General information for g13495.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein peste.
Parent gene
- The parent gene g13495 is located on chr_1: 30513336..30514847 (- 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 | g13495 | g13495.t4 | TTS | g13495.t4 | 30511995 | 30511995 |
| chr_1 | g13495 | g13495.t4 | isoform | g13495.t4 | 30512069 | 30513336 |
| chr_1 | g13495 | g13495.t4 | exon | g13495.t4.exon1 | 30512069 | 30512500 |
| chr_1 | g13495 | g13495.t4 | cds | g13495.t4.CDS1 | 30512069 | 30512500 |
| chr_1 | g13495 | g13495.t4 | exon | g13495.t4.exon2 | 30512561 | 30512765 |
| chr_1 | g13495 | g13495.t4 | cds | g13495.t4.CDS2 | 30512561 | 30512765 |
| chr_1 | g13495 | g13495.t4 | exon | g13495.t4.exon3 | 30512822 | 30513336 |
| chr_1 | g13495 | g13495.t4 | cds | g13495.t4.CDS3 | 30512822 | 30513201 |
| chr_1 | g13495 | g13495.t4 | TSS | g13495.t4 | NA | NA |
Sequences
>g13495.t4 Gene=g13495 Length=1152
GCAGCTGCAGCACGTGGAAAAAACTGGGGTTTTGTTGGCAAAAAAGCAATTGCATTTGGA
TTAAGAATTTATGGAAACAATGTGCATGTAACAAAAACAGCTGGCGAGTGGCTTTTTGAT
GGTTTTGAAGATCCTATGATTACATTAGCTAAGTCTAATCCATTTCTTACTGACATTCCT
ACAAATTTTGATAAATTTGGATGGTTTTATAAGAAAAACAATACTGATTTTATGCTGGGT
GACTTTAATGTTGACACAGGCATCAAAAATATTAATGAGATAGGAAATATTCGTCTATGG
AATCATGAATCATCTACAAGTTTTTTCAATGGTAAATGTGCGGCTCTTAGTGGTTCTGGT
GGTGATTTCTTCAATCCAAATATTTCAAAAGATGATGTATTACAATTATTTTCACCTGAA
ATGTGCAGAAGTGTGCCAATGGATTTTGAGGAAGAAGTAGAAATTCATGGAATTAAAACA
TTGAAATTTAGTGGTGGTGTTCGTGCAGTTGATAACGGTACCATATTCCCAGAAAATAAA
TGCTTCTGTAGTGGTCAATGTGTTCCATCAGGCTTATTTAATGTGTCATCATGCCGTTAT
GGCACACCAGTTTTTATGTCATTTCCACATTTTTATCATGCTGATCCTTATTATTTACAG
CAAGTCGATGGTTTACAGCCAGTCAAAGAAAAACACCAATTTTTCATGTCATTTGAGCCT
AAAACGGCAATTCCTTTAGAAGTAGCAGCAAGATTTCAAATAAATCTTTTTGTTGAGCCG
ATTTCGGCAATTGATCTCTATCGTGATGTGCCAAAAAAATTTATGCCAATTCTTTGGTTT
GAGCAACATGTAAAAATGAGTAAGTCAATTGCAAATGAAATAAAAATTGTTTTAAAGATG
CCACGTTGGGGTCAATTAGTTGGTATTGCAGCAGCTGTGATTGGTTTTTGCATTGTATTA
GTAATTCCACTAAAAATCGTTATTGAACGTTTATGCTTTAGTCATAAAAGAAGAAAAATC
AGAGACTTTGATGTAAATGGAAACGCTTTGTTAGACAAAAACATTGAAAAAATTAACAAT
GATAAAAATGAAAATCCAGAGACTAAAAAATTAATTTTCAAAGAAGCTTTATATCAAGTT
GGTGTTAAATGA
>g13495.t4 Gene=g13495 Length=338
MITLAKSNPFLTDIPTNFDKFGWFYKKNNTDFMLGDFNVDTGIKNINEIGNIRLWNHESS
TSFFNGKCAALSGSGGDFFNPNISKDDVLQLFSPEMCRSVPMDFEEEVEIHGIKTLKFSG
GVRAVDNGTIFPENKCFCSGQCVPSGLFNVSSCRYGTPVFMSFPHFYHADPYYLQQVDGL
QPVKEKHQFFMSFEPKTAIPLEVAARFQINLFVEPISAIDLYRDVPKKFMPILWFEQHVK
MSKSIANEIKIVLKMPRWGQLVGIAAAVIGFCIVLVIPLKIVIERLCFSHKRRKIRDFDV
NGNALLDKNIEKINNDKNENPETKKLIFKEALYQVGVK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13495.t4 | PANTHER | PTHR11923 | SCAVENGER RECEPTOR CLASS B TYPE-1 SR-B1 | 2 | 290 | 3.8E-105 |
| 3 | g13495.t4 | PANTHER | PTHR11923:SF93 | GH07959P-RELATED | 2 | 290 | 3.8E-105 |
| 5 | g13495.t4 | PRINTS | PR01609 | Adhesion molecule CD36 family signature | 68 | 92 | 5.3E-23 |
| 6 | g13495.t4 | PRINTS | PR01609 | Adhesion molecule CD36 family signature | 142 | 166 | 5.3E-23 |
| 4 | g13495.t4 | PRINTS | PR01609 | Adhesion molecule CD36 family signature | 189 | 210 | 5.3E-23 |
| 1 | g13495.t4 | Pfam | PF01130 | CD36 family | 10 | 277 | 3.1E-94 |
| 9 | g13495.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 257 | - |
| 10 | g13495.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 258 | 283 | - |
| 8 | g13495.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 284 | 338 | - |
| 7 | g13495.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 261 | 283 | - |
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:0016020 | membrane | CC |
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.
