General information for g10190.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10190 is located on chr_1: 8157541..8158117 (+ 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 | g10190 | g10190.t2 | TSS | g10190.t2 | 8157208 | 8157208 |
| chr_1 | g10190 | g10190.t2 | isoform | g10190.t2 | 8157225 | 8157932 |
| chr_1 | g10190 | g10190.t2 | exon | g10190.t2.exon1 | 8157225 | 8157318 |
| chr_1 | g10190 | g10190.t2 | cds | g10190.t2.CDS1 | 8157225 | 8157318 |
| chr_1 | g10190 | g10190.t2 | exon | g10190.t2.exon2 | 8157385 | 8157932 |
| chr_1 | g10190 | g10190.t2 | cds | g10190.t2.CDS2 | 8157385 | 8157932 |
| chr_1 | g10190 | g10190.t2 | TTS | g10190.t2 | 8158093 | 8158093 |
Sequences
>g10190.t2 Gene=g10190 Length=642
ATGGAATTGGAGAATGATCCAGCTGCTGATTTTCTCAACCGTGAAAAAGAAATGTTAGGT
GAATTGGAAAATGAAATATCCAATACTCATAACGCCGATTCTGGCCCAACAAGCGACGAC
TTTGTAATTGTAGATAACGATATACAAGAGAACAATAACGATAATGAAAACGAAGGTTTG
ATATCAAATATCCTCCTCTCTCATCACAATATGTTTATTTCTAACTTAATTATTGTTGCA
CATTTTTTAGATGCATTTGCTGGGATGCATTTCCAAAAATCATTACAAAAAGAAGAACCG
GAAAAGATAAGAATATGGAAGGAACAACAAGCATTGATGCTTCAAGAGAAAGACAAAGAA
GAAAAAGAAGCAATTGAAAAGTTAAAAGAAGCTGGAAAAAAAGAACTTGAAGATTGGTAT
AAGAACAATAAATCAAATTTGGATAAAACCAAAGTGAATAATCGGTTGGATGAATCAAAT
AGAAATAACGATAATAACATTACTGAAGGACAAGAAGTCTGGAAGTGTGTTTACAATTTA
TGTGATTTTTCACAACAAAAACACTCAAGTGGTGCTCGTGATCGAATGAGAAACATTCTT
TTGCAATTGAATCAAACGCCTTCAACAAAAAATTTAGCCTAA
>g10190.t2 Gene=g10190 Length=213
MELENDPAADFLNREKEMLGELENEISNTHNADSGPTSDDFVIVDNDIQENNNDNENEGL
ISNILLSHHNMFISNLIIVAHFLDAFAGMHFQKSLQKEEPEKIRIWKEQQALMLQEKDKE
EKEAIEKLKEAGKKELEDWYKNNKSNLDKTKVNNRLDESNRNNDNNITEGQEVWKCVYNL
CDFSQQKHSSGARDRMRNILLQLNQTPSTKNLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g10190.t2 | Coils | Coil | Coil | 12 | 32 | - |
| 5 | g10190.t2 | Coils | Coil | Coil | 111 | 134 | - |
| 2 | g10190.t2 | PANTHER | PTHR10639 | CLATHRIN LIGHT CHAIN | 5 | 208 | 6.3E-20 |
| 3 | g10190.t2 | PANTHER | PTHR10639:SF7 | CLATHRIN LIGHT CHAIN | 5 | 208 | 6.3E-20 |
| 1 | g10190.t2 | Pfam | PF01086 | Clathrin light chain | 4 | 207 | 7.7E-31 |
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:0006886 | intracellular protein transport | BP |
| GO:0030132 | clathrin coat of coated pit | CC |
| GO:0030130 | clathrin coat of trans-Golgi network vesicle | CC |
| GO:0005198 | structural molecule activity | MF |
| GO:0016192 | vesicle-mediated 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.
