General information for g9966.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein peste.
Parent gene
- The parent gene g9966 is located on chr_1: 6289710..6290898 (+ 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 | g9966 | g9966.t4 | isoform | g9966.t4 | 6288552 | 6289804 |
| chr_1 | g9966 | g9966.t4 | exon | g9966.t4.exon1 | 6288552 | 6289804 |
| chr_1 | g9966 | g9966.t4 | cds | g9966.t4.CDS1 | 6288661 | 6289710 |
| chr_1 | g9966 | g9966.t4 | TTS | g9966.t4 | 6289799 | 6289799 |
| chr_1 | g9966 | g9966.t4 | TSS | g9966.t4 | NA | NA |
Sequences
>g9966.t4 Gene=g9966 Length=1253
TACTTTCCATGATAATAATAATACAGTAACTTATCGAAAATCATCATTATTTTATTTCGA
AGAAAATGGTAGTAATGGGACTTTAGATGATGTTGTATCAGTTGTTAATATGCTTGCTGT
AGGTGCAGCAGCTACTGCTCAATATTGGGGATTTTTAAGACAATTAAGTGTCTCTACATC
ATTGAGCGGATTTGGTCAGAAAATTAGTGTCAGAAAGACAGTTCGTGAAATTCTTTTTGA
AGGTTATTACGACTCTATGCTAACGATCGGTTCAATGTTTGATTCAGAAGCTACACTATT
TGATACAGTTGGTTTTATGGTTAAGAAAAATGGAACAGATCTGTTAACAGGAAAATATAA
TGTGCACACAGGAGTTGGTGATATTTCAAAGCTTGGACAAATTCAAAAATATCGTGATCT
TAATGAGTTTCCTTATTATGAAGGAGAATGTAGAAAACTAAAAGGCAGTCCAGGAGAATT
TTATCCTCCCGGAAGATCATCGAATGATATTCTTTATCTTTTTACTCCTGAATTATGTAG
AGCATTGCCATATGAATATAAGAAAGATATAAATCATCTTGGTATAAAAGGAAATCGCTA
TTATTTGGATGATCGTGCAATTGATAATGGTGAAAAATACTCAGAAAATAGTTGTTACAT
GACTGAGTCTCTTCCTTCTGGTTTCATCAACATTTCAGCATGTAATTTTGGTCAACCTCT
ATATATGTCGTATCCTCATTTTTATAAAGCTGATAAGAGTTTCTTAGATGCAATTGATGG
ATTGTCTCCACAAAAAGATCTTCACGAGTCTTACATCACACTTGAGCCTAAAACTTCAGT
AACGCTTGAAGCTGTTGGAAGACTACAAACAAATCTTTATCTCCGTCCATATGGTTTCAT
AAATTTATTCAAAAATGTTCCCAGATTGATGCTGCCATTATTTTTTGTAGAACAAAAATT
CATAATGGGAGAAGAACATGCGAGTGAACTTTATTATGGTCTGCTTATATTTAGTGTATC
AAAATATATTGGAGTTTTACTCATTATTGTTGGTGTTGCATTTATTGCATGTCGTCGATG
TATGCAATGTAAATCAAAACAAGATAATAAGAATGACTTAGAAATTAATGAAAAAGAAGC
AACTGCTTTGATGACGTAAAATATGAATGCTCAAAAATTTATATTTTTATTGTGATTGTA
AAAAGTTTAAAAGAAAATGTTAAAATTAAATTAATTTATTCATTAAGTTCAAT
>g9966.t4 Gene=g9966 Length=349
MLAVGAAATAQYWGFLRQLSVSTSLSGFGQKISVRKTVREILFEGYYDSMLTIGSMFDSE
ATLFDTVGFMVKKNGTDLLTGKYNVHTGVGDISKLGQIQKYRDLNEFPYYEGECRKLKGS
PGEFYPPGRSSNDILYLFTPELCRALPYEYKKDINHLGIKGNRYYLDDRAIDNGEKYSEN
SCYMTESLPSGFINISACNFGQPLYMSYPHFYKADKSFLDAIDGLSPQKDLHESYITLEP
KTSVTLEAVGRLQTNLYLRPYGFINLFKNVPRLMLPLFFVEQKFIMGEEHASELYYGLLI
FSVSKYIGVLLIIVGVAFIACRRCMQCKSKQDNKNDLEINEKEATALMT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g9966.t4 | PANTHER | PTHR11923 | SCAVENGER RECEPTOR CLASS B TYPE-1 SR-B1 | 2 | 337 | 5.0E-95 |
| 3 | g9966.t4 | PANTHER | PTHR11923:SF93 | GH07959P-RELATED | 2 | 337 | 5.0E-95 |
| 6 | g9966.t4 | PRINTS | PR01609 | Adhesion molecule CD36 family signature | 114 | 138 | 2.9E-18 |
| 5 | g9966.t4 | PRINTS | PR01609 | Adhesion molecule CD36 family signature | 187 | 211 | 2.9E-18 |
| 4 | g9966.t4 | PRINTS | PR01609 | Adhesion molecule CD36 family signature | 234 | 255 | 2.9E-18 |
| 1 | g9966.t4 | Pfam | PF01130 | CD36 family | 4 | 321 | 1.2E-91 |
| 9 | g9966.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 293 | - |
| 10 | g9966.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 294 | 321 | - |
| 8 | g9966.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 322 | 349 | - |
| 7 | g9966.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 298 | 320 | - |
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.
