General information for g5332.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5332 is located on chr_2: 8873834..8877343 (- 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 | g5332 | g5332.t1 | TTS | g5332.t1 | 8873352 | 8873352 |
| chr_2 | g5332 | g5332.t1 | isoform | g5332.t1 | 8873834 | 8874892 |
| chr_2 | g5332 | g5332.t1 | exon | g5332.t1.exon1 | 8873834 | 8874892 |
| chr_2 | g5332 | g5332.t1 | cds | g5332.t1.CDS1 | 8873834 | 8874892 |
| chr_2 | g5332 | g5332.t1 | TSS | g5332.t1 | 8874972 | 8874972 |
Sequences
>g5332.t1 Gene=g5332 Length=1059
ATGTCACAGGATTCAACTAATCAACCAAAAAGACCTAAACTCAATTCGAATGATGGACAA
ACACGGTTTTATCTTGAATTGCCTAAAAACCAGACAAAAAAAATTGTTTTTAAAAATGGG
TTTGGAAATTTTACAATTGACATGAAGTCATCTATTACGAATCGAATTATTCATCCTAAT
ATGTGGACTACTCAAGCTGTGTATTCAGGACAGATAACTGTGAAGCCACAAGATGAACAG
ATTTTGGAAAATGCAGACCGAATTCAAATTTTAATACATATAACAGGTCCAAATCCTGAT
GGTGATCCTCTTTGTTCATTTGAAGCCAAACATATTGAAAATGGAATTTTTAATTTTTCA
ATTGATATTCGAACAAATGAAGCAAAATATGCAAGTTTTAATGTTTCTATTCGAAATACT
GAAGAACCTTCAGAATCGAAAACTTCAAGAGATTATTTAAAAAAATTGTTACATAACTCG
CAACACACAGATTTCATTATTAAAACAAGCGATCAAGCTAAAGAGATCAAAGTCCACAAA
ATTATTATAATGAGATCAGAGTTTTTTTCAAATGTTTTAAATTGTCACAGCAGAGAAGCA
CAAACTGGAGTGATTGAAGTAACAGAGGATTATGCAGTGATGTATGAATTGTGTCGTTAT
CTTTATTATGACAGATTTAATAAATCTGAAGTTATTCCATTGATGATTGCTGCAGACAAA
TATCAAATCAAAAATTTATTCTTAGAGTGCAAAAAGTATTTGATGAAAAATATAACCATG
GATAATTGTGTTTATATTTATTATTTGACTAAAATTATTGTTAGTGAAGATTTAAAAGCA
ATGGCATTAAAGACCTTTAATGAAAATCGTTTGGAGATACTTTCATCTGAACGATGGAAA
GAAGCAAAAAAAGTGAATGTTGAATATGCTTTAAATTTAATGGAAGAAGCAGAATTGTTA
ATAGACAGAAACAGAAGTTCTGAATATTCCGAACACAATCAATTTTCGAGAACTCATCCT
ACCCCAGAACCTATTTTGATTGAAGACGAAAGCAGTTAA
>g5332.t1 Gene=g5332 Length=352
MSQDSTNQPKRPKLNSNDGQTRFYLELPKNQTKKIVFKNGFGNFTIDMKSSITNRIIHPN
MWTTQAVYSGQITVKPQDEQILENADRIQILIHITGPNPDGDPLCSFEAKHIENGIFNFS
IDIRTNEAKYASFNVSIRNTEEPSESKTSRDYLKKLLHNSQHTDFIIKTSDQAKEIKVHK
IIIMRSEFFSNVLNCHSREAQTGVIEVTEDYAVMYELCRYLYYDRFNKSEVIPLMIAADK
YQIKNLFLECKKYLMKNITMDNCVYIYYLTKIIVSEDLKAMALKTFNENRLEILSSERWK
EAKKVNVEYALNLMEEAELLIDRNRSSEYSEHNQFSRTHPTPEPILIEDESS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5332.t1 | Gene3D | G3DSA:3.30.710.10 | Potassium Channel Kv1.1; Chain A | 134 | 288 | 4.7E-27 |
| 6 | g5332.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 5 | g5332.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 330 | 352 | - |
| 2 | g5332.t1 | PANTHER | PTHR24413 | SPECKLE-TYPE POZ PROTEIN | 87 | 317 | 1.9E-22 |
| 1 | g5332.t1 | Pfam | PF00651 | BTB/POZ domain | 153 | 257 | 4.9E-11 |
| 8 | g5332.t1 | ProSiteProfiles | PS50097 | BTB domain profile. | 163 | 230 | 10.654 |
| 4 | g5332.t1 | SMART | SM00225 | BTB_4 | 163 | 258 | 3.2E-7 |
| 3 | g5332.t1 | SUPERFAMILY | SSF54695 | POZ domain | 144 | 258 | 2.35E-14 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5332/g5332.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5332.t1.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.
