General information for g2463.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative SET and MYND domain-containing protein 4.
Parent gene
- The parent gene g2463 is located on chr_3: 18105970..18107710 (- 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 | g2463 | g2463.t1 | isoform | g2463.t1 | 18105970 | 18107710 |
| chr_3 | g2463 | g2463.t1 | exon | g2463.t1.exon1 | 18105970 | 18106297 |
| chr_3 | g2463 | g2463.t1 | cds | g2463.t1.CDS1 | 18105970 | 18106297 |
| chr_3 | g2463 | g2463.t1 | exon | g2463.t1.exon2 | 18106357 | 18106972 |
| chr_3 | g2463 | g2463.t1 | cds | g2463.t1.CDS2 | 18106357 | 18106972 |
| chr_3 | g2463 | g2463.t1 | exon | g2463.t1.exon3 | 18107107 | 18107710 |
| chr_3 | g2463 | g2463.t1 | cds | g2463.t1.CDS3 | 18107107 | 18107710 |
| chr_3 | g2463 | g2463.t1 | TSS | g2463.t1 | NA | NA |
| chr_3 | g2463 | g2463.t1 | TTS | g2463.t1 | NA | NA |
Sequences
>g2463.t1 Gene=g2463 Length=1548
ATGCGAAAATCAAATGAGCACGCTAACAAATGTAGAGATGAAGGCAACAAGTTGTATAGC
ACTCGTAATTTCTTTGATGCACTCTTGAAATATAATGAGAGCTTGTGTTATGCACTTGAT
GAGAGTGTCAGTGCTTTGGCCTACGCAAATCGCTCTGCAGTTTATTTTGAAATTAAATTG
TATGAACATTGTTTAACAAACATTGAGTTTGCGAAATTAAATAAATATCCTGAGAAAAAT
GCTCATATACTTCTGTCAAGAAGTGAAAAGTGTGTGGCGCTAATGAACCGTGATTCTGAT
AAGCATCGACAGTTGCCTGAAAATTTGTCATGTTTTACAAAATTATCGTACAAAGAAAAT
TCACAAATGCCATTTATCGTCGATTGTCTCGAATTGAGAACTAATGATGTATTTGGTAGA
CATATTGTCACTACACGTGATTTAAAAGTTGGCGATATGTTGACATTTGAGGAGCCATAT
TTTAAAGTAATTAAGAGCGACTCACGTTATGAGAGTTGTCAAGAATTGAATAAATATCAG
CGATGTGCTGCTTGTTTGAGAGACAATTTAATGGATTTAATACCCTGCAAGAAATGCATT
TCTACAATGTATTGTTCACAAAAATGCTTAGAATATGCTGATAGAAATTTTCATAATTAC
GAGTGTAACATCAATGAAACACTTTTAAAAGCAGGCATCATGCAAATGGTTATGAGAGTT
TTCTTTCAATCACTCAACATTTTCAACGGATCAATCGACGAGCTAGAAAAATTTCTTAAT
GACTGTACAAAGACATCAACATGTGTCTATGATTTCGATTTTTCAACAACTGATGAACAT
AAACTTGCAAAGAGTTATCTGCTATCTTCTTATAATCTTGCTAGAAATGAGGCTGTGACA
TCTGATGAATCTTCACATTCAATTTTCATGCTTGATCCATTATTAATTGAATTATGGGAT
TCACACTCTATTTTCATTACAAAATTCATAAAAAGATTTATAAAAATTTATGATTCAAAT
TTTCATGGGATTTGTGGATGGTCTGTAAAGAAGTCTGAAAACTACGAGGCACAAATGATC
GGTGTTGGTTGTTATTGTTTTTCTTCTTTAATAAATCATTCTTGTTCACCATGTATTAAC
CGTCTTTATTCATATGACAAATTAATAATTGTTGTTGATAGACCGATTAAAAAAGGTGAA
CAGCTTTTTGATTGCTACAGATCTCCATTTTTTAAACAATCAAAATCAGAGCGACAGTAT
TCTTTGCTAAATGAATATGCATTTCGATGTCAATGTGAAGCTTGTGTCAAAAATTATCCA
CTTTTTCATTCTCTGAAATCTTTTAATAAGAAACTTCTTAAATATGCAAAGAAAAGCAAA
AATGAAATACAAAAACTTGACTTTGTTGAGGCTCAAAGGAAATTTCAAGAAATTTGTTCA
ATCATTCAAGATTCCAAAGAATATCCATCATCTGAAATTATTTTATTACAAGAATGTGTT
CAACAGTGTTTGTCAATTATTTTGAAGCCTAAAAATTTAATTTTATAG
>g2463.t1 Gene=g2463 Length=515
MRKSNEHANKCRDEGNKLYSTRNFFDALLKYNESLCYALDESVSALAYANRSAVYFEIKL
YEHCLTNIEFAKLNKYPEKNAHILLSRSEKCVALMNRDSDKHRQLPENLSCFTKLSYKEN
SQMPFIVDCLELRTNDVFGRHIVTTRDLKVGDMLTFEEPYFKVIKSDSRYESCQELNKYQ
RCAACLRDNLMDLIPCKKCISTMYCSQKCLEYADRNFHNYECNINETLLKAGIMQMVMRV
FFQSLNIFNGSIDELEKFLNDCTKTSTCVYDFDFSTTDEHKLAKSYLLSSYNLARNEAVT
SDESSHSIFMLDPLLIELWDSHSIFITKFIKRFIKIYDSNFHGICGWSVKKSENYEAQMI
GVGCYCFSSLINHSCSPCINRLYSYDKLIIVVDRPIKKGEQLFDCYRSPFFKQSKSERQY
SLLNEYAFRCQCEACVKNYPLFHSLKSFNKKLLKYAKKSKNEIQKLDFVEAQRKFQEICS
IIQDSKEYPSSEIILLQECVQQCLSIILKPKNLIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2463.t1 | Gene3D | G3DSA:1.25.40.10 | - | 3 | 103 | 2.3E-8 |
| 9 | g2463.t1 | Gene3D | G3DSA:2.170.270.10 | SET domain | 141 | 435 | 4.8E-27 |
| 8 | g2463.t1 | Gene3D | G3DSA:3.30.60.180 | - | 181 | 230 | 4.8E-27 |
| 7 | g2463.t1 | Gene3D | G3DSA:3.30.70.3410 | - | 231 | 341 | 4.8E-27 |
| 2 | g2463.t1 | PANTHER | PTHR47111 | BCDNA.LD29892 | 3 | 509 | 3.2E-95 |
| 1 | g2463.t1 | Pfam | PF00856 | SET domain | 139 | 406 | 6.2E-10 |
| 6 | g2463.t1 | ProSitePatterns | PS01360 | Zinc finger MYND-type signature. | 182 | 222 | - |
| 12 | g2463.t1 | ProSiteProfiles | PS50280 | SET domain profile. | 128 | 407 | 9.711 |
| 11 | g2463.t1 | ProSiteProfiles | PS50865 | Zinc finger MYND-type profile. | 182 | 222 | 8.535 |
| 3 | g2463.t1 | SUPERFAMILY | SSF48452 | TPR-like | 6 | 71 | 3.31E-8 |
| 4 | g2463.t1 | SUPERFAMILY | SSF82199 | SET domain | 126 | 433 | 4.91E-20 |
| 5 | g2463.t1 | SUPERFAMILY | SSF144232 | HIT/MYND zinc finger-like | 177 | 226 | 9.59E-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. There were no conditions that were differentially expressed