General information for g504.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g504 is located on chr_3: 3817236..3817835 (+ 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 | g504 | g504.t3 | isoform | g504.t3 | 3816624 | 3817835 |
| chr_3 | g504 | g504.t3 | exon | g504.t3.exon1 | 3816624 | 3816786 |
| chr_3 | g504 | g504.t3 | exon | g504.t3.exon2 | 3816842 | 3817065 |
| chr_3 | g504 | g504.t3 | cds | g504.t3.CDS1 | 3816882 | 3817065 |
| chr_3 | g504 | g504.t3 | exon | g504.t3.exon3 | 3817118 | 3817164 |
| chr_3 | g504 | g504.t3 | cds | g504.t3.CDS2 | 3817118 | 3817164 |
| chr_3 | g504 | g504.t3 | exon | g504.t3.exon4 | 3817236 | 3817675 |
| chr_3 | g504 | g504.t3 | cds | g504.t3.CDS3 | 3817236 | 3817675 |
| chr_3 | g504 | g504.t3 | exon | g504.t3.exon5 | 3817730 | 3817835 |
| chr_3 | g504 | g504.t3 | cds | g504.t3.CDS4 | 3817730 | 3817835 |
| chr_3 | g504 | g504.t3 | TTS | g504.t3 | 3817937 | 3817937 |
| chr_3 | g504 | g504.t3 | TSS | g504.t3 | NA | NA |
Sequences
>g504.t3 Gene=g504 Length=980
ATGGTAAGAACTTAGTATAAATTTAAAAAATTGTTACTAAATAATTATTAACTTATTAAT
TACATTGATAGACTTCGGTTTTCCTTATTAAATTGGATGGTAGTCAAGAAAAACTCAAAT
ATAGTTTTCAAAAAATTTATAAACAGAAAGATTTTGGAACATGGACAATTTCGATCACTG
CTACTCCGAAGGAATTTTCAGGGATGGTTAATTTGACGCCAAATAATTTTAATACATACA
TTTATGCTGATCAAATACAAATTAAGACTATAATACGCGAGCTTAAAAATAATAATCCTG
AGAGATTAGAAGAAAAGTATCGTGCTATTGAGATTAAAGCAAAATTACATTCTGAGCTAA
TTTATATCTTTGACTTTAAATATTTTGTTAAAAATTCGCCATCATTGTACATACCGAAAT
CACTTATTCTAATGATACCAGCTATTCCATTTGTATTAAATACCAAAGAAATCCAAAAAT
TGAAAAGTATTTGTGACAAAAAAATTAACTGTGATGTTACATTAATGGTTCGAGATAAAG
AGCTCAAAGCACATAAAGCCGTTTTGGAAAAATGTAAAGTTTTCAAAAAAATGTTTGAAG
AAAATCCTGATGTTATTCAAATTAATGACGTTGATTATGATGTTTTAATAGAAATGTGTC
GCTTTTTATACTGTAATGAAATTTTCTACAAAAATATACTAACTCTAAAACTCATCGTGG
CAGCTAAAAACTACATGATAACTGATCTTGTTCAAAAGTGCGAAGAATATCTGATTGATC
ACATAGATTTTTACAACGTCATCAATATTTTAATACAAGCTGATGCATTGAAAATGGACA
GGATGCGTAATGCTGCAATTGAGTTTATCATCATCAATCGTGAAATAATTTATCTCACTC
AAGATTGGTCAGAGTTCGAAAAGAATCATAAAGCTTTAGTTCTGTTAATCGGAGAAAAAA
TTATATGCAAAGTTACTTGA
>g504.t3 Gene=g504 Length=258
MVNLTPNNFNTYIYADQIQIKTIIRELKNNNPERLEEKYRAIEIKAKLHSELIYIFDFKY
FVKNSPSLYIPKSLILMIPAIPFVLNTKEIQKLKSICDKKINCDVTLMVRDKELKAHKAV
LEKCKVFKKMFEENPDVIQINDVDYDVLIEMCRFLYCNEIFYKNILTLKLIVAAKNYMIT
DLVQKCEEYLIDHIDFYNVINILIQADALKMDRMRNAAIEFIIINREIIYLTQDWSEFEK
NHKALVLLIGEKIICKVT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g504.t3 | CDD | cd18186 | BTB_POZ_ZBTB_KLHL-like | 103 | 177 | 2.57167E-13 |
| 6 | g504.t3 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 84 | 194 | 5.4E-19 |
| 5 | g504.t3 | Gene3D | G3DSA:1.25.40.420 | - | 195 | 257 | 2.6E-7 |
| 2 | g504.t3 | PANTHER | PTHR24413:SF213 | FI01029P-RELATED | 86 | 253 | 2.7E-25 |
| 3 | g504.t3 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 86 | 253 | 2.7E-25 |
| 1 | g504.t3 | Pfam | PF00651 | BTB/POZ domain | 95 | 192 | 1.5E-16 |
| 8 | g504.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 67 | - |
| 9 | g504.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 68 | 85 | - |
| 7 | g504.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 86 | 258 | - |
| 12 | g504.t3 | ProSiteProfiles | PS50097 | BTB domain profile. | 103 | 164 | 15.163 |
| 11 | g504.t3 | SMART | SM00225 | BTB_4 | 103 | 194 | 5.5E-20 |
| 4 | g504.t3 | SUPERFAMILY | SSF54695 | POZ domain | 89 | 194 | 1.06E-22 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g504/g504.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g504.t3.fa.iupred3.txt does not exist
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