General information for g9822.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative CTL-like protein 2.
Parent gene
- The parent gene g9822 is located on chr_1: 5389842..5394548 (- 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 | g9822 | g9822.t5 | isoform | g9822.t5 | 5388936 | 5390512 |
| chr_1 | g9822 | g9822.t5 | exon | g9822.t5.exon1 | 5388936 | 5389045 |
| chr_1 | g9822 | g9822.t5 | cds | g9822.t5.CDS1 | 5388936 | 5389045 |
| chr_1 | g9822 | g9822.t5 | exon | g9822.t5.exon2 | 5389840 | 5390322 |
| chr_1 | g9822 | g9822.t5 | cds | g9822.t5.CDS2 | 5389840 | 5390322 |
| chr_1 | g9822 | g9822.t5 | exon | g9822.t5.exon3 | 5390377 | 5390512 |
| chr_1 | g9822 | g9822.t5 | cds | g9822.t5.CDS3 | 5390377 | 5390512 |
| chr_1 | g9822 | g9822.t5 | TSS | g9822.t5 | 5390987 | 5390987 |
| chr_1 | g9822 | g9822.t5 | TTS | g9822.t5 | NA | NA |
Sequences
>g9822.t5 Gene=g9822 Length=729
ATGGACGACAGTGGAAAAGAATTGTTAAGAAATGATTCTAGAAGATTATCAACAATATCC
AATTCTAGAAGATTTTCTAATGTCTCTAACTCGAAAAGATTATCGATAGTGTCAGATTCA
AGAAGATTTTCAAGAAGAGAGTCATTCCGCTATGATGGAGAGTTTCGTGGTCCTTTAGCG
AACAGAAGTTGCACTGATGTCATCTTTCTACTCATGTTTTTCATATTTTTAATCATCTTT
GGTTTTGCTGGTTATTATGCTCATCGTGAAGGTGATTTAAATAAATTATTGGTACCACGT
GATACAAAAGGCTGGCAATGCGGAAAAGACAGTGAAGTAGTGGACAAACCGAATTTATTT
TTCTTTGATTTATCAAAATGTGCTGATCCTTTGGTTCCAATTGAGGGTTGTCCAACACCG
CAAGTATGCGTAAAAGAATGTCCAAAGACAAGCTTTTATCATGAAAGAGCTCAATGTGAT
CGTGAAAAAATTCAAGTTTATCGACAAAAACTCATCTGTACATCTGAGATAGATTTGAAT
AATATCACAGATTGTAATGAGGTTGATAAATATGTTAAAGACAACAAATGTGCATTATGG
TATTTACCATCAGAATCATTGAGCAATATATGTATCCCAGCGTCATTTCAAGATGTATGG
CAAACAATAAATCGTTCAGAAGTTATTCAAGGTCTGCTTAATATTCAAATGATGGGCTCA
ATTAATGGA
>g9822.t5 Gene=g9822 Length=243
MDDSGKELLRNDSRRLSTISNSRRFSNVSNSKRLSIVSDSRRFSRRESFRYDGEFRGPLA
NRSCTDVIFLLMFFIFLIIFGFAGYYAHREGDLNKLLVPRDTKGWQCGKDSEVVDKPNLF
FFDLSKCADPLVPIEGCPTPQVCVKECPKTSFYHERAQCDREKIQVYRQKLICTSEIDLN
NITDCNEVDKYVKDNKCALWYLPSESLSNICIPASFQDVWQTINRSEVIQGLLNIQMMGS
ING
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g9822.t5 | PANTHER | PTHR12385 | CHOLINE TRANSPORTER-LIKE (SLC FAMILY 44) | 50 | 230 | 5.1E-30 |
| 2 | g9822.t5 | PANTHER | PTHR12385:SF90 | CTL-LIKE PROTEIN 2 | 50 | 230 | 5.1E-30 |
| 5 | g9822.t5 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 66 | - |
| 6 | g9822.t5 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 67 | 87 | - |
| 4 | g9822.t5 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 88 | 243 | - |
| 3 | g9822.t5 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 67 | 86 | - |
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:0055085 | transmembrane transport | BP |
| GO:0022857 | transmembrane transporter activity | 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. There were no conditions that were differentially expressed