General information for g1875.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1875 is located on chr_3: 13590005..13591166 (+ 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 | g1875 | g1875.t1 | isoform | g1875.t1 | 13590005 | 13591166 |
| chr_3 | g1875 | g1875.t1 | exon | g1875.t1.exon1 | 13590005 | 13590147 |
| chr_3 | g1875 | g1875.t1 | cds | g1875.t1.CDS1 | 13590005 | 13590147 |
| chr_3 | g1875 | g1875.t1 | exon | g1875.t1.exon2 | 13590208 | 13590469 |
| chr_3 | g1875 | g1875.t1 | cds | g1875.t1.CDS2 | 13590208 | 13590469 |
| chr_3 | g1875 | g1875.t1 | exon | g1875.t1.exon3 | 13590527 | 13590990 |
| chr_3 | g1875 | g1875.t1 | cds | g1875.t1.CDS3 | 13590527 | 13590990 |
| chr_3 | g1875 | g1875.t1 | exon | g1875.t1.exon4 | 13591043 | 13591166 |
| chr_3 | g1875 | g1875.t1 | cds | g1875.t1.CDS4 | 13591043 | 13591166 |
| chr_3 | g1875 | g1875.t1 | TSS | g1875.t1 | NA | NA |
| chr_3 | g1875 | g1875.t1 | TTS | g1875.t1 | NA | NA |
Sequences
>g1875.t1 Gene=g1875 Length=993
ATGGTAAATTATATAATTGAACAACGGAAATTTATGTGGAAGATAAGCAATTTTACAAAA
GAAAGTTTAAGTAGTTATAATGACGGAAGAAATTTGACATCTGAAAGTTTTGAGATTTTA
CTCGGGAATAATAAAACTAAATGGCGTTTTACTATTTATCCTTATATAGAAGAACACTGT
GATTTTTATCTCCTTAAAGATTCTGTCGATTATGACAATTTTTTCATAAAATTGAGTGCA
GGTATTCTTACTTCAGACGACAAATCAGAATGTGTTAAACATTTTGAAAACAAAAGTAAT
TCGATAATGAGGGGATGGGGATGGAAACAGTCGATTAAAGTATCCGACATTTTCGATAAA
CGCAGAAAGTTTCTCACTAATTCTACTCTGACATTACTTCTAAACCTTGAACTTCAAACA
CAAATGGAACCAGAAATACAAACAAATGATACTTTGAGTGAAATGGGATTAACTTATTTT
AATTCAGATTTGTTTAGTGATTTGACTTTTATTTGTTCAGACAATACTGAAATTCCTGCA
CATCGTTGCATTCTCGCTGGTCGATCTTCATTCTTCAAAAATCTTCTAACTAAAGATTAT
TTAGATGAGATCTTAATTGAAGATATTAAGAAGGATGTAATGTTGGAATTATTGAGATAT
ATTTACACGAAGAAAGTTGAAAATCTTGATAAAGTATCATTGGAATTAATATATGCTGCT
CAGAAATATGATTTGCCGGATTTGATATCTATTTGCATCGCAAATTTGATCAAAAATGTA
TCAAAACTTAACGTCTTTCAATATCTTTTCTTTGCTAATAAGCACAAAGAAGAAGAATTG
AAGCAAGCATGCCTTAAATTTATTAATAAAAATTTTGAAAAATTGGAAAATCGAGGAGAA
TGGCTGTTTTGTAATCATAATTTAATGCTAGAAATTATGGGATTTATTCGAAAGCAAAAT
AATGATGTGATTTTAATATTAAACTCTCTTTAA
>g1875.t1 Gene=g1875 Length=330
MVNYIIEQRKFMWKISNFTKESLSSYNDGRNLTSESFEILLGNNKTKWRFTIYPYIEEHC
DFYLLKDSVDYDNFFIKLSAGILTSDDKSECVKHFENKSNSIMRGWGWKQSIKVSDIFDK
RRKFLTNSTLTLLLNLELQTQMEPEIQTNDTLSEMGLTYFNSDLFSDLTFICSDNTEIPA
HRCILAGRSSFFKNLLTKDYLDEILIEDIKKDVMLELLRYIYTKKVENLDKVSLELIYAA
QKYDLPDLISICIANLIKNVSKLNVFQYLFFANKHKEEELKQACLKFINKNFEKLENRGE
WLFCNHNLMLEIMGFIRKQNNDVILILNSL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1875.t1 | CDD | cd18186 | BTB_POZ_ZBTB_KLHL-like | 165 | 243 | 0.0000000 |
| 11 | g1875.t1 | CDD | cd14733 | BACK | 264 | 312 | 0.0000011 |
| 8 | g1875.t1 | Gene3D | G3DSA:2.60.210.10 | Apoptosis | 8 | 138 | 0.0000000 |
| 7 | g1875.t1 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 157 | 297 | 0.0000000 |
| 2 | g1875.t1 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 37 | 313 | 0.0000000 |
| 3 | g1875.t1 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 37 | 313 | 0.0000000 |
| 1 | g1875.t1 | Pfam | PF00651 | BTB/POZ domain | 159 | 259 | 0.0000000 |
| 9 | g1875.t1 | ProSiteProfiles | PS50144 | MATH/TRAF domain profile. | 8 | 136 | 13.1800000 |
| 10 | g1875.t1 | ProSiteProfiles | PS50097 | BTB domain profile. | 166 | 230 | 16.5070000 |
| 6 | g1875.t1 | SMART | SM00225 | BTB_4 | 166 | 260 | 0.0000000 |
| 4 | g1875.t1 | SUPERFAMILY | SSF49599 | TRAF domain-like | 8 | 136 | 0.0000000 |
| 5 | g1875.t1 | SUPERFAMILY | SSF54695 | POZ domain | 152 | 259 | 0.0000000 |
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:0005515 | protein binding | MF |
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. There were no conditions that were differentially expressed