General information for g568.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g568 is located on chr_3: 4173512..4175310 (+ 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 | g568 | g568.t3 | isoform | g568.t3 | 4173062 | 4174372 |
| chr_3 | g568 | g568.t3 | exon | g568.t3.exon1 | 4173062 | 4173447 |
| chr_3 | g568 | g568.t3 | cds | g568.t3.CDS1 | 4173293 | 4173447 |
| chr_3 | g568 | g568.t3 | exon | g568.t3.exon2 | 4173512 | 4173667 |
| chr_3 | g568 | g568.t3 | cds | g568.t3.CDS2 | 4173512 | 4173667 |
| chr_3 | g568 | g568.t3 | exon | g568.t3.exon3 | 4173726 | 4174372 |
| chr_3 | g568 | g568.t3 | cds | g568.t3.CDS3 | 4173726 | 4174371 |
| chr_3 | g568 | g568.t3 | TSS | g568.t3 | NA | NA |
| chr_3 | g568 | g568.t3 | TTS | g568.t3 | NA | NA |
Sequences
>g568.t3 Gene=g568 Length=1189
GATAAAAAGAAGCGTGAAAATTTAGAAAAAGAAAGAAGTGAAAGAAATGAAAAGAGACAT
ACACCTTCACCAGAACGAAAAAGTTCTTCAAGACGTCGTTCTAGGTCTAGAGATAGAGAC
AGAGAAGCCCAACGTGAGCGTGACAGAGAACAACGTGAACGTGAGAGGGAGAGGGAAAGA
GAACGACGCGAAATTGATCGTCGACGTGAACAAGAACTAAGAGAAAAAGAAATGCGTGAG
CGTGAAAGATTTCGAGAGGAACCAAAGCAGATGAAAAATGCAAAAGAAATTCAACGTGAG
AAAGAAATTGCTGAAGAAGAATATGAACGTCGTAGAGCACAGAAAAAAGCTCGTGAAAAA
CATGAAGATTATTTAGCAAGATTAGAAGCATGGGAAAGTAGAGAAAGAAAAAAAGCTAAA
GAATATGAAAAACTAAGGGAGAAAGAAATTAAGCGTGAAGAAAAACGTGAAAGGGAAGCC
AAAATTATGAAAGAATTTTTAGAAGATTATGACGATGAGCGTGATGATCCTAAATTTTAT
AAAGGGAAAGCTTATAAAACACTCATGGCAGAACGATTGGCAGAAGCTGATGCAGACTTA
AAGGATCGTGAAGAAGAACGCGAAGAGCTAGAAAAACTGAAAGAAGAAATTTTCAGTGGT
AAATATGACAATCCGACACAAGAATTTGAACGACAAAAACAAGAAATGGAAGAACGATAT
AAACCCAAGATTTTAATTGACGTAAACATGGATGAAGATGACCAACAAGAATATCATAGA
GATAAGACTCGAGAACAAGACAGGGCGAAAGCTAGAGAACGAAGAATAACACAAAAAGAT
AGATATGTTAAGGACAAATCTTCACGTGAATTTTCAAGTCTTGATGCCGAACCAATTGAG
TCTGATTCAAGTGGAGGTCACAATTTTTCACCATCAAATAATCGAGGTGGATCAGAATCA
AGAGACGGCATGGACGATGAGATGTCGAGAAACTCTTTGCTTTCCAATTCAAATACACCA
ACAACACCCAATAGTCCGTCTGGTAATCAAAATTCAGCAACAGGAATTGGAATGGGCTTT
AGTTTGAGTTTAAATAAAAAGAGAAAAATTGATCCTAAGAGTGCATTTGCATTGGATGAT
GATGGTGAAGAAGTAAATGGTCCACAGAAAAAGAAATTAGTACCTCTTG
>g568.t3 Gene=g568 Length=319
MRERERFREEPKQMKNAKEIQREKEIAEEEYERRRAQKKAREKHEDYLARLEAWESRERK
KAKEYEKLREKEIKREEKREREAKIMKEFLEDYDDERDDPKFYKGKAYKTLMAERLAEAD
ADLKDREEEREELEKLKEEIFSGKYDNPTQEFERQKQEMEERYKPKILIDVNMDEDDQQE
YHRDKTREQDRAKARERRITQKDRYVKDKSSREFSSLDAEPIESDSSGGHNFSPSNNRGG
SESRDGMDDEMSRNSLLSNSNTPTTPNSPSGNQNSATGIGMGFSLSLNKKRKIDPKSAFA
LDDDGEEVNGPQKKKLVPL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g568.t3 | Coils | Coil | Coil | 14 | 88 | - |
| 9 | g568.t3 | Coils | Coil | Coil | 116 | 139 | - |
| 4 | g568.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 3 | g568.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 137 | 219 | - |
| 6 | g568.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 137 | 283 | - |
| 7 | g568.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 220 | 241 | - |
| 2 | g568.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 252 | 282 | - |
| 5 | g568.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 298 | 319 | - |
| 1 | g568.t3 | PANTHER | PTHR18806 | RBM25 PROTEIN | 2 | 319 | 1.0E-49 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g568/g568.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g568.t3.fa.iupred3.txt does not exist
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.
