General information for g1306.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 g1306 is located on chr_3: 9495080..9496663 (+ 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 | g1306 | g1306.t1 | isoform | g1306.t1 | 9495080 | 9496663 |
| chr_3 | g1306 | g1306.t1 | exon | g1306.t1.exon1 | 9495080 | 9496663 |
| chr_3 | g1306 | g1306.t1 | cds | g1306.t1.CDS1 | 9495080 | 9496663 |
| chr_3 | g1306 | g1306.t1 | TSS | g1306.t1 | NA | NA |
| chr_3 | g1306 | g1306.t1 | TTS | g1306.t1 | NA | NA |
Sequences
>g1306.t1 Gene=g1306 Length=1584
ATGGAAAGTATATTGAGGAAATCCAACAAAATCTCAGAGGCGTGTAGAAATGAAGGAAAT
CGGCTTTATATAAAAAAGAAATTTTTCGATGCGATTTTAAAGTATAATGAGAGTTTATGT
TATTCTGAGAATAAAAGTGAAAATGCAGGAATGGCTTATGCAAATCGTTCTGCTGTCTAT
TTTGAAATGAAGCTGTATAAAAATTGTTTAAGAAATATTGAATTAGCAAAATCTCACAAT
TATCCAGAAAAGAATTTTCATATTTTAAATAAACGTGAAGAAAAATGTCAAAATTTAATG
AAAAATTCTCAGACAATGAATAATGATGATGAGGTGAATTTCTTTAAGTTGTCATATGAA
GGTCATAAGAATTTAACGTCAGTCGCAAACTGTTTAGAGTTAAAATATGATAAAAAGTAT
GGTAGACATATCGTCACTAACAAAGACTTGTCTGTTGGTGATATTGTAGCGATCGAAGAC
CCCGTTTTTCAAGTCATTAAGGCAGACGATCGATACAGCACGTGTTATAACTCAAATGTC
TATCAGCGATGTTCAAATTGTCTAAATGAAAATTTACTTGACTTAATTCCTTGTGAATCG
TGCACAAAAACAATGTTTTGCTCTGAAAAATGCAAAAATTATTCACAATCAAATTATCAT
AAATATGAATGTCCAATAATTGATGAACTATTGCAATCAGGGATTAAACATATAATTTTA
AAAATTTTATTTGAATCAATTTCAATTTTTAACCACAATATTGAGAATTTTAAAAGATTT
ATTAATGATCATAGTGAAACAAATTTGACAATTTTTCAAACATTTATTAGCTCAAAAAAG
CGTGAAAATTTATTACTTGCGACTTTATCGCTCTCATCTGTCACAGAGCAGAATGAAAAT
TCACTTGAAGATTTTATAAAAATATTTCAAAAAACATCAACATTAAAATTACTTTGGAAA
GATCACATGGGCTTTATTTCTGGCATTTTACAAAAGCTCATCATCATTGGAAATCGCGAT
ATTCATGGAATTGGTTCGTGGTCATTGCGTCAAAATGGAATAGAAAATCATGAAGAGCTA
AAAAATCCATCACAATATCAACAAATCATTGGCAATGCATGCTTTTTATTTTCTTCACTG
CTAAATCATTCATGTGCGCCAAACATAAAAAGATTGAATTATAAAAATAAAAATATCATT
ATTGTATCACGTCCAATTAAAGCTGGTCAACAACTTTTCGATTCGTATCGACAAAATTTT
AATTTACAAGTGAAAGAAGAAAGACAAGAAAATCTTTTAAAGCATTATGGATTTAAATGT
GACTGTGAAGCATGCATGAATAATTGGCCAATTAATAGTCAATTAAAAGTTATTGATGAG
AGTCTTTTAGAATATGTTTGGGAATCTCATGATGAATTGCCTTATTTAATAGACTCAAAA
ATAGCTGAGAAACGTTTTAGAGAATATTGCATAGTTTTTACCAAACACCATGCAGATTTT
CCATCAGCTGAACTCATTGTATTGCAGGAATGTATTTCCAATTGTCTGCTTTCAATCACC
AAACCTTCTTTCCAATTTCCATAA
>g1306.t1 Gene=g1306 Length=527
MESILRKSNKISEACRNEGNRLYIKKKFFDAILKYNESLCYSENKSENAGMAYANRSAVY
FEMKLYKNCLRNIELAKSHNYPEKNFHILNKREEKCQNLMKNSQTMNNDDEVNFFKLSYE
GHKNLTSVANCLELKYDKKYGRHIVTNKDLSVGDIVAIEDPVFQVIKADDRYSTCYNSNV
YQRCSNCLNENLLDLIPCESCTKTMFCSEKCKNYSQSNYHKYECPIIDELLQSGIKHIIL
KILFESISIFNHNIENFKRFINDHSETNLTIFQTFISSKKRENLLLATLSLSSVTEQNEN
SLEDFIKIFQKTSTLKLLWKDHMGFISGILQKLIIIGNRDIHGIGSWSLRQNGIENHEEL
KNPSQYQQIIGNACFLFSSLLNHSCAPNIKRLNYKNKNIIIVSRPIKAGQQLFDSYRQNF
NLQVKEERQENLLKHYGFKCDCEACMNNWPINSQLKVIDESLLEYVWESHDELPYLIDSK
IAEKRFREYCIVFTKHHADFPSAELIVLQECISNCLLSITKPSFQFP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1306.t1 | Coils | Coil | Coil | 89 | 109 | - |
| 11 | g1306.t1 | Gene3D | G3DSA:1.25.40.10 | - | 4 | 113 | 3.8E-8 |
| 10 | g1306.t1 | Gene3D | G3DSA:2.170.270.10 | SET domain | 143 | 182 | 3.0E-12 |
| 8 | g1306.t1 | Gene3D | G3DSA:3.30.60.180 | - | 183 | 230 | 3.0E-12 |
| 7 | g1306.t1 | Gene3D | G3DSA:3.30.70.3410 | - | 231 | 313 | 3.0E-12 |
| 9 | g1306.t1 | Gene3D | G3DSA:2.170.270.10 | SET domain | 348 | 448 | 8.0E-21 |
| 2 | g1306.t1 | PANTHER | PTHR47111 | BCDNA.LD29892 | 7 | 521 | 2.8E-106 |
| 1 | g1306.t1 | Pfam | PF00856 | SET domain | 141 | 416 | 1.1E-11 |
| 6 | g1306.t1 | ProSitePatterns | PS01360 | Zinc finger MYND-type signature. | 184 | 224 | - |
| 14 | g1306.t1 | ProSiteProfiles | PS50280 | SET domain profile. | 130 | 417 | 9.627 |
| 13 | g1306.t1 | ProSiteProfiles | PS50865 | Zinc finger MYND-type profile. | 184 | 224 | 8.854 |
| 3 | g1306.t1 | SUPERFAMILY | SSF48452 | TPR-like | 10 | 80 | 2.98E-8 |
| 4 | g1306.t1 | SUPERFAMILY | SSF82199 | SET domain | 129 | 443 | 2.09E-20 |
| 5 | g1306.t1 | SUPERFAMILY | SSF144232 | HIT/MYND zinc finger-like | 178 | 229 | 2.96E-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