLCSGYYACPTCQQSMLDMKQLWNYLDNEVI
ITPMPKEYENFYVDILCKDCHQVSEIKFLILKKILNEITFLIF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g9371.t7 CDD cd16464 RING-H2_Pirh2 118 162 0.0000
9 g9371.t7 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 112 163 0.0000
3 g9371.t7 PANTHER PTHR21319:SF20 RING FINGER AND CHY ZINC FINGER DOMAIN-CONTAINING PROTEIN 1 2 212 0.0000
4 g9371.t7 PANTHER PTHR21319 RING FINGER AND CHY ZINC FINGER DOMAIN-CONTAINING PROTEIN 1 2 212 0.0000
2 g9371.t7 Pfam PF05495 CHY zinc finger 2 64 0.0000
1 g9371.t7 Pfam PF14599 Zinc-ribbon 166 211 0.0000
12 g9371.t7 ProSiteProfiles PS51266 Zinc finger CHY-type profile. 1 52 18.6280
11 g9371.t7 ProSiteProfiles PS51270 Zinc finger CTCHY-type profile. 54 118 30.6270
10 g9371.t7 ProSiteProfiles PS50089 Zinc finger RING-type profile. 119 162 11.0580
8 g9371.t7 SMART SM00184 ring_2 119 161 0.0059
7 g9371.t7 SUPERFAMILY SSF161219 CHY zinc finger-like 2 54 0.0000
5 g9371.t7 SUPERFAMILY SSF161245 Zinc hairpin stack 55 112 0.0000
6 g9371.t7 SUPERFAMILY SSF57850 RING/U-box 118 174 0.0000

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:0008270 zinc ion binding MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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