General information for g15872.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g15872 is located on chr_4: 7133955..7135336 (+ 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_4 | g15872 | g15872.t3 | isoform | g15872.t3 | 7133955 | 7135336 |
| chr_4 | g15872 | g15872.t3 | exon | g15872.t3.exon1 | 7133955 | 7134689 |
| chr_4 | g15872 | g15872.t3 | cds | g15872.t3.CDS1 | 7134153 | 7134689 |
| chr_4 | g15872 | g15872.t3 | exon | g15872.t3.exon2 | 7134755 | 7135336 |
| chr_4 | g15872 | g15872.t3 | cds | g15872.t3.CDS2 | 7134755 | 7135336 |
| chr_4 | g15872 | g15872.t3 | TTS | g15872.t3 | 7135369 | 7135369 |
| chr_4 | g15872 | g15872.t3 | TSS | g15872.t3 | NA | NA |
Sequences
>g15872.t3 Gene=g15872 Length=1317
AGATGTTATGGATTTTTTAATGACGATTCTCCTTATACACAATATCAGTACAAATGCAAA
TTAGCAATTTTAGATGAAGATTATGTAGAAATTTCAAGCGATAAAAAGAAAAATTTAAAG
AAAATTTGCTCAACGCCATCGGTTGACGATTGGAAAAAAGATTTCTTCAGACGAAGATTG
CCAGAATTTGATTCACCAATGACAAAAGAAAATGAAATTGAATCACATGCAAATATGTCA
AAAGAAGCTTCAAAATTTCTTAATTTTGGTGACACTGAAGTTATTAGTCCAAAAAGAAAA
TCAAATGAAATTGATGATTTTTCAAGTCTTGAAGAATTACTAAAAGAAGCACAAGAAAAT
TCAGCTAAAAAAGCAAAAGCAAGTGAAAGACTTGAGTATGAAAATCAACAAAAATCTGCA
AAAAGTTTCCATGAAGAAATTGAAAATGAAAATAAAATTTTAATTGATCAACATCCAAGA
AATGATCAAATAAATTGGACAAGCAGTCAAGTTGAAATTCCACGTGAAACTTCATCTTAT
CGGAATTCAAGTTTGGCATTTAGAAAATTAACTGAAATTGACTATGATGATGAAAATGCT
GAAGAAATGGACAAACCTTGTACGAAATTTACTGAAAAAGTTAATGAAGAAGAAGAAAGT
GAAGAAATGAAGGAAAATGATGAAGAGAAAAATTCAATTATTTTTGGAATAACATGTGGA
AATGTCAGTGTTGAGACCAAAACAGAACTCTTTGAAAAAATCCATCAACTTGGAGCTGAA
GTTTCTGAAACAAATTTCAATCATTTAATCATCAGCAAACTTGTGAGAAGTTCAAAATAT
TTTTCAGCATTAGCAGCTGGAATGAAAGTTCTTCATGCTGATTATTTAGATGCATGTTTA
AAAGTACAAAAATTTGTCAATACTGATGAATTTGAAATTGGAAATCCAAAATTTAAATGC
AAATTTAGTGGAGTTAAAGATGAACTTTTACTTTCTGGACCTTATAGATGTCGTTTATTA
GTTGAAAGAAATTTTGATAAATTTAGTTCTGGATTATTTACAGGAAAGAAATTTTTACTT
TTTACAAGTGAAAATAGAAAGCAAGGAATAATTGACATTATTGAATCTGGTGGTGGAAAT
GTTGTTGAAATTGGCTTAACTGTTTCATTATTAAAGAGGGAAAATATTTTCATGTGCCTT
GCTGATGATATGAAGAAATTAAGTGAAAAAGAAATTGTGGCTCTTAAAGCATGCGATATC
AAAATTCAAAGCACAAAATACATTTATGAACATTTACTGACTGATAAAATTGTTTAA
>g15872.t3 Gene=g15872 Length=372
MTKENEIESHANMSKEASKFLNFGDTEVISPKRKSNEIDDFSSLEELLKEAQENSAKKAK
ASERLEYENQQKSAKSFHEEIENENKILIDQHPRNDQINWTSSQVEIPRETSSYRNSSLA
FRKLTEIDYDDENAEEMDKPCTKFTEKVNEEEESEEMKENDEEKNSIIFGITCGNVSVET
KTELFEKIHQLGAEVSETNFNHLIISKLVRSSKYFSALAAGMKVLHADYLDACLKVQKFV
NTDEFEIGNPKFKCKFSGVKDELLLSGPYRCRLLVERNFDKFSSGLFTGKKFLLFTSENR
KQGIIDIIESGGGNVVEIGLTVSLLKRENIFMCLADDMKKLSEKEIVALKACDIKIQSTK
YIYEHLLTDKIV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g15872.t3 | Coils | Coil | Coil | 34 | 68 | - |
| 8 | g15872.t3 | Gene3D | G3DSA:3.40.50.10190 | - | 161 | 279 | 4.0E-19 |
| 7 | g15872.t3 | Gene3D | G3DSA:3.40.50.10190 | - | 283 | 371 | 1.3E-5 |
| 6 | g15872.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 5 | g15872.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 51 | 78 | - |
| 1 | g15872.t3 | Pfam | PF16770 | Regulator of Ty1 transposition protein 107 BRCT domain | 155 | 246 | 4.7E-10 |
| 10 | g15872.t3 | ProSiteProfiles | PS50172 | BRCT domain profile. | 163 | 247 | 10.252 |
| 4 | g15872.t3 | SMART | SM00292 | BRCT_7 | 155 | 237 | 0.51 |
| 3 | g15872.t3 | SMART | SM00292 | BRCT_7 | 284 | 369 | 34.0 |
| 2 | g15872.t3 | SUPERFAMILY | SSF52113 | BRCT domain | 173 | 253 | 1.02E-12 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
