General information for g8427.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as CTL-like protein 1.
Parent gene
- The parent gene g8427 is located on chr_2: 30412119..30413248 (+ 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_2 | g8427 | g8427.t3 | TSS | g8427.t3 | 30409777 | 30409777 |
| chr_2 | g8427 | g8427.t3 | isoform | g8427.t3 | 30410014 | 30411306 |
| chr_2 | g8427 | g8427.t3 | exon | g8427.t3.exon1 | 30410014 | 30410118 |
| chr_2 | g8427 | g8427.t3 | cds | g8427.t3.CDS1 | 30410014 | 30410118 |
| chr_2 | g8427 | g8427.t3 | exon | g8427.t3.exon2 | 30410473 | 30411245 |
| chr_2 | g8427 | g8427.t3 | cds | g8427.t3.CDS2 | 30410473 | 30411245 |
| chr_2 | g8427 | g8427.t3 | exon | g8427.t3.exon3 | 30411304 | 30411306 |
| chr_2 | g8427 | g8427.t3 | cds | g8427.t3.CDS3 | 30411304 | 30411304 |
| chr_2 | g8427 | g8427.t3 | TTS | g8427.t3 | NA | NA |
Sequences
>g8427.t3 Gene=g8427 Length=881
ATGGGTTGTTTTGAGTCTAAACAGAACCGTACTGATCCAGTTGCGGTTAGAGGTTGTACA
GATGTATGCTGGCTAGTAATTTTCATTCTTTTTTGGGTTTTATTGATCGTTATTGCTGCT
TTTGCTTTTGTATATGGAAATCCACAACGCATAATCAACGGCTATGATTCATTCGGTAAT
ACGTGTGGTGTTTCTGATAATAAAAATTATGCAGACATCTCTTATGGAAAGGCAGCCGGT
ATTGATACAAGTGATAAGAAGTTTGTTTATTTCTTCAACATAAAGGAAATTAAAAAGTCA
TTAAAAATTTGTGTAAAACAATGCCCATCAAAACAGCTAAATACTTCCGTTCAATTATAT
GATTATTATAGAGAAAAGGATACAAGCTATTGTCGATATGATTTTGATATGAACAAATTG
ACTAGAGCAAGTGATAATGATGAGTTAATTTTCCATCTAACTGGACCTTGCCCAACATTG
CCAGTTTATGAAAGTGATCCTGTTTTTCATCGATGTATTCCAACTGGAAAAAATGCACCA
ATCAAAGAGGCTCAAGAATTATTCAATGTAGTTTCAGGTTGGGACTTTGTAGAAAAAACT
GCACACGATTTATACAAATCTTGGCATGTGATTGCTCTCGTTTGTGGTTTGAGTTTAATT
TTTTCAATCATTCTCATCGGATTACTTCACTACCTTACACAAATTATTTCTTGGCTGATT
TGCATTTTTGTTGGAGTTGCTAGCATTGCCATTACTATTTTATTATGGTACACATATTTT
GAAATTAAGAAGAAGAAAGATTCATCCGAACTATCTCAACTTGCTCAATATCTTCAAAAT
GAAACTGCTGTATATGTCTTTGCCATCATTGCTACAATCGT
>g8427.t3 Gene=g8427 Length=293
MGCFESKQNRTDPVAVRGCTDVCWLVIFILFWVLLIVIAAFAFVYGNPQRIINGYDSFGN
TCGVSDNKNYADISYGKAAGIDTSDKKFVYFFNIKEIKKSLKICVKQCPSKQLNTSVQLY
DYYREKDTSYCRYDFDMNKLTRASDNDELIFHLTGPCPTLPVYESDPVFHRCIPTGKNAP
IKEAQELFNVVSGWDFVEKTAHDLYKSWHVIALVCGLSLIFSIILIGLLHYLTQIISWLI
CIFVGVASIAITILLWYTYFEIKKKKDSSELSQLAQYLQNETAVYVFAIIATI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g8427.t3 | PANTHER | PTHR12385:SF12 | SOLUTE CARRIER FAMILY 44 MEMBER 1A-RELATED | 6 | 293 | 2.9E-79 |
| 2 | g8427.t3 | PANTHER | PTHR12385 | CHOLINE TRANSPORTER-LIKE (SLC FAMILY 44) | 6 | 293 | 2.9E-79 |
| 9 | g8427.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 23 | - |
| 12 | g8427.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 24 | 45 | - |
| 7 | g8427.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 46 | 207 | - |
| 10 | g8427.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 208 | 229 | - |
| 8 | g8427.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 230 | 234 | - |
| 11 | g8427.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 235 | 259 | - |
| 6 | g8427.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 260 | 293 | - |
| 5 | g8427.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 24 | 46 | - |
| 4 | g8427.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 208 | 230 | - |
| 3 | g8427.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 235 | 257 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
## Warning: Removed 1 row(s) containing missing values (geom_path).
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