General information for g2646.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2646 is located on chr_3: 19309891..19310811 (+ 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 | g2646 | g2646.t1 | isoform | g2646.t1 | 19308183 | 19309891 |
| chr_3 | g2646 | g2646.t1 | exon | g2646.t1.exon1 | 19308183 | 19308804 |
| chr_3 | g2646 | g2646.t1 | cds | g2646.t1.CDS1 | 19308183 | 19308804 |
| chr_3 | g2646 | g2646.t1 | exon | g2646.t1.exon2 | 19308868 | 19309483 |
| chr_3 | g2646 | g2646.t1 | cds | g2646.t1.CDS2 | 19308868 | 19309483 |
| chr_3 | g2646 | g2646.t1 | exon | g2646.t1.exon3 | 19309558 | 19309891 |
| chr_3 | g2646 | g2646.t1 | cds | g2646.t1.CDS3 | 19309558 | 19309891 |
| chr_3 | g2646 | g2646.t1 | TSS | g2646.t1 | NA | NA |
| chr_3 | g2646 | g2646.t1 | TTS | g2646.t1 | NA | NA |
Sequences
>g2646.t1 Gene=g2646 Length=1572
ATGATTGACATACTCGACTCTTTCAAATCAAATGAAATTGCTAATGAGTGTAGAAATGCA
GGAAATAAGTTTTATTGTGAACGAAATTTCTTCGATGCTCTTGTAAAATATAATGAAAGT
TTATGCTATGCTGTCATTGATAGTGAAGCTGTTGGTTTAGCATATGCCAATCGTTCTGCA
GTTTATTTTGAAATGAAGCTATTTGATAAATGCCTTAAGAATATTGAACTGGCAAAAGCA
AACAATTATCCCAAAAAGAATTTTCACATTCTTGACAAAAGAAGCCAAAAATGTAACGAA
TTAAAAGCATATAGCAATGATCAAGAACGTTTTTTAGAAAATCCGTTTGATTTTGTAAAG
TTATCATACAATGAAAATTCACGTCTACCATTTGTAGTTGAAAACCTTGAATTGAAACAG
AATGATATTTTCGGTAGATATATTTTAGCAAAACAAGATTTCAATGTAGGAGATATTTTA
GCAATAGAAGAGCCATATTTCAAAATTCTAAAGAGTGATAGTCGATATGATAGCTGTCAA
GAAACAAATAAATATCAACGTTGTGCGGTGTGCTTAAAAGACAATTTACTTGATCTCATT
TCATGCTCAACGTGTAGTTCAACAATGTATTGTTCTCAAGAGTGTTTGAAATATGCTGAG
AAAAATTTTCATAATTATGAATGTGCAATTATAATGATCCTTTTAAAGTCTGGAATAATG
CAAATGGCAATGAGAGTCTTCTTCCAATCATTAAATATTTTCGATGGATCAATAAGTGAA
TTAGAACAATTTCTAAATAATTGCAAAAAATCTTCAACATCAGTTTATGATTTTGACTTT
TCTGATGCAAATGAAAAAATTCGTGCCAAAAACTGTCTTCTTTCAGCATACAATTTGACA
AGAAATGATGAAGATTCTCAAAATGAGAGTCCTCAAAAATTATTTATGCTTCATCCTGTA
CTTGCTGAAATGTGGAAAAGTCATACTAAATTCATCACAAACTTCATTTCAAGAATTTTA
AAAATTGGTGACTCAAATTTTCATGGCATATGTGGCTGGTCAATTCAAAAGCATAAAAAT
GTTGAGCCCGAAATGGTGGGAATAGGTTGTTATCCATTCATTTCACTCATAAATCATGCG
TGTGTGCCAAATGTCAATCGTATTTATGCAGAAGGAAAAATGTTTTTACTTGTTGAACGA
CCGATCATGAAGGGTGAACAGCTGTTTGATTGTTATAGAACCACATTTTTCACTCAGTCA
AAAAATGAACGCCAAGCAATTTTATTTGAAAGTTATTCTTTTCATTGTCAATGTGAAGCG
TGCATTAAAAATTATCCGCTATTTCATGCTCTAAAATCATTTGACAAGAAGCTTTTGAAA
TATGCAAAAAAATGCAAAAATGATGTAAGAAAGCTTGAAACAGATGAAGCTAAGAAGAAG
TTTTATGAATACTGTGCTATTATACAAGAGCAATACTTCAATCATTTTCCATCATCTGAA
ATTGTACTATTTCAAGAATGTCTCCAACAATGTATATCAATTATTATCAAACCAAAACTT
TTGTTTCCATAG
>g2646.t1 Gene=g2646 Length=523
MIDILDSFKSNEIANECRNAGNKFYCERNFFDALVKYNESLCYAVIDSEAVGLAYANRSA
VYFEMKLFDKCLKNIELAKANNYPKKNFHILDKRSQKCNELKAYSNDQERFLENPFDFVK
LSYNENSRLPFVVENLELKQNDIFGRYILAKQDFNVGDILAIEEPYFKILKSDSRYDSCQ
ETNKYQRCAVCLKDNLLDLISCSTCSSTMYCSQECLKYAEKNFHNYECAIIMILLKSGIM
QMAMRVFFQSLNIFDGSISELEQFLNNCKKSSTSVYDFDFSDANEKIRAKNCLLSAYNLT
RNDEDSQNESPQKLFMLHPVLAEMWKSHTKFITNFISRILKIGDSNFHGICGWSIQKHKN
VEPEMVGIGCYPFISLINHACVPNVNRIYAEGKMFLLVERPIMKGEQLFDCYRTTFFTQS
KNERQAILFESYSFHCQCEACIKNYPLFHALKSFDKKLLKYAKKCKNDVRKLETDEAKKK
FYEYCAIIQEQYFNHFPSSEIVLFQECLQQCISIIIKPKLLFP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2646.t1 | Gene3D | G3DSA:1.25.40.10 | - | 2 | 115 | 2.3E-7 |
| 10 | g2646.t1 | Gene3D | G3DSA:2.170.270.10 | SET domain | 147 | 441 | 1.4E-32 |
| 9 | g2646.t1 | Gene3D | G3DSA:3.30.60.180 | - | 187 | 252 | 1.4E-32 |
| 8 | g2646.t1 | Gene3D | G3DSA:3.30.70.3410 | - | 253 | 347 | 1.4E-32 |
| 3 | g2646.t1 | PANTHER | PTHR47111 | BCDNA.LD29892 | 8 | 517 | 8.2E-99 |
| 2 | g2646.t1 | Pfam | PF00856 | SET domain | 145 | 412 | 5.5E-11 |
| 1 | g2646.t1 | Pfam | PF01753 | MYND finger | 188 | 228 | 2.8E-6 |
| 7 | g2646.t1 | ProSitePatterns | PS01360 | Zinc finger MYND-type signature. | 188 | 228 | - |
| 13 | g2646.t1 | ProSiteProfiles | PS50280 | SET domain profile. | 134 | 413 | 10.59 |
| 12 | g2646.t1 | ProSiteProfiles | PS50865 | Zinc finger MYND-type profile. | 188 | 228 | 9.053 |
| 4 | g2646.t1 | SUPERFAMILY | SSF48452 | TPR-like | 12 | 78 | 7.59E-8 |
| 5 | g2646.t1 | SUPERFAMILY | SSF82199 | SET domain | 132 | 439 | 2.22E-21 |
| 6 | g2646.t1 | SUPERFAMILY | SSF144232 | HIT/MYND zinc finger-like | 183 | 231 | 2.27E-8 |
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.
