General information for g1304.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 g1304 is located on chr_3: 9488533..9490492 (- 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 | g1304 | g1304.t1 | isoform | g1304.t1 | 9488533 | 9490492 |
| chr_3 | g1304 | g1304.t1 | exon | g1304.t1.exon1 | 9488533 | 9488632 |
| chr_3 | g1304 | g1304.t1 | cds | g1304.t1.CDS1 | 9488533 | 9488632 |
| chr_3 | g1304 | g1304.t1 | exon | g1304.t1.exon2 | 9488694 | 9490104 |
| chr_3 | g1304 | g1304.t1 | cds | g1304.t1.CDS2 | 9488694 | 9490104 |
| chr_3 | g1304 | g1304.t1 | exon | g1304.t1.exon3 | 9490162 | 9490492 |
| chr_3 | g1304 | g1304.t1 | cds | g1304.t1.CDS3 | 9490162 | 9490492 |
| chr_3 | g1304 | g1304.t1 | TSS | g1304.t1 | NA | NA |
| chr_3 | g1304 | g1304.t1 | TTS | g1304.t1 | NA | NA |
Sequences
>g1304.t1 Gene=g1304 Length=1842
ATGTTGCTCCTAGGAGAGTGTGACTATGCACTTGAATTTTTCAAATATCTTGATGTCAGC
AAAATAAAGCCACAAAATTTAAAATTTTTTAAACGAATCAAATCAAATGCTGAAAAAGTA
AAATTTGTGGAAAATTTGTTATTGGAAGCCAAAGCAATGCCAAAATTAAATGTCTTGATT
TCCAAAAAAAGTGATCAACTCGCAAGAGAATATCGTACAATGGGAAATACGCACTTCAAG
AAATGTGAATTTTTTGAAGCATTAGAATGCTACAATAAATCATTATGTTGCTCAAGAAAG
AATAGTATTGATATGGGTTTAGCTTATGGAAATCGATCAGCTGTTTACAAAGAACTTAAA
CTTTATCACATTGCAATTGAAAACATAAATAAAGCGAAAAATTCAAACTATCCAAAAGAA
AAATTGTCAAAATTAGAAGAAAGAGCCAAAGCTTCTATCAAATGCATTGAAGAAGACAAT
TTAATTTACCTTGATCAGCCAATTGTTCCAGACTTTTTGAAAATCACTCAAGCAACGAAC
CCAAATCATTTAACAATTGCTGGCTGTCTTAAACTTAAACATGATGATGTTTATGGTCAA
TGTGTTATTACTGATAAAGATTTAAAAACTGGTGAAATTGTTGCTATTGAAAAACCATTT
AGCAAATGTTTGCTTTTTTCTCATGCATACAAAAGATGCTCAAATTGCTTATGTCAAAAT
TTCATGAATCTTGAACCATGTGATCACTGCTCTAGTGCCATGTTTTGTTCACAAAAATGC
TGCAATGAAGCTCATGAGAATTTTCATAAATTTGAATGTGGCATCAATGATGGTTGGAGT
CTAATTTTTACTGAAATTCTTCAAACTGCAAATCGTACATTCTTTGAAGCTCTAAAATTA
GTCGATTATGACATTAGCAAATTGATGGAAATGCAAGGAAATTTTGAAAAATCTTCAGTG
TCAATTTTTGATGTTGATAATAAAAAGGAAAATCTACTTTGGGCTGTGAATTCACTCAAC
ACAAATATAGAGCGATGTAATGATGAAGAACTTTTTGATCTCTGCAGTATAGTGGCAGTA
ATGACTCATCTCTTTTTAAATTTCACAAAATTGAAACAAATTTTAACTACAAATGACTAT
AAAGATTTTTATCGCAATTTCATCATGAAACATTCATTGATAAATCAAGCAAATTGGATT
GGACTAAGTTACGATGATGTCGATCGGGTGAAAATAGAAAATTATGCCAATGGGACTCTT
