General information for g1283.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 g1283 is located on chr_3: 9426368..9428145 (+ 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 | g1283 | g1283.t1 | isoform | g1283.t1 | 9424553 | 9426368 |
| chr_3 | g1283 | g1283.t1 | exon | g1283.t1.exon1 | 9424553 | 9424883 |
| chr_3 | g1283 | g1283.t1 | cds | g1283.t1.CDS1 | 9424553 | 9424883 |
| chr_3 | g1283 | g1283.t1 | exon | g1283.t1.exon2 | 9424951 | 9426368 |
| chr_3 | g1283 | g1283.t1 | cds | g1283.t1.CDS2 | 9424951 | 9426368 |
| chr_3 | g1283 | g1283.t1 | TSS | g1283.t1 | NA | NA |
| chr_3 | g1283 | g1283.t1 | TTS | g1283.t1 | NA | NA |
Sequences
>g1283.t1 Gene=g1283 Length=1749
ATGGTGACAGACGCGTATGATTTTACTGACAAATTGCTTAACTTGATAACTAAAGAGAAC
AAGATTTTAGAAGTATCAAAAGAATTAAATAATATAAAAGACAATGCCGAGAAAATAAAG
TTTGTAGAAAAACTTCTCCTTGAGAAGAATTTAATGCCAAATAGTGAAGAAAATATGCGA
CAAAATAAGAGTGAAAATCTTGCAAAGCATTATCGTGATGAAGGAAATAAGCACTATAGC
AAACTTGAATTTTTTGATGCCTTAGAATGTTATAATAAATCTCTATGCTTTTGTGAGAAT
AATAGTGAAAATCTTGCAATTGCTTATGCCAATCGTTCTGCAGTTTATTGTGAAATGAAA
TTGTATTCTCGTGCGTTAAGTAACATTGAGGAAGCATTAAAACATAATTATCCACAAAAG
AGCATCGATAAATTGAAAAAGCGTGAAGAACTATGTAAAAATATGTTGAAAGAAAGAATG
CAAGAACCATCGAATGTGCCAATAGGAATCGATCATTTGAAATTGAGTCATGAATCAAAT
CCAAAAATACCATTTATTGCCGATTGTTTGAAGTTGAAATGCGATGAAAACTATGGAAGA
TATGTAATAACAGAACTTGATCTTTCAGCAGGTGAAATTGTTGCCATTGAGTCACCTTTT
AGTAAAATTGTCTTATCTGGAAACAAATATAGATACTGTGCAACATGTCTAAGTGATAAT
TTTTTTGATTTGATACCTTGCGATGAGTGCACTTCTACAATGTTCTGCTCTGAAAAATGC
AAAGAAATAGGATATAAAAAATTTCATCGTTTTGAATGCACGATCGTTGACCGATTGAAA
GAAATTTGCACTAAAATTTTAAGTATTTCTAGTCAAACATTCTTTGAAGCTCTCTACATT
CTCAATTCAGATATCAATCAACTCATGAAAGCAACAGAAGAAGCTCCAAACGTAACAATT
TTTGATTTTGATATGAGCAATGCAAATGATGAAAAGTTGAAATTAAATCAGTATATGGCA
ATAAATTCTCTCGTTACAAATGAATCACAACGTAATGCTGGCGACTTCTTTCAAAGATGT
GGCATTGTTGCTATTTTAACTCATCTTTTTCTCAATTTTACAAGATTAAGCGATCTCCTT
AATACAGAAAGTGCCAAAGATTTTTATCGAAAATTCATATTTAAACAAACTCAAATTGCT
GCATTAAATTATCATGGAATTTTTGATGGCGTATATAAAACAAAAATAATATCTGATAGT
ACTCAATACGGTAGCGGTTCATATTCATTTTGTTCTCTTATAAATCATTCATGTGCTCCA
AATGTTGTGCGCGTGTCATATGATTGTAAAAATTTTGTCATGGTAAATCGTCCAATCAAA
GCAGGAGAGCAATTATTTGATAATTATGGTTATCATCATTGTCTTGAAGATTTTCACACA
CGTCAAAAATCACTCGCTTCGCAATACATGTTTCATTGTTCATGTGAAGCTTGTAAAGGA
AACTATCCACTCTTTCCGAATTTGAAGAGTGTCACAAATACTTTTGATGATTTCATTGGT
