General information for g9816.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as CTL-like protein 2.
Parent gene
- The parent gene g9816 is located on chr_1: 5375736..5377414 (- 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 | g9816 | g9816.t2 | isoform | g9816.t2 | 5375112 | 5377414 |
| chr_1 | g9816 | g9816.t2 | exon | g9816.t2.exon1 | 5375112 | 5375827 |
| chr_1 | g9816 | g9816.t2 | cds | g9816.t2.CDS1 | 5375736 | 5375827 |
| chr_1 | g9816 | g9816.t2 | exon | g9816.t2.exon2 | 5375889 | 5376868 |
| chr_1 | g9816 | g9816.t2 | cds | g9816.t2.CDS2 | 5375889 | 5376783 |
| chr_1 | g9816 | g9816.t2 | exon | g9816.t2.exon3 | 5376923 | 5377414 |
| chr_1 | g9816 | g9816.t2 | TSS | g9816.t2 | NA | NA |
| chr_1 | g9816 | g9816.t2 | TTS | g9816.t2 | NA | NA |
Sequences
>g9816.t2 Gene=g9816 Length=2188
ATGCGTATTTGTGTATCTTACCCAGTATGAAAATTTTTTCTTGCAGTCTGGCGTACATGC
TCAAATAAAATACTTAAAACTTTTGAAACAAATCCGCATAATGAAAAACTATTTTTTGAC
AAAAAAAAAAAAAAAACAATAAAATCTGTCATGCATGTTTTGATTAATAGAAATTTCATA
ATTATGCGGACTTTATTTCTCATTGGGTATCATAAACATATTTATTTTCATCTAATAAAT
ACATTTTCTTTCTCTCATTTCAGGAGTTGTTCAGAGTTACCGTCAATATGATTTCTTTTC
AAAAAATCCCGAAGATCGTATCAATTTGCAACCGAATTTAAAATCGTTCATAAATTCATA
TCTTGCAAAATCTGACACATGGCTTTACATTCTCATCGCTTTATCAATCATACTTGTTGT
GATTTTGCTATTGATTATTGTGTTCCGCAAGAGAATTGTTATTGCAATTGCTCTTATTAA
AGAAGGAAGCAAAGCTGTGTCATCGAATTTATCAACAGTTTTCTTTCCTATTGTACCATG
GCTATTGCAAATATCTGTAATTGTTCTCTCAATTTTGATGTTCCTTTATTTATCATCAAT
TGGAGAACCATCATATAAAATAGTTGGTATGAATAAGACAAGTTGTGTCTGCACTGGAGA
GTATTCAACAATCAAAAATGGCGACTCATGCAATCAAACTAAATTTTTGAACTATTGTTC
AAATTTAGGACCTGAATGTTCAACTGTATCATGTCATTATATCGGATTGAATGCACCACA
AATTGCTCAATATTTCAAATACATTACTATCGTTGGTTTCTTTTGGCTTTTGTTTTTCAT
ATCAGGCTTCTCAGAGATGGTTTTAGCTGGAACATTTTCTGAATGGTATTGGACAATAAA
CAAAGCTGATGTACCATTTTTCACATTAAGTGCAAGTATTTATCGAACAATTCGTTTTCA
TCTCGGAACAATTGCCTTTGGATCGTTGATCCTAACAATTTGTCGCATCATTCGTTTGAT
TATTGAGTATATCGATCAAAAACTTAAGAAATACAACAATGAACTGACACGTGCGATTTT
GTGTTGCTGCCGATGCTTTTTCTGGTGTCTTGAAAACTTTCTCAAATTTCTTAATCGCAA
TGCTTACATTATGTGTGCAATTCATGGCAAGAACTTTTGCTCAAGTGCAAGAGATGCTTT
CAATTTGCTGATGCGAAATGTACTTAGAGTTATTGCTCTTGATAAGACAACCGATTTTCT
ATTTTTCTTGTCAAAATTGCTGATTTCACTTGGAATGGCTGCCTGTACTTTCACCTATCT
TACAAGTGAACTTTTCAATAACCATTTCCCTGATATTCTACTTCATTATCCAATTGTTCA
AGTTGGATTTATTTTTGTTGGATCTTACATCATTGCTTCTGTATTCTTCAGTGTTTATTC
AATGGCTGTCGATACACTCTTCTTATGCTTCCTTGAAGATTGTGAACGTAATGATGGAAG
TCAAGATCGTCCATATTTCATGAGTAAACAGTTGATGAAAATTCTCAACAAAACAAACAA
