General information for g818.t14
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transformer-2 sex-determining protein.
Parent gene
- The parent gene g818 is located on chr_3: 6164337..6174353 (+ 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_3 | g818 | g818.t14 | TSS | g818.t14 | 6163279 | 6163279 |
| chr_3 | g818 | g818.t14 | isoform | g818.t14 | 6163399 | 6165060 |
| chr_3 | g818 | g818.t14 | exon | g818.t14.exon1 | 6163399 | 6163418 |
| chr_3 | g818 | g818.t14 | cds | g818.t14.CDS1 | 6163399 | 6163418 |
| chr_3 | g818 | g818.t14 | exon | g818.t14.exon2 | 6163645 | 6163879 |
| chr_3 | g818 | g818.t14 | cds | g818.t14.CDS2 | 6163645 | 6163879 |
| chr_3 | g818 | g818.t14 | exon | g818.t14.exon3 | 6163984 | 6164254 |
| chr_3 | g818 | g818.t14 | cds | g818.t14.CDS3 | 6163984 | 6164254 |
| chr_3 | g818 | g818.t14 | exon | g818.t14.exon4 | 6164341 | 6165060 |
| chr_3 | g818 | g818.t14 | cds | g818.t14.CDS4 | 6164341 | 6164603 |
| chr_3 | g818 | g818.t14 | TTS | g818.t14 | 6165054 | 6165054 |
Sequences
>g818.t14 Gene=g818 Length=1246
ATGTCGCGCGACAATCATTTCAAAATCAAATTTTCAATTTCTAGCAGTACCTCGAAATCA
CAACGAACAACCACACCACCGCAATTTTCATCATCATCGTCCTACAGATATAATTCTCGC
CATGAGTCACCACCATCAAAGCGATCGAGATATCAAAAGGAACGCAGTCGTTCGTTTGAA
AAGAATGGAAGCAGCGGTGGACGAACCAGAAGACGCAATTCACCAGCGACAACCGATATA
AGTCGTAAAAATCATGAGCCCTCTAGAGTTTTGGGCGTCTTTAATTTGCATGTTCGCACG
ACTGAGGATGAAATTCGTGAAGTTTTCGAACGTTTTGGAGAAATTGACAATATTGTTATG
GTAAAAGATGCAAAAACAAGAGGATTTCGAGGCTATTGCTTTTTGTATTACAATAAGCAA
CGAGATGCAACAGCTGCCTTAGAGGAATGCAATGGTATAGAGATCAAAGATCGGCAAATT
CGCGTAGATTATTCATTAAGTGAAGGTCCTCATGTGAGCACTCCAGGAGAATATCGAGGA
AAACGGGGAAGAGATAATATGCGCGGCCAAAGACCACGTCATTTAAGTCCATTGCGTGGA
GAGAGAACTCGTTATTACGATAGATATGACAATGTTCGAACTCGCTCGCGTGATAGAGAC
AGATATGACAACGATCGTTTTAGACGTTCACCGCCTCGTAATTATGATAGATCTGATTAT
CATCGTCGTGGATCACCTGATCGCTTTGATCGCCGAAGATCCCCACCAATGCGTGAACGC
AGGCACTAAATATTTGACTAAAACATGTGTTGATTGAATTTGATGAAGCAAGAGAAGAAA
CATTTTAACTTACTACACACATACAATGAAGATAAAATATATATATCATTTTGCAAAAAA
AGCAATTAATTTTAACACGGTTTTTTTGCTATTAATATTACTACTGATAAAATCAAATGA
CCAAAATTTTGTTTATTACAACTATATTTGTTTCGATGCTCATTTCTAATTATGCTGAAA
ATCTATTAAAAACTTAAATGTTTGAAATTATAAAAAAATTCTAACAATGAATTATTGAAT
TTTTAAAAAATTTGTAACCACACACCAATTAGAATATTTCGAATTAATCATGTCCTTCTT
TCAATTATTTTCTTTATTTTCTCTCACATATTAGTGTGTTCAAAATTCTAATTTTTTCAA
TGTAAGAAGATGACGATTTTTATTAATAAAAAATCAAAACTAAAAA
>g818.t14 Gene=g818 Length=262
MSRDNHFKIKFSISSSTSKSQRTTTPPQFSSSSSYRYNSRHESPPSKRSRYQKERSRSFE
KNGSSGGRTRRRNSPATTDISRKNHEPSRVLGVFNLHVRTTEDEIREVFERFGEIDNIVM
VKDAKTRGFRGYCFLYYNKQRDATAALEECNGIEIKDRQIRVDYSLSEGPHVSTPGEYRG
KRGRDNMRGQRPRHLSPLRGERTRYYDRYDNVRTRSRDRDRYDNDRFRRSPPRNYDRSDY
HRRGSPDRFDRRRSPPMRERRH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g818.t14 | Gene3D | G3DSA:3.30.70.330 | - | 14 | 174 | 1.0E-27 |
| 12 | g818.t14 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 85 | - |
| 11 | g818.t14 | MobiDBLite | mobidb-lite | consensus disorder prediction | 7 | 40 | - |
| 8 | g818.t14 | MobiDBLite | mobidb-lite | consensus disorder prediction | 41 | 67 | - |
| 9 | g818.t14 | MobiDBLite | mobidb-lite | consensus disorder prediction | 166 | 262 | - |
| 10 | g818.t14 | MobiDBLite | mobidb-lite | consensus disorder prediction | 175 | 254 | - |
| 2 | g818.t14 | PANTHER | PTHR15241 | TRANSFORMER-2-RELATED | 13 | 249 | 8.4E-26 |
| 3 | g818.t14 | PANTHER | PTHR15241:SF305 | - | 13 | 249 | 8.4E-26 |
| 1 | g818.t14 | Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 93 | 161 | 1.6E-18 |
| 13 | g818.t14 | ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 89 | 167 | 16.705 |
| 7 | g818.t14 | SMART | SM00360 | rrm1_1 | 90 | 163 | 3.6E-21 |
| 4 | g818.t14 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 82 | 193 | 3.66E-29 |
| 5 | g818.t14 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 22 | - |
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:0003676 | nucleic acid binding | MF |
KEGG
Orthology
- This transcript has been annotated with K12897 (transformer-2 protein)
Pathway
- This transcript belongs to the following pathways
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