General information for g6743.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6743 is located on chr_2: 18438101..18439717 (+ 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_2 | g6743 | g6743.t1 | isoform | g6743.t1 | 18438101 | 18439717 |
| chr_2 | g6743 | g6743.t1 | exon | g6743.t1.exon1 | 18438101 | 18438680 |
| chr_2 | g6743 | g6743.t1 | cds | g6743.t1.CDS1 | 18438101 | 18438680 |
| chr_2 | g6743 | g6743.t1 | exon | g6743.t1.exon2 | 18438735 | 18439717 |
| chr_2 | g6743 | g6743.t1 | cds | g6743.t1.CDS2 | 18438735 | 18439717 |
| chr_2 | g6743 | g6743.t1 | TSS | g6743.t1 | NA | NA |
| chr_2 | g6743 | g6743.t1 | TTS | g6743.t1 | NA | NA |
Sequences
>g6743.t1 Gene=g6743 Length=1563
ATGATGAAAATTAGAAAAAACAATTCTATTGCAAATAATTTTCGTTTAATTGGAAATGAG
CACTATAAATCATTAGAATTTTCTAAAGCACTCCTTTTTTACAACAAAAGTTTATGCTAT
GCAATTCCTTCATCGATAGAATATTCTTTGAGTTTTGCTAATCGGTCAGCAGTTTACTAT
GAAACAGAAGAATATGAATTTTGTATCGAAAATATAGAACTTGCTATTAACTTTGGTTAT
CCTAAAGACAAAATTCCAAAATTAATGGAGCGACATAAAAAATGTAAAAACTTAATTGAA
CATTACAATACAAATTTGTTAAAAAACCCATGGAATTTTTTTAAGCTTTCACATTCTCCA
AATTTAAAAATTCCATACATTGTGAATTGCATTAAACTGCAAAAATCAAAAAAATTTGGT
CGTCATCTGATCACAATTGAGAGACTCAAAGCTGGTGATGTAATTGCTATTGAAAAACCA
TTTTACAAGTATATAATGAACAGTTCGAGATATAGTCACTGTACAAACTGCTTAAAGAGT
GAAAAACTTAACTTATTTCCATGTAAAAAATGCAATTATACAATGTTCTGTTCAAAGGAG
TGCCTGTCTAAAGGACATCGTTTTCATCAGTTTGAATGTGATATAGATATAGATTTAGAA
CAAGATAGTTGTATTTTTAAAAAGAATCATCGAGTTGTATTCGAGGCTTTGGGAATTTTT
GGTAGAATTTCTGAACTCCAAACATTTCTCGAAGAAAATCCTGATAAAAAAACAATTTTT
GATTTTAATTTTTCATGCATAAAAAATTCTGATACGATCGATAAAAATTTGACGTTAGCA
ATACATTCACTTCAAAAAAATCCATTACCTAAAGAGCTAGAACCGCTGATGAAAGAGCAT
TGTAAACTTATGACTTCTATCACAAAAAATCAAAAACACAAAAAATTTCTAGATAATTTC
ATGAGACAACAAATGAAAGTCATTATAACAAACTCATTTGGACTAACAGAAAATGAAAAT
GAAATAGGCTCTGGAATTTTCCCATTTGCTTCGTATTTTAATCATAGTTGTGCTCCTAAT
GTTGGGAAAATCACAGTTAATGGTCATCTTGTATTTATCGTGCTAAGACCTATTGAGAAA
AATCAGCAGCTATTTGTTTGTTATCGTCAAAACTTTTTTCATTGTGATCTTCAAGAAAGA
CAAGATGAAATTTTAAAAAGTTATGGATTTGTATGTACATGTGAAGCATGTGAAAAAAAT
TACCCAAATATTGAAAAGCTCCCAAGATATGAAAAAACTTTAAAAATTTCATCAAAAAAT
TTATTGTCATTGCCAACAATCATTGAAGAATATCACGAAAATTGTGATTTCATTAATGAG
AATTCAGAATTTTATCCAAATTATGAAATATGTAAACTGATAACACGCAATCATCAATTA
CTCAACTGTCTAGTATGTATCACTACACTATGTTTGAAACCACTTAACATTTTTTATTTA
CTAAATGAAAGTAAGTTATCTAAATATGATAATAAAAGAAGTGTGAACACATCGGAGAAA
TAA
>g6743.t1 Gene=g6743 Length=520
MMKIRKNNSIANNFRLIGNEHYKSLEFSKALLFYNKSLCYAIPSSIEYSLSFANRSAVYY
ETEEYEFCIENIELAINFGYPKDKIPKLMERHKKCKNLIEHYNTNLLKNPWNFFKLSHSP
NLKIPYIVNCIKLQKSKKFGRHLITIERLKAGDVIAIEKPFYKYIMNSSRYSHCTNCLKS
EKLNLFPCKKCNYTMFCSKECLSKGHRFHQFECDIDIDLEQDSCIFKKNHRVVFEALGIF
GRISELQTFLEENPDKKTIFDFNFSCIKNSDTIDKNLTLAIHSLQKNPLPKELEPLMKEH
CKLMTSITKNQKHKKFLDNFMRQQMKVIITNSFGLTENENEIGSGIFPFASYFNHSCAPN
VGKITVNGHLVFIVLRPIEKNQQLFVCYRQNFFHCDLQERQDEILKSYGFVCTCEACEKN
YPNIEKLPRYEKTLKISSKNLLSLPTIIEEYHENCDFINENSEFYPNYEICKLITRNHQL
LNCLVCITTLCLKPLNIFYLLNESKLSKYDNKRSVNTSEK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g6743.t1 | Gene3D | G3DSA:1.25.40.10 | - | 10 | 115 | 7.0E-8 |
| 10 | g6743.t1 | Gene3D | G3DSA:2.170.270.10 | SET domain | 142 | 418 | 3.7E-39 |
| 9 | g6743.t1 | Gene3D | G3DSA:3.30.60.180 | - | 173 | 231 | 3.7E-39 |
| 8 | g6743.t1 | Gene3D | G3DSA:3.30.70.3410 | - | 232 | 332 | 3.7E-39 |
| 3 | g6743.t1 | PANTHER | PTHR47111 | BCDNA.LD29892 | 5 | 481 | 3.8E-86 |
| 2 | g6743.t1 | Pfam | PF00856 | SET domain | 140 | 388 | 3.9E-14 |
| 1 | g6743.t1 | Pfam | PF01753 | MYND finger | 174 | 213 | 1.5E-5 |
| 14 | g6743.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 479 | - |
| 16 | g6743.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 480 | 501 | - |
| 15 | g6743.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 502 | 520 | - |
| 13 | g6743.t1 | ProSiteProfiles | PS50280 | SET domain profile. | 129 | 389 | 11.33 |
| 12 | g6743.t1 | ProSiteProfiles | PS50865 | Zinc finger MYND-type profile. | 174 | 213 | 8.837 |
| 7 | g6743.t1 | SMART | SM00317 | set_7 | 129 | 395 | 1.0E-7 |
| 4 | g6743.t1 | SUPERFAMILY | SSF48452 | TPR-like | 10 | 103 | 1.52E-9 |
| 5 | g6743.t1 | SUPERFAMILY | SSF82199 | SET domain | 127 | 415 | 6.93E-24 |
| 6 | g6743.t1 | SUPERFAMILY | SSF144232 | HIT/MYND zinc finger-like | 168 | 215 | 3.14E-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. There were no conditions that were differentially expressed