General information for g8044.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g8044 is located on chr_2: 28204570..28205041 (+ 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 | g8044 | g8044.t2 | TSS | g8044.t2 | 28201681 | 28201681 |
| chr_2 | g8044 | g8044.t2 | isoform | g8044.t2 | 28202536 | 28204728 |
| chr_2 | g8044 | g8044.t2 | exon | g8044.t2.exon1 | 28202536 | 28202817 |
| chr_2 | g8044 | g8044.t2 | exon | g8044.t2.exon2 | 28203929 | 28204010 |
| chr_2 | g8044 | g8044.t2 | exon | g8044.t2.exon3 | 28204083 | 28204396 |
| chr_2 | g8044 | g8044.t2 | cds | g8044.t2.CDS1 | 28204096 | 28204396 |
| chr_2 | g8044 | g8044.t2 | exon | g8044.t2.exon4 | 28204469 | 28204728 |
| chr_2 | g8044 | g8044.t2 | cds | g8044.t2.CDS2 | 28204469 | 28204524 |
| chr_2 | g8044 | g8044.t2 | TTS | g8044.t2 | NA | NA |
Sequences
>g8044.t2 Gene=g8044 Length=938
TCTATTATTATAGCTAATATTTTCATTTCTTTTATTTTAGTAATGTTCCAATTTCACCAC
AAAAACTTTTTGAAATGTGCTGGACACTTTTCGTATGCGTAAAAGGTTACTCCCCAAATG
AAAAGCCAAGCGATTTGGTTGCTTCAATCAATCTTTTACTTTGCTGTATTGATTTGATGT
TTACAAATGTGATAAATATTAATCGCACTGATCTCATCAATACTTCTTTTCCTGGATTAC
CAAAAAGCCTCTTCACTGCTTCATATGATGCAAAAAAAGAACTTTAATGAAAGATCGTCA
TTTAGATCAAATTTTGATGTGTTGTGTTTATGTCCTTTGTAAGATTAGGGTAAGAATGAT
ATATATTTGCAGACATCATGAAGTTTTACAGAAATCAGCCACAATCTGACTCGCATATCT
ATCGTAGTGTCTTCATAGAATATGTTCAAACGGATAAAGCTAATGAGATGCAAGAACCGA
AGGCAAGTGCTGCTGAGCCAGAAGTCGTTAATGGTAGAAACACTATATATGGAACTGAAA
GTCGAGGAGACATCATTTATTTTTACAACAAAATATTTGTTCCAAAAATGCAACAATTTG
CGATGAGATTTTCAACTTCTTCACAAAATAATCTTCTTCTATCACCATTGCCACAGTCAC
GTCCTCTGATCTCACCTACACGTACTCTTACTTTTACAATTGAACAAAGCCCCTCAAAGG
TATACATCTATTGATTTCTAAATTATATTTTTTGTCTAAAAAATTTAATTTTTTAGGATC
TCCAGAAAATAAATTCCATGATTAATCAGAATAAGAAGGCAAGCGTTGCAAAGCGTTTTA
TGATGGATACTGAAGATGATTTCCGTCCTGCAAAAGTTTCAAAGGACTCTTCTTTACAAC
TTCGACTTTTAATTGACCGTGAAGAGATTAGCAATTAG
>g8044.t2 Gene=g8044 Length=118
MKFYRNQPQSDSHIYRSVFIEYVQTDKANEMQEPKASAAEPEVVNGRNTIYGTESRGDII
YFYNKIFVPKMQQFAMRFSTSSQNNLLLSPLPQSRPLISPTRTLTFTIEQSPSKVYIY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g8044.t2 | Gene3D | G3DSA:1.10.472.10 | - | 1 | 96 | 0 |
| 2 | g8044.t2 | PANTHER | PTHR13742 | RETINOBLASTOMA-ASSOCIATED PROTEIN RB -RELATED | 1 | 110 | 0 |
| 1 | g8044.t2 | Pfam | PF01857 | Retinoblastoma-associated protein B domain | 1 | 72 | 0 |
| 3 | g8044.t2 | SUPERFAMILY | SSF47954 | Cyclin-like | 1 | 93 | 0 |
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:0006357 | regulation of transcription by RNA polymerase II | BP |
| GO:0005634 | nucleus | CC |
| GO:0051726 | regulation of cell cycle | BP |
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.
