General information for g1810.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ran-binding protein 3.
Parent gene
- The parent gene g1810 is located on chr_3: 13137940..13139252 (+ 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_3 | g1810 | g1810.t5 | TSS | g1810.t5 | 13137381 | 13137381 |
| chr_3 | g1810 | g1810.t5 | isoform | g1810.t5 | 13137483 | 13138695 |
| chr_3 | g1810 | g1810.t5 | exon | g1810.t5.exon1 | 13137483 | 13137888 |
| chr_3 | g1810 | g1810.t5 | exon | g1810.t5.exon2 | 13137946 | 13138695 |
| chr_3 | g1810 | g1810.t5 | cds | g1810.t5.CDS1 | 13138267 | 13138695 |
| chr_3 | g1810 | g1810.t5 | TTS | g1810.t5 | 13138982 | 13138982 |
Sequences
>g1810.t5 Gene=g1810 Length=1156
ATGGACAATAACCAAGCAGGTAAAGAAAAGAATTTAAAAATATCTTTATCAGAAACAAAT
TAATAGCTTTTTTTCTTAAAAATTTGTAGGATCTAGAAAATTGTTCTTAAAACCAGCTAA
ATCGGGCTTACAAAAAACAGAACAGCAACAACAACAAACAAACGGAAGCAGTTCATCTGA
AAATGGAAATATATTCAATCTGAGTAACAATCCTTTCCTTAAATGTGAGGAAGATATAGA
AACTAAAAATAATGAAGAAAAAGTTTCTAAAGAAACTGATAATGCTGATATTAAAGCAAA
AGATTTGTTTAAGCCAGTTAGTACAAATCTCTTCAAAAATGCCACAACATTATCAGAAAA
TTCCAATTTTGTGTTTGGTCAAAATCTCCATGAAAGAGTAGTTATTGATAAAACATCAAC
CACTGCAGCATCTACAGAAAGTGAAAACAAAAGCAATGATGAAAAAGATGAAAAGACAAA
CAAACTACTTTTTTCAAGTGCCCTTTCGCAACAGCCGACAGAAAAAACAGAGCGAAGGAA
TAATGATGATAATGCCGAGAACAATACACAGCCAATATCGACGAAAAAAACTGATGATCA
GTCTGAAGAAAATTTAAGTCTCATTGAAGCGGCTAGGAGATATGAAGAAATTAAAAGTGC
ACAGAAAAGAAAATTTGAAGAGGTAGAAGTGATAACTGGTGAGGAAGATGACAAAAATAT
TTTAGAAATGAACTGTAGACTGTTTACATTCGATAAAAATAATTGGGAAGAAAGAGGTCG
TGGAACTCTACGTCTGAATGATTGCAAAAATAGTGCTCGTGTTGTATTTCGTGCGTCAGG
TAGTTTACGTTTATTACTTAATACAAAAGTATGGAAAGACCAGTTATGCGAGCTGGCCAA
TTCAAAGAGTTTGAAGCTTACGGCTATTGATTCTAATGGACTAGTAAAAATTTACCTTGT
AACGGGCAGAATTGAGGATATCGACAATCTATATCATGCTTTAAGCATTCGTATTAAGAG
GGAAAAGGACCGAACAGTACACAAAACAACTGAAAATGAGGAAGAAGTTGATGAAACTAC
TGAGAATGCCAATGTATCAAATAATGACGACCATAGTTTGGAGCCAGTTCCAAAAAAAAT
TGCAACAACTGAATGA
>g1810.t5 Gene=g1810 Length=142
MNCRLFTFDKNNWEERGRGTLRLNDCKNSARVVFRASGSLRLLLNTKVWKDQLCELANSK
SLKLTAIDSNGLVKIYLVTGRIEDIDNLYHALSIRIKREKDRTVHKTTENEEEVDETTEN
ANVSNNDDHSLEPVPKKIATTE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g1810.t5 | CDD | cd13180 | RanBD_RanBP3 | 1 | 96 | 9.90727E-41 |
| 6 | g1810.t5 | Gene3D | G3DSA:2.30.29.30 | - | 1 | 122 | 7.0E-22 |
| 5 | g1810.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 100 | 142 | - |
| 2 | g1810.t5 | PANTHER | PTHR23138 | RAN BINDING PROTEIN | 1 | 130 | 2.5E-30 |
| 3 | g1810.t5 | PANTHER | PTHR23138:SF151 | RAN-BINDING PROTEIN 3A-RELATED | 1 | 130 | 2.5E-30 |
| 1 | g1810.t5 | Pfam | PF00638 | RanBP1 domain | 2 | 52 | 2.1E-5 |
| 4 | g1810.t5 | SUPERFAMILY | SSF50729 | PH domain-like | 1 | 94 | 6.15E-20 |
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.
