General information for g13024.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Clathrin light chain.
Parent gene
- The parent gene g13024 is located on chr_1: 27584173..27584636 (- 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 | g13024 | g13024.t1 | TTS | g13024.t1 | 27583599 | 27583599 |
| chr_1 | g13024 | g13024.t1 | isoform | g13024.t1 | 27583890 | 27584636 |
| chr_1 | g13024 | g13024.t1 | exon | g13024.t1.exon1 | 27583890 | 27584076 |
| chr_1 | g13024 | g13024.t1 | cds | g13024.t1.CDS1 | 27583890 | 27584076 |
| chr_1 | g13024 | g13024.t1 | exon | g13024.t1.exon2 | 27584139 | 27584475 |
| chr_1 | g13024 | g13024.t1 | cds | g13024.t1.CDS2 | 27584139 | 27584475 |
| chr_1 | g13024 | g13024.t1 | exon | g13024.t1.exon3 | 27584555 | 27584636 |
| chr_1 | g13024 | g13024.t1 | cds | g13024.t1.CDS3 | 27584555 | 27584636 |
| chr_1 | g13024 | g13024.t1 | TSS | g13024.t1 | 27584714 | 27584714 |
Sequences
>g13024.t1 Gene=g13024 Length=606
ATGGACTTTGAAAGTGATCCAGCTGCAGATTTTTTGAATCGTGAAAGAGAACAGTTGGGC
GATATCATGAATGATAATGAAATTCCAGCTGCTGCTGCTTCAAATTTTGAGGGAATGATG
TCAAATGATGATTTTGAACTTATTAATAGTGAAATCAAACAGGCAGATGATGCAATGGCC
AATGAAATTGTTGATGATCTTGCTGGCATGAGCTTCTTTAGCTCCACGCAACCAGTTTCT
GAAAAAATTGTGCCTGAGAAAATAAGAATCTGGCGTGAGGAAACAGAAAGAAAATTGGAA
GAGAAAGATCGACAAGAAGCAGAAGCTAAGGAAGCTCTTCGTGTAAATGCACAAAAAGAA
ATGGAAGACTGGAAAATGAAATATTCTGAGCAGCTTGAAAAGACAAAAGCATTGAATAGA
AATGCTGAAAAGGAATTTGCGCATTCAGATTTGAATGGAAATTCTGAAGCGAAAAATGTA
TGGGAAGCTATTTCAAACTTATGTGACTTTACATCAAAAACGGGACCAAAATCGACTAAG
GATGCCTCTCGTATTAGACAGATTTTCTTACAAATGAAATCATCACCACCAACTAAAGTA
AATTAA
>g13024.t1 Gene=g13024 Length=201
MDFESDPAADFLNREREQLGDIMNDNEIPAAAASNFEGMMSNDDFELINSEIKQADDAMA
NEIVDDLAGMSFFSSTQPVSEKIVPEKIRIWREETERKLEEKDRQEAEAKEALRVNAQKE
MEDWKMKYSEQLEKTKALNRNAEKEFAHSDLNGNSEAKNVWEAISNLCDFTSKTGPKSTK
DASRIRQIFLQMKSSPPTKVN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g13024.t1 | Coils | Coil | Coil | 88 | 145 | - |
| 2 | g13024.t1 | PANTHER | PTHR10639 | CLATHRIN LIGHT CHAIN | 3 | 199 | 3.5E-22 |
| 3 | g13024.t1 | PANTHER | PTHR10639:SF7 | CLATHRIN LIGHT CHAIN | 3 | 199 | 3.5E-22 |
| 1 | g13024.t1 | Pfam | PF01086 | Clathrin light chain | 4 | 195 | 3.6E-36 |
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.
