General information for g13364.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13364 is located on chr_1: 29524932..29526019 (+ 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 | g13364 | g13364.t4 | TSS | g13364.t4 | 29524246 | 29524246 |
| chr_1 | g13364 | g13364.t4 | isoform | g13364.t4 | 29524357 | 29526019 |
| chr_1 | g13364 | g13364.t4 | exon | g13364.t4.exon1 | 29524357 | 29524617 |
| chr_1 | g13364 | g13364.t4 | exon | g13364.t4.exon2 | 29524932 | 29526019 |
| chr_1 | g13364 | g13364.t4 | cds | g13364.t4.CDS1 | 29525361 | 29525705 |
| chr_1 | g13364 | g13364.t4 | TTS | g13364.t4 | 29526017 | 29526017 |
Sequences
>g13364.t4 Gene=g13364 Length=1349
ATGGCATCAGAAGGAAGAGTATCAAAAGAAGAGTGGACAAGAGTAAGTTAGATGAATTAA
AAATCTTGTTTGTCTGAAATTTATGACTCATCATATATCTCTTTTTCTTTCATAAATCAT
TAATGTCGCGATAATTAGGCTGTAACAACCATTCCACCAAACTTTTTACGATTAAACTCA
CAGCAAGAAGTGTTAGACAGAGAAGCAGCTTTAGCTCTTCATCAACAACAAATTGGTCAC
TACAATCACATCGGTCTAGCTGCAAATACTGTTGGACGATTATCGATTACAGTTGCGCAA
GCAAAATTAACAAAAAATTATGGACTTACACGAATGGATCCTTATGTCAGAATTAGAGTG
GGTCATTACATTTATGAAACGCAAACTGATACAAATGGAGGAAAAACACCACATTGGAAT
AGAGTGTTTCATTGTCAACTTCCAAGTGGAGTAAATAAAATATTTCTAGAAATTTACGAT
GAATGTAACTTCACTATGGATGAATTGGTAAAAATTGTTCTTTCAGTATTGTTACGTAGG
TGTGTTATACAAATATTTTTTTCTTTTTTCTGTACACATATTTAGATTGCATGGGCAGAA
ATCAGAATTCCAGAAGCTGTTATTGAAAAATGTGAGACACATGAGGACTGGTATGCACTA
TCTGGAAAAACAGGAGACAATAAGGAAGGCATGATTGATCTTGTTCTTAGTTTTACACCA
GCTTCATGTTTATATCAAAGACCAGCAATTGGTCAGCAACAAGTTGTACTTGTACCAAAT
GTTTCGAACCGTGCCCTTCCTGTTTATGTATCTCCAACACCAGTACAACAAATTGCTCAA
CAACCACAATTGCCACAACAACAGCAGCAGCCAATAGAAATGCCAGCAGTACCACAAACT
TTGACTGATGAAGATATAGCAAACCTTATGGAAATGTTTCCAAGTGTTGACAAAGATGTC
ATTAAATCAATTGGAGAGGCTAATAGAGGAGACAAAAACGCTACAATTAATTCTTTACTA
CAATTAACCAACTAAAACAATTTTGGAGGCGGGTAACAGCTCACGAAAACAAAACAAAAT
GAAGTAAAAGACAAACAAGTTTAAATATTGATGATCAAGATGATGATAATCCAATTTTAA
TGTGCGAAAACTTATTTTGCTATGCATATGCAAGTCAAAAAAAATCACCAAAACTTTTAT
TAACTATTTTTTTCATATATACAATTTATGTCGACTTTATTCGAAAGCAAAAGAATTATG
GTATACATATATATTTCTTTTTTCCTATGCTACCCTATATGTATGTAATTTTATGCTTAA
TATAAAATAAAAATATATTGGAAAGAGAA
>g13364.t4 Gene=g13364 Length=114
MIDLVLSFTPASCLYQRPAIGQQQVVLVPNVSNRALPVYVSPTPVQQIAQQPQLPQQQQQ
PIEMPAVPQTLTDEDIANLMEMFPSVDKDVIKSIGEANRGDKNATINSLLQLTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13364.t4 | Gene3D | G3DSA:1.10.8.10 | DNA helicase RuvA subunit | 66 | 114 | 2.6E-17 |
| 2 | g13364.t4 | PANTHER | PTHR16461 | TOLL-INTERACTING PROTEIN | 55 | 113 | 3.9E-12 |
| 1 | g13364.t4 | Pfam | PF02845 | CUE domain | 73 | 112 | 6.8E-9 |
| 8 | g13364.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 9 | g13364.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 10 | g13364.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 14 | - |
| 11 | g13364.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 21 | - |
| 7 | g13364.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 114 | - |
| 6 | g13364.t4 | ProSiteProfiles | PS51140 | CUE domain profile. | 71 | 114 | 15.57 |
| 4 | g13364.t4 | SMART | SM00546 | cue_7 | 71 | 113 | 6.8E-7 |
| 3 | g13364.t4 | SUPERFAMILY | SSF46934 | UBA-like | 64 | 113 | 2.42E-10 |
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:0043130 | ubiquitin binding | MF |
| GO:0005515 | protein 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.
