General information for g1305.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 g1305 is located on chr_3: 9491259..9493336 (- 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 | g1305 | g1305.t1 | isoform | g1305.t1 | 9491259 | 9493336 |
| chr_3 | g1305 | g1305.t1 | exon | g1305.t1.exon1 | 9491259 | 9492244 |
| chr_3 | g1305 | g1305.t1 | cds | g1305.t1.CDS1 | 9491259 | 9492244 |
| chr_3 | g1305 | g1305.t1 | exon | g1305.t1.exon2 | 9492754 | 9493336 |
| chr_3 | g1305 | g1305.t1 | cds | g1305.t1.CDS2 | 9492754 | 9493336 |
| chr_3 | g1305 | g1305.t1 | TSS | g1305.t1 | NA | NA |
| chr_3 | g1305 | g1305.t1 | TTS | g1305.t1 | NA | NA |
Sequences
>g1305.t1 Gene=g1305 Length=1569
ATGGAGCATTGCGTAAAATCGAATGTGAACTCGACGAAACTTCGTGAAATTGGAAATCAA
TACTATGCTAAAAGAGAATTTTTTGAAGCAATTCTAAAATATAATAAGAGTTTATGTTAT
GCTGAGAATGAAAGTGAAAATGCAGCACTGGCTTATGCAAATCGTTCTGCTGTCTATTTT
GAAATGAAAAAGTTTGAAAAATGCATGAAAAATATTGAACTAGCGAGAGCTCACAATTAC
CCAAAGAAAAATTTCGAGATTCTAAAAAAGCGTGAAGAAAAATGTTTTGAACTAATGAAA
AATTTAAAAATAACAAAAAGTGATAATGATGAGGTGAATTTTTTTAAATTGTCACATGAA
GGACATAAAAATGTGTCAACATTTTCAAAATACTTAGAGTTGAAATATGACAAAAAATAT
GGTAGACATATTGTCACAAATAAAGATTTAGCTGTTGGTGATATTATAGCAATTGATGAA
TCATTCAGCACTGCATTACAAAAAGAATTTGTTTATCAACGATGTGGAAATTGTCTTAAA
TCAAATCAACTTGATTTAATTCCATGTTTTGGGTGTAATCAAGCAATGTTCTGCAATGAA
AACTGCAAGCAAAATGCAAATGAGAATTTTCATCAATATGAATGTTCAATCATGAATTTG
ATTACATCATCAATTCTCAATTCAAATATGCGAATGGCTCTGAGAAATTTTATTATTGCA
ATTTCACTTTTTGATGACTCAATTGAAAATCTTAAAAGATTTTTTGAAATCAATTCAACT
TCATGCACAATTTTTGATTTTAAAACAGAATTGAATGTGAAACAGAAACTTTTAGCTGTA
AATTCATTAATTTTTGATGACACAATTGAAGTTAACGATTTGGTTTTTGATGAAATTTTT
CTAACTACTGATAAATTAAAAGAAATGTGGAAAAGTCACAAAGATTTTATCAGAAAATTC
TTAAGAAAACACACACAAATTGCATCAATGAATTTTCATGAAATTTATGGCTGGCCACTC
AAAATAGGTGGTCTAATTGATCCCGATGTTGAAAAATTTCAAAAATCTCTCGCTTATCAA
CGTGGTGTTGTTCCTTATGCCAATGGAAGTTTTCCATTTTGTGCTCTTTTAAATCATTCA
TGTGCTCCTAATGTTTGCAAAATTTTTATTGACAATAAAATTGTTATGATTGTGCAAAGA
AAAATTGAAGCCGGCATGCAACTTTTTGACAATTATGGATATGGATTTACAAATATCCCA
CGAGAATATCGACAGGCTGAATTGTTCAAACAATACCGCTTTAAGTGTAATTGCATAGCA
TGTATCAACGACTTTGGTTTACTTCCATCCCTAAAGATTTGTGATAAGAAAACTTTTATG
GTAGCTAAAAAAACATGCTCAGAGCTATCAAGTTTGAATCAAAAGAAAGCTAAACAAAAA
ATTAAAGAATTGAGTGAAATTATTCAAAACCAAAGTAAAAATTTCCCGTCTTTAGAGATT
TGCAGTTTGATGGAAAGTTTCAATGCTTGTTTGGAGATTGTGATGAAACCTGAAATTTTA
TTCCCTTGA
>g1305.t1 Gene=g1305 Length=522
MEHCVKSNVNSTKLREIGNQYYAKREFFEAILKYNKSLCYAENESENAALAYANRSAVYF
EMKKFEKCMKNIELARAHNYPKKNFEILKKREEKCFELMKNLKITKSDNDEVNFFKLSHE
GHKNVSTFSKYLELKYDKKYGRHIVTNKDLAVGDIIAIDESFSTALQKEFVYQRCGNCLK
SNQLDLIPCFGCNQAMFCNENCKQNANENFHQYECSIMNLITSSILNSNMRMALRNFIIA
ISLFDDSIENLKRFFEINSTSCTIFDFKTELNVKQKLLAVNSLIFDDTIEVNDLVFDEIF
LTTDKLKEMWKSHKDFIRKFLRKHTQIASMNFHEIYGWPLKIGGLIDPDVEKFQKSLAYQ
RGVVPYANGSFPFCALLNHSCAPNVCKIFIDNKIVMIVQRKIEAGMQLFDNYGYGFTNIP
REYRQAELFKQYRFKCNCIACINDFGLLPSLKICDKKTFMVAKKTCSELSSLNQKKAKQK
IKELSEIIQNQSKNFPSLEICSLMESFNACLEIVMKPEILFP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1305.t1 | Coils | Coil | Coil | 474 | 494 | - |
| 7 | g1305.t1 | Gene3D | G3DSA:1.25.40.10 | - | 8 | 127 | 1.2E-9 |
| 2 | g1305.t1 | PANTHER | PTHR47111 | BCDNA.LD29892 | 5 | 516 | 1.1E-105 |
| 1 | g1305.t1 | Pfam | PF00856 | SET domain | 141 | 413 | 2.8E-11 |
| 6 | g1305.t1 | ProSitePatterns | PS01360 | Zinc finger MYND-type signature. | 175 | 215 | - |
| 9 | g1305.t1 | ProSiteProfiles | PS50280 | SET domain profile. | 130 | 413 | 9.331 |
| 3 | g1305.t1 | SUPERFAMILY | SSF48452 | TPR-like | 12 | 78 | 3.3E-9 |
| 4 | g1305.t1 | SUPERFAMILY | SSF82199 | SET domain | 127 | 436 | 2.62E-13 |
| 5 | g1305.t1 | SUPERFAMILY | SSF82199 | SET domain | 365 | 438 | 3.07E-13 |
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