General information for g10255.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative E3 SUMO-protein ligase RanBP2.
Parent gene
- The parent gene g10255 is located on chr_1: 8551553..8553329 (- strand)
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 | g10255 | g10255.t2 | TTS | g10255.t2 | 8547418 | 8547418 |
| chr_1 | g10255 | g10255.t2 | isoform | g10255.t2 | 8547545 | 8548347 |
| chr_1 | g10255 | g10255.t2 | exon | g10255.t2.exon1 | 8547545 | 8547855 |
| chr_1 | g10255 | g10255.t2 | cds | g10255.t2.CDS1 | 8547545 | 8547855 |
| chr_1 | g10255 | g10255.t2 | exon | g10255.t2.exon2 | 8547924 | 8548347 |
| chr_1 | g10255 | g10255.t2 | cds | g10255.t2.CDS2 | 8547924 | 8547987 |
| chr_1 | g10255 | g10255.t2 | TSS | g10255.t2 | NA | NA |
Sequences
>g10255.t2 Gene=g10255 Length=735
AGTTTCAGTTTCGCAGAAGCAGCAAAACAATTGGATAAATCTTCAGACGCAAATAAATCA
ACAGTTGAACCAGAATTTCTTAAAAAAACAAGTTCTATAGGAGGATTTGCAGAATTAGCA
GCAGCAAGTTCAAGTAATGCATTTAGTGGACAAAATAATTCATCTAGCGGCTTCTTTGGA
CTTACAGTAAAAGAGGATATTTTTAGCAGAAGCAAACAACTTAATGCATCTGGTAATGCT
GATGCAAGTCAAGATGATTCAGAAAATGTTAATGATGATAATTACGATCCACATTATGAC
CCAATCATAAGTTTACCCGATGAAGTCAAAGTATCTACAGGCGAAGAGGATGAAGAAAAA
ATGTTCGGCGAGAGAGCAAAACTCTTCCGTTACGATGCAAATACGAAAGAATGGAAAGAG
AGAGGCGTTGGCGAAATGAAAATTTTACATCATCCTATTAATAATACATACAGAATGATT
TTGCGACGTGAACAAATATTTAAACTTGTTCTCAATCAACTCTTAACACCAGATATTCAC
ATGGCACCAATGGGAAGTTCACCAAATGCATTTTGTTGGGCAGGTATGAACTATGCTGAA
GTATCTTCTGGAGAAGCAGAGCAGCTAGCCGTGCGATTTAAAAATGAAGAGTTGGCAAAT
AGCTTCAAGCGAAAAATCGAGGAATGCCAGTCTAAAATGGAATCACAAGGAAATTTACAT
CCAGAAAATGATTAA
>g10255.t2 Gene=g10255 Length=124
MFGERAKLFRYDANTKEWKERGVGEMKILHHPINNTYRMILRREQIFKLVLNQLLTPDIH
MAPMGSSPNAFCWAGMNYAEVSSGEAEQLAVRFKNEELANSFKRKIEECQSKMESQGNLH
PEND
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10255.t2 | Gene3D | G3DSA:2.30.29.30 | - | 1 | 121 | 0.000 |
| 2 | g10255.t2 | PANTHER | PTHR23138 | RAN BINDING PROTEIN | 1 | 109 | 0.000 |
| 1 | g10255.t2 | Pfam | PF00638 | RanBP1 domain | 1 | 111 | 0.000 |
| 6 | g10255.t2 | ProSiteProfiles | PS50196 | Ran binding domain type 1 profile. | 1 | 115 | 29.195 |
| 4 | g10255.t2 | SMART | SM00160 | ranbd_3 | 1 | 109 | 0.000 |
| 3 | g10255.t2 | SUPERFAMILY | SSF50729 | PH domain-like | 1 | 114 | 0.000 |
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:0046907 | intracellular transport | BP |
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.