GATGATGTTTCTAAACTAATGCATCTGGATTTAGATACTGCCGAAAAGAGATTTAAAGAT
TATTGCAATATAATTGATAAAGTTGATAAATTTTATCCATGCAGAGAAGTAAGTGCACTT
CAAGAATGCATCCTTCAATGTTTCTTTGTATTTAAAACGACTTCATTTAAATTAAAATTA
ATGAAATAG
>g1283.t1 Gene=g1283 Length=582
MVTDAYDFTDKLLNLITKENKILEVSKELNNIKDNAEKIKFVEKLLLEKNLMPNSEENMR
QNKSENLAKHYRDEGNKHYSKLEFFDALECYNKSLCFCENNSENLAIAYANRSAVYCEMK
LYSRALSNIEEALKHNYPQKSIDKLKKREELCKNMLKERMQEPSNVPIGIDHLKLSHESN
PKIPFIADCLKLKCDENYGRYVITELDLSAGEIVAIESPFSKIVLSGNKYRYCATCLSDN
FFDLIPCDECTSTMFCSEKCKEIGYKKFHRFECTIVDRLKEICTKILSISSQTFFEALYI
LNSDINQLMKATEEAPNVTIFDFDMSNANDEKLKLNQYMAINSLVTNESQRNAGDFFQRC
GIVAILTHLFLNFTRLSDLLNTESAKDFYRKFIFKQTQIAALNYHGIFDGVYKTKIISDS
TQYGSGSYSFCSLINHSCAPNVVRVSYDCKNFVMVNRPIKAGEQLFDNYGYHHCLEDFHT
RQKSLASQYMFHCSCEACKGNYPLFPNLKSVTNTFDDFIGDDVSKLMHLDLDTAEKRFKD
YCNIIDKVDKFYPCREVSALQECILQCFFVFKTTSFKLKLMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1283.t1 | Coils | Coil | Coil | 15 | 35 | - |
| 11 | g1283.t1 | Gene3D | G3DSA:1.25.40.10 | - | 63 | 158 | 6.1E-11 |
| 10 | g1283.t1 | Gene3D | G3DSA:2.170.270.10 | SET domain | 201 | 499 | 3.0E-29 |
| 9 | g1283.t1 | Gene3D | G3DSA:3.30.60.180 | - | 232 | 285 | 3.0E-29 |
| 8 | g1283.t1 | Gene3D | G3DSA:3.30.70.3410 | - | 286 | 404 | 3.0E-29 |
| 3 | g1283.t1 | PANTHER | PTHR47111 | BCDNA.LD29892 | 19 | 575 | 3.7E-120 |
| 2 | g1283.t1 | Pfam | PF00856 | SET domain | 199 | 470 | 1.5E-12 |
| 1 | g1283.t1 | Pfam | PF01753 | MYND finger | 233 | 273 | 7.1E-5 |
| 7 | g1283.t1 | ProSitePatterns | PS01360 | Zinc finger MYND-type signature. | 233 | 273 | - |
| 15 | g1283.t1 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 68 | 139 | 8.755 |
| 13 | g1283.t1 | ProSiteProfiles | PS50865 | Zinc finger MYND-type profile. | 233 | 273 | 8.863 |
| 14 | g1283.t1 | ProSiteProfiles | PS50280 | SET domain profile. | 316 | 470 | 8.857 |
| 4 | g1283.t1 | SUPERFAMILY | SSF48452 | TPR-like | 66 | 139 | 1.0E-9 |
| 5 | g1283.t1 | SUPERFAMILY | SSF82199 | SET domain | 186 | 496 | 4.36E-19 |
| 6 | g1283.t1 | SUPERFAMILY | SSF144232 | HIT/MYND zinc finger-like | 228 | 278 | 1.12E-9 |
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 transcript has been annotated with K24634 (SET and MYND domain-containing protein 4 [EC:2.1.1.-])
Pathway
This gene does not belong to any pathways.
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.