GTAAAAAAGACAGAATATGTTAATTAAACTATTTATAAAGGCTGGTGCCATTGAACCATT
ATTTATATCATTCTAACAAAAAAATATAGTCATGCCAAATTCATTGCAATAAGTGCGCCA
AATTTTTTTAGCTTTGATATGAAATTACTTATTTATGTGAATATTTATTATGCCAAAATA
TGGAGAGAGATTTTGGCCAAAATTAGTGATATAAATTTTTTTTTATAATATGTTTAGTGT
CAGAATATAGTCATGTAATGAAAAAAATCGAAAGTAGATGGATCGAGTATTTTTATACGA
TATATAATGTATAAGACATCTTCGAATGTTAACAGTAAAAATGATGAAATAAAGAGCTTT
AAAGCAAATAAAAATTCTTTTAATTTTCAATATTCTTAAAAAAGTTTCATTTTATTGGCA
AAAACAGTTGTCTTTTCTTTTTTCAGTTTAATGCTTCTAGACGAGAAAAAAGTTTCTATC
AAAATAAATAATAAATAAATAAATTAATTCAATAAATTAAGGGAAAGTTTGTCAATAAAT
TAATAAAATTAAGTTTTGAGGTGAGAAATTTGTTGTTTGTATGGAACACATAAAATTAAG
GTTTTGTTCTTATTCTCTCATATTATTT
>g9816.t2 Gene=g9816 Length=328
MFLYLSSIGEPSYKIVGMNKTSCVCTGEYSTIKNGDSCNQTKFLNYCSNLGPECSTVSCH
YIGLNAPQIAQYFKYITIVGFFWLLFFISGFSEMVLAGTFSEWYWTINKADVPFFTLSAS
IYRTIRFHLGTIAFGSLILTICRIIRLIIEYIDQKLKKYNNELTRAILCCCRCFFWCLEN
FLKFLNRNAYIMCAIHGKNFCSSARDAFNLLMRNVLRVIALDKTTDFLFFLSKLLISLGM
AACTFTYLTSELFNNHFPDILLHYPIVQVGFIFVGSYIIASVFFSVYSMAVDTLFLCFLE
DCERNDGSQDRPYFMSKQLMKILNKTNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g9816.t2 | PANTHER | PTHR12385 | CHOLINE TRANSPORTER-LIKE (SLC FAMILY 44) | 3 | 328 | 8.7E-123 |
| 3 | g9816.t2 | PANTHER | PTHR12385:SF90 | CTL-LIKE PROTEIN 2 | 3 | 328 | 8.7E-123 |
| 1 | g9816.t2 | Pfam | PF04515 | Plasma-membrane choline transporter | 3 | 303 | 1.1E-85 |
| 8 | g9816.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 80 | - |
| 16 | g9816.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 81 | 105 | - |
| 12 | g9816.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 106 | 124 | - |
| 15 | g9816.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 149 | - |
| 10 | g9816.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 150 | 226 | - |
| 13 | g9816.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 248 | - |
| 11 | g9816.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 249 | 259 | - |
| 14 | g9816.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 260 | 286 | - |
| 9 | g9816.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 287 | 328 | - |
| 4 | g9816.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 75 | 97 | - |
| 6 | g9816.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 127 | 149 | - |
| 5 | g9816.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 249 | - |
| 7 | g9816.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 286 | - |
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.