CCATTGACTTCACTTATCAATCATTCATGTGCACCAAATATCATAACACAAACATTCAAT
GATGAAACTTTTTTGATTGTCAATTCACCAATTGCTGCCGGTGAACAATTACTTCGAAGT
TATATGCCGTCTATCAATCATTATGAAAGTAATCGAAATGAAAGAACAAGTAATTTTCTA
CCATTCAAATTTATTTGCGTTTGTGAAGCTTGCAAAAAAAATTATCCAAATTTTGACAAA
TTAAAGCATATGGACAATTTTCAAGATTATTGCAATTTTGTTGGAAATGATGTTTTATTA
TTTCGAATGCGCTATCATGAATATGCTAAAAAAAAATTTCCAGCTTATTGTGATAAAATT
GATGAATTCAGCAAACACATTCCATGTTTTGAAGTTACAAATTCTCAATTTCTTTTTCGT
CAATGTCTTCAAATATTTACAATGACACCTTTTGATATGATGATTTTGAGAGCCAAGAAT
CAGGAAGAATTATTAAACCGCTTTGGCAAAGAAATTGAATTCAGAATGGTGGATATTAAT
ACCAATCAAACAACACATGCTTTCCCTTTTGCAGATTTTTGA
>g1304.t1 Gene=g1304 Length=613
MLLLGECDYALEFFKYLDVSKIKPQNLKFFKRIKSNAEKVKFVENLLLEAKAMPKLNVLI
SKKSDQLAREYRTMGNTHFKKCEFFEALECYNKSLCCSRKNSIDMGLAYGNRSAVYKELK
LYHIAIENINKAKNSNYPKEKLSKLEERAKASIKCIEEDNLIYLDQPIVPDFLKITQATN
PNHLTIAGCLKLKHDDVYGQCVITDKDLKTGEIVAIEKPFSKCLLFSHAYKRCSNCLCQN
FMNLEPCDHCSSAMFCSQKCCNEAHENFHKFECGINDGWSLIFTEILQTANRTFFEALKL
VDYDISKLMEMQGNFEKSSVSIFDVDNKKENLLWAVNSLNTNIERCNDEELFDLCSIVAV
MTHLFLNFTKLKQILTTNDYKDFYRNFIMKHSLINQANWIGLSYDDVDRVKIENYANGTL
PLTSLINHSCAPNIITQTFNDETFLIVNSPIAAGEQLLRSYMPSINHYESNRNERTSNFL
PFKFICVCEACKKNYPNFDKLKHMDNFQDYCNFVGNDVLLFRMRYHEYAKKKFPAYCDKI
DEFSKHIPCFEVTNSQFLFRQCLQIFTMTPFDMMILRAKNQEELLNRFGKEIEFRMVDIN
TNQTTHAFPFADF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g1304.t1 | Coils | Coil | Coil | 139 | 159 | - |
| 9 | g1304.t1 | Gene3D | G3DSA:1.25.40.10 | - | 44 | 157 | 3.2E-10 |
| 8 | g1304.t1 | Gene3D | G3DSA:2.170.270.10 | SET domain | 201 | 492 | 9.1E-25 |
| 7 | g1304.t1 | Gene3D | G3DSA:3.30.60.180 | - | 232 | 292 | 9.1E-25 |
| 6 | g1304.t1 | Gene3D | G3DSA:3.30.70.3410 | - | 293 | 391 | 9.1E-25 |
| 2 | g1304.t1 | PANTHER | PTHR47111 | BCDNA.LD29892 | 31 | 568 | 9.1E-101 |
| 1 | g1304.t1 | Pfam | PF00856 | SET domain | 199 | 461 | 1.7E-9 |
| 11 | g1304.t1 | ProSiteProfiles | PS50280 | SET domain profile. | 318 | 462 | 8.617 |
| 3 | g1304.t1 | SUPERFAMILY | SSF48452 | TPR-like | 67 | 136 | 4.38E-9 |
| 4 | g1304.t1 | SUPERFAMILY | SSF82199 | SET domain | 187 | 489 | 8.5E-18 |
| 5 | g1304.t1 | SUPERFAMILY | SSF144232 | HIT/MYND zinc finger-like | 226 | 276 | 1.6E-5 |
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