General information for g10031.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative E3 ubiquitin-protein ligase MYLIP.
Parent gene
- The parent gene g10031 is located on chr_1: 6860654..6861536 (+ 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 | g10031 | g10031.t3 | TSS | g10031.t3 | 6857255 | 6857255 |
| chr_1 | g10031 | g10031.t3 | isoform | g10031.t3 | 6857431 | 6860654 |
| chr_1 | g10031 | g10031.t3 | exon | g10031.t3.exon1 | 6857431 | 6857520 |
| chr_1 | g10031 | g10031.t3 | cds | g10031.t3.CDS1 | 6857431 | 6857520 |
| chr_1 | g10031 | g10031.t3 | exon | g10031.t3.exon2 | 6859848 | 6860068 |
| chr_1 | g10031 | g10031.t3 | cds | g10031.t3.CDS2 | 6859848 | 6860068 |
| chr_1 | g10031 | g10031.t3 | exon | g10031.t3.exon3 | 6860151 | 6860654 |
| chr_1 | g10031 | g10031.t3 | cds | g10031.t3.CDS3 | 6860151 | 6860652 |
| chr_1 | g10031 | g10031.t3 | TTS | g10031.t3 | NA | NA |
Sequences
>g10031.t3 Gene=g10031 Length=815
ATGTGGTATTTAGTAAATTTACCGGGAAATAAATTGAACGTGGCTGTTAAAACTGAAAAA
AATTCGATTGCCGCCGATTGTTTAAATAAAGTGTGTCATGATTTGGGGATTATTTGCGAG
ACAGATTATTTTGGTTTATTATATGCACCATCACCACACGATCATCATGATCATGATCAA
ATACACATCAAACAATGGATTAATTTAAGGAATCCTTTGGATAAAAGACATAAAGGCGAA
AGTCCAACATTACTTGAATTGCGCGTAAAATTTTGGGTACCCGCTCATCTAATTCTACAA
GAAAATGTTCGTGAGATATTTTACATGCAAGCACGACAGATGTTAATTGACAATGAAATT
CATCCAAGTGATTGGAAGCAAGCAGCACGAATGACAGCACTCATGGCACAAGCACAAGGA
GTAAAATTCATACCTGAATTGTTGACAGAAAATGGTCAAAAGGTTATCGCGGAATTTGGC
AAAAACATTCAACAAAATTTAAAGCGTGTCAAAAACAAATCAAGCGATAACGCGCATTAC
ATGATAAAGCGAAATTCATTTGATGAAATGAAAGTAGATAGTGATTGCGATAAAGAGTTC
CTACACTCATACGATAACCGGTACCTAGAGAGATTTATTATTGAGAATTATTTAGAGCAC
ATGACATTTCCGTGCTATGACAGTGACGAAGATGATGTTGATAATAACAATAGCAAAGAA
GAAACTGTTGTGCTTGAAGATGATGCTCAATTATCTAATTTCTTACTTAATATAGCTAGA
GAGCATCAGAAAATTAACAAAATTACGCAAGTTTC
>g10031.t3 Gene=g10031 Length=271
MWYLVNLPGNKLNVAVKTEKNSIAADCLNKVCHDLGIICETDYFGLLYAPSPHDHHDHDQ
IHIKQWINLRNPLDKRHKGESPTLLELRVKFWVPAHLILQENVREIFYMQARQMLIDNEI
HPSDWKQAARMTALMAQAQGVKFIPELLTENGQKVIAEFGKNIQQNLKRVKNKSSDNAHY
MIKRNSFDEMKVDSDCDKEFLHSYDNRYLERFIIENYLEHMTFPCYDSDEDDVDNNNSKE
ETVVLEDDAQLSNFLLNIAREHQKINKITQV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10031.t3 | CDD | cd14473 | FERM_B-lobe | 104 | 178 | 0.0080309 |
| 8 | g10031.t3 | Gene3D | G3DSA:3.10.20.90 | - | 5 | 90 | 0.0000000 |
| 9 | g10031.t3 | Gene3D | G3DSA:1.20.80.10 | - | 91 | 270 | 0.0000520 |
| 3 | g10031.t3 | PANTHER | PTHR23280:SF13 | E3 UBIQUITIN-PROTEIN LIGASE MYLIP | 1 | 232 | 0.0000000 |
| 4 | g10031.t3 | PANTHER | PTHR23280 | 4.1 G PROTEIN | 1 | 232 | 0.0000000 |
| 2 | g10031.t3 | Pfam | PF09379 | FERM N-terminal domain | 14 | 75 | 0.0000002 |
| 1 | g10031.t3 | Pfam | PF00373 | FERM central domain | 98 | 267 | 0.0000260 |
| 10 | g10031.t3 | ProSiteProfiles | PS50057 | FERM domain profile. | 1 | 271 | 17.8760000 |
| 7 | g10031.t3 | SMART | SM00295 | B41_5 | 6 | 195 | 0.0006500 |
| 5 | g10031.t3 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 14 | 93 | 0.0000000 |
| 6 | g10031.t3 | SUPERFAMILY | SSF47031 | Second domain of FERM | 88 | 180 | 0.0000009 |
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:0005856 | cytoskeleton | CC |
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.
