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 g12103 g12103.t267 isoform g12103.t267 20941343 20942599
chr_1 g12103 g12103.t267 exon g12103.t267.exon1 20941343 20942171
chr_1 g12103 g12103.t267 cds g12103.t267.CDS1 20941344 20942171
chr_1 g12103 g12103.t267 exon g12103.t267.exon2 20942234 20942326
chr_1 g12103 g12103.t267 cds g12103.t267.CDS2 20942234 20942263
chr_1 g12103 g12103.t267 exon g12103.t267.exon3 20942431 20942599
chr_1 g12103 g12103.t267 TSS g12103.t267 NA NA
chr_1 g12103 g12103.t267 TTS g12103.t267 NA NA

Sequences

>g12103.t267 Gene=g12103 Length=1091
TGTTCGCATATATGCGAAAAAAATGCAACATGCCGATCAAGTTGATCAAATAATTAAAAA
ATTAAAATTAACTTCTTCAAACATAATTTTTAATAACAAAATTCAATATCTTACAGTAGA
TATCATTTACTGTCTAATTATCGTTCACAAAATCTGTCTATTTTTTAAGATTTTATTAAA
ATGTTACACATTAATTAAAAATTTATTGCATATTTTAAAATAATAGCACACGATGGCAAG
TGATACTAAGCAAAGACCTAAGGTCAAACCCAAAACTTTGACACTTTCGTTCAACAATGA
TGACATTATTGTAATTGAAGATTCTAACGATGTTCCTGTTAACTTGAATGGTACCTTTAT
CGATTTAACTGATGAAAATAGTAATAAACCAAATGATATTTCATCAGTTTATGGTAACGA
AAAGAAAAAGAGAACACTTGAATTTGATATGATGATAAGCAAAGACATTATAAATTTATC
GACTCATTTTCCACAAACAAATGTTTCTCAGGCAAAAATGATTGATTTTAACAATAATCC
GCAACCATCAACAAGTAAACAAGCGATCGCCGCTGATGCAGCATTGAAAGCTACTACTGC
GAAAAATTTAGAGCTTCGAAAGGCAAACACTTCTAGAAAAGCTTTAGAGTTGTCTTTGCA
TACGAGTGCTATTTTAAAAGAACTAAGCAATACGAACAATACAACTGATAAATCAGCATC
AACTTATCAAAAGTTACTTGAAATTGGCAAGAAAAGTCTTATTGAAAATCAAGAAGAGTT
TGTTTGCTCTCTTTGCAATGGATTCTGTACAAAAGGTATTGGAGTTACTTTAAAATATTG
TCTTCATTCATTTTGTCGACCTTGTCTTATACATACAATCAATACAAAGACTGAATATGG
TGCTGTGAAATGTCCACTACAAATAGAAAATGTAGAAAAGTGTGAATTCTTTATAGATGA
CGAAGAAATCAAAGAATTGTTAGGTGTGGATGGATATGCAGCATTCTTGCAAAATGTTAA
ATTGACAATGGAGGAGATCGCTGATCGAGATCAGAAAGCACGTGATGAGGAAGAATTACA
ACAATCGCTCA

>g12103.t267 Gene=g12103 Length=286
MASDTKQRPKVKPKTLTLSFNNDDIIVIEDSNDVPVNLNGTFIDLTDENSNKPNDISSVY
GNEKKKRTLEFDMMISKDIINLSTHFPQTNVSQAKMIDFNNNPQPSTSKQAIAADAALKA
TTAKNLELRKANTSRKALELSLHTSAILKELSNTNNTTDKSASTYQKLLEIGKKSLIENQ
EEFVCSLCNGFCTKGIGVTLKYCLHSFCRPCLIHTINTKTEYGAVKCPLQIENVEKCEFF
IDDEEIKELLGVDGYAAFLQNVKLTMEEIADRDQKARDEEELQQSL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g12103.t267 Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain 141 252 1.6E-8
2 g12103.t267 PANTHER PTHR22770:SF35 RANBP-TYPE AND C3HC4-TYPE ZINC FINGER-CONTAINING PROTEIN 1 159 263 2.0E-14
3 g12103.t267 PANTHER PTHR22770 UBIQUITIN CONJUGATING ENZYME 7 INTERACTING PROTEIN-RELATED 159 263 2.0E-14
1 g12103.t267 Pfam PF00097 Zinc finger, C3HC4 type (RING finger) 185 229 2.2E-4
5 g12103.t267 ProSitePatterns PS00518 Zinc finger RING-type signature. 203 212 -
7 g12103.t267 ProSiteProfiles PS50089 Zinc finger RING-type profile. 185 229 8.89
4 g12103.t267 SUPERFAMILY SSF57850 RING/U-box 178 229 1.74E-8

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:0046872 metal ion binding MF

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