General information for g11288.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cullin-1.
Parent gene
- The parent gene g11288 is located on chr_1: 15426794..15429885 (+ 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 | g11288 | g11288.t6 | isoform | g11288.t6 | 15426223 | 15429885 |
| chr_1 | g11288 | g11288.t6 | exon | g11288.t6.exon1 | 15426223 | 15426743 |
| chr_1 | g11288 | g11288.t6 | cds | g11288.t6.CDS1 | 15426308 | 15426743 |
| chr_1 | g11288 | g11288.t6 | exon | g11288.t6.exon2 | 15429077 | 15429494 |
| chr_1 | g11288 | g11288.t6 | cds | g11288.t6.CDS2 | 15429077 | 15429150 |
| chr_1 | g11288 | g11288.t6 | exon | g11288.t6.exon3 | 15429555 | 15429646 |
| chr_1 | g11288 | g11288.t6 | exon | g11288.t6.exon4 | 15429873 | 15429885 |
| chr_1 | g11288 | g11288.t6 | TSS | g11288.t6 | NA | NA |
| chr_1 | g11288 | g11288.t6 | TTS | g11288.t6 | NA | NA |
Sequences
>g11288.t6 Gene=g11288 Length=1044
AGTCCTCATTCATAAACACTTAGACGCTTTTCGTGTTGAATTTCAAAATTTGTTAAATGC
TGACAAGAATGAAGATTTAGCGAGAATGTATATGCTTGTGTCTCGTACAGCTGATGGGCT
TGCAGATCTGAAAATTGCTCTTGAGAATCACATAAATAATCAAGGCCAACAAGCAATTGA
TAAATGCGGAGAAGCAGCTGCTAATGATCCTAAAATATACGTTCAGACTATTCTTGAAGT
ACACATGAAATTCAATAGTCTTGTAATGACTGCTTTCAACAATGATAGTGGTTTTGTTGC
CGCATTAGATAAAGCATGCAACAAATTCATCAATTCAAATTGCGTTACGCAAGCCAGTAA
GAACGAAAGTCGTTCACCTGAGTTGCTGGCCAAATATTGTGATATTTTATTGAAAAAGAG
CAGCAAAAATCCAGAAGAAGCAGAGCTTGAAGATACTCTAAATCATGTTATGATTGTTTT
CAAATATATAACCGATAAAGATGTATTTCAGAAATTTTACAAATATTCATGTTTTATGAT
AGATGTTTTATTTTTATCATTTCAGAACAATTTGAGATGTTTGATTGTTCATTGAAACGG
AATAAATCGCTTAGGCTATTGAGCCAGCATTTGATGCAATACGGGGCCATAAATCTGCAC
ACTCTTTTGCAACTGGACCTGTAATAGCTGATCCTTTCATTTCACCTTTATTGTTGACAA
TTACACCGGCGTTATCTTCAAAATAGATAAAGATTCCATCTCGTCGTCTGAACGGTTTTC
GCTGCCGAATGACAACTGCTGGCATTACTTTCTTTCTCAATTCTGGTTTACCCTTCTTTA
CAGTTGCGACAAACATGTCACCAACACCAGCTGAAGGTAAACGATTCAAACGACCGCGAA
TGCCATGAACAGCAATAACATACAAGTTTTTACCACCTATGTATTATCTGCACAATTAAT
TACTGCGCCAACAGGCATACCGAGTGAAATACGGAATTTTCCTCCCGCGGAACCTCCACG
ACCTAAAAAAACTCTCTTCGACAT
>g11288.t6 Gene=g11288 Length=169
MYMLVSRTADGLADLKIALENHINNQGQQAIDKCGEAAANDPKIYVQTILEVHMKFNSLV
MTAFNNDSGFVAALDKACNKFINSNCVTQASKNESRSPELLAKYCDILLKKSSKNPEEAE
LEDTLNHVMIVFKYITDKDVFQKFYKYSCFMIDVLFLSFQNNLRCLIVH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11288.t6 | Gene3D | G3DSA:1.20.1310.10 | Cullin Repeats | 1 | 93 | 0.000 |
| 7 | g11288.t6 | Gene3D | G3DSA:1.20.1310.10 | Cullin Repeats | 94 | 149 | 0.000 |
| 2 | g11288.t6 | PANTHER | PTHR11932 | CULLIN | 1 | 146 | 0.000 |
| 3 | g11288.t6 | PANTHER | PTHR11932:SF81 | CULLIN-1 | 1 | 146 | 0.000 |
| 1 | g11288.t6 | Pfam | PF00888 | Cullin family | 1 | 146 | 0.000 |
| 8 | g11288.t6 | ProSiteProfiles | PS50069 | Cullin family profile. | 96 | 146 | 17.359 |
| 4 | g11288.t6 | SUPERFAMILY | SSF74788 | Cullin repeat-like | 1 | 87 | 0.000 |
| 5 | g11288.t6 | SUPERFAMILY | SSF75632 | Cullin homology domain | 93 | 146 | 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:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0031625 | ubiquitin protein ligase 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.
