General information for g7731.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as E3 ubiquitin-protein ligase MARCHF6.
Parent gene
- The parent gene g7731 is located on chr_2: 25594152..25594988 (+ 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 | g7731 | g7731.t3 | TSS | g7731.t3 | 25591251 | 25591251 |
| chr_2 | g7731 | g7731.t3 | isoform | g7731.t3 | 25591504 | 25593088 |
| chr_2 | g7731 | g7731.t3 | exon | g7731.t3.exon1 | 25591504 | 25591552 |
| chr_2 | g7731 | g7731.t3 | cds | g7731.t3.CDS1 | 25591504 | 25591552 |
| chr_2 | g7731 | g7731.t3 | exon | g7731.t3.exon2 | 25591699 | 25591793 |
| chr_2 | g7731 | g7731.t3 | cds | g7731.t3.CDS2 | 25591699 | 25591793 |
| chr_2 | g7731 | g7731.t3 | exon | g7731.t3.exon3 | 25591893 | 25592043 |
| chr_2 | g7731 | g7731.t3 | cds | g7731.t3.CDS3 | 25591893 | 25592043 |
| chr_2 | g7731 | g7731.t3 | exon | g7731.t3.exon4 | 25592118 | 25592314 |
| chr_2 | g7731 | g7731.t3 | cds | g7731.t3.CDS4 | 25592118 | 25592314 |
| chr_2 | g7731 | g7731.t3 | exon | g7731.t3.exon5 | 25592460 | 25593088 |
| chr_2 | g7731 | g7731.t3 | cds | g7731.t3.CDS5 | 25592460 | 25593086 |
| chr_2 | g7731 | g7731.t3 | TTS | g7731.t3 | NA | NA |
Sequences
>g7731.t3 Gene=g7731 Length=1121
ATGGAAAGCACACCCGAATGCAGAATATGTCGAACGGAAGCAACAGCAGACCGTCCACTA
TTTTTTCCATGCATATGTACAGGCAGTATCAAATACATTCATCAAGAATGTTTATTGCAA
TGGATGAGATACAGCAGAAAAGAAATATGTGAATTATGTGGGCATCGTTTCAGTTTTACA
CCGATTTATTCTCCAGATATGCCGAAAGTCTTGCCTCTTCGTGTGGTAGCTGGTGGTCTG
TTAAGTTCGATAGCTACAGCTGTGAAATATTGGCTTCATTACACATTAGTTGCTGTTGCA
TGGCTTGGTATTGTCCCTCTCACTGCTTATCGCACATATCGATTTTTCTTTTCCGGATCG
CTTGATATGCTAGTTTCACTTCCATTCGATATGTTTTCAACAGAGAATTTAGCTGCTGAT
GTCTTTCGTGGTTGTTTTGTTGTCACATGTACATTATTTGCTTTCATTGGTTTAGTGTGG
CTAAGAGAGCAGATTCTTCATGGAGGTGGACCAGATTGGTTAGAAAGAGATGAAGGAAAC
AATGTTAATGAAGATATTCCAAGAGCTGCACCACCACCACAAGCAGATAATTTACAGGAA
CCACTTGATGATGAAAATGGCAATAACAATGATGAAATGTTTAATAATAACAACAATAAT
AATGTTTTGGATGCAAACATTCATGGTTTTCAACAGCCACAGCCACAGCAGCCAAATGAT
ATAAATGAGCCGCAACAACCTGCTGCTGCACCAGCAGCTCCAGTACCACAAAACTTTGAA
ATTCCTCAACATAATCCTATAAATAATGCTGAACCACCGCTACCTGATAATGATGAAGAT
CGTAATGAACCTGCAGCTGACAATGCAAATAATGATGATGCTAATGAAGGTATTTGGAAT
CCCATGGAATTTAATAATAATGCAGATTTAGAATTAACGTGGGAAAGATTACTTGGTCTG
GATGGATCAATGGTTTTCCTCGAACATGTCTTCTGGGTAGTGTCTTTAGACACGCTATTC
ATCTTTATTTTCGCATTTTTACCATACACAATTGGAAACTTTGCAATATCATTTCTGGGC
ATAAAACAATTGCACTTTCACGGTCTAGTTACTACACTTTG
>g7731.t3 Gene=g7731 Length=373
MESTPECRICRTEATADRPLFFPCICTGSIKYIHQECLLQWMRYSRKEICELCGHRFSFT
PIYSPDMPKVLPLRVVAGGLLSSIATAVKYWLHYTLVAVAWLGIVPLTAYRTYRFFFSGS
LDMLVSLPFDMFSTENLAADVFRGCFVVTCTLFAFIGLVWLREQILHGGGPDWLERDEGN
NVNEDIPRAAPPPQADNLQEPLDDENGNNNDEMFNNNNNNNVLDANIHGFQQPQPQQPND
INEPQQPAAAPAAPVPQNFEIPQHNPINNAEPPLPDNDEDRNEPAADNANNDDANEGIWN
PMEFNNNADLELTWERLLGLDGSMVFLEHVFWVVSLDTLFIFIFAFLPYTIGNFAISFLG
IKQLHFHGLVTTL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g7731.t3 | CDD | cd16702 | RING_CH-C4HC3_MARCH6 | 6 | 55 | 6.87343E-33 |
| 5 | g7731.t3 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 1 | 65 | 1.1E-20 |
| 2 | g7731.t3 | PANTHER | PTHR13145:SF0 | E3 UBIQUITIN-PROTEIN LIGASE MARCH6 | 4 | 359 | 4.7E-112 |
| 3 | g7731.t3 | PANTHER | PTHR13145 | SSM4 PROTEIN | 4 | 359 | 4.7E-112 |
| 1 | g7731.t3 | Pfam | PF12906 | RING-variant domain | 7 | 53 | 5.5E-15 |
| 7 | g7731.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 90 | - |
| 12 | g7731.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 91 | 113 | - |
| 8 | g7731.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 114 | 140 | - |
| 11 | g7731.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 141 | 161 | - |
| 6 | g7731.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 162 | 329 | - |
| 10 | g7731.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 330 | 351 | - |
| 9 | g7731.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 352 | 373 | - |
| 18 | g7731.t3 | ProSiteProfiles | PS51292 | Zinc finger RING-CH-type profile. | 1 | 60 | 22.333 |
| 17 | g7731.t3 | SMART | SM00744 | ringv_2 | 6 | 54 | 2.0E-20 |
| 4 | g7731.t3 | SUPERFAMILY | SSF57850 | RING/U-box | 4 | 58 | 1.22E-15 |
| 16 | g7731.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 91 | 113 | - |
| 15 | g7731.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 161 | - |
| 14 | g7731.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 339 | 361 | - |
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:0008270 | zinc ion binding | MF |
KEGG
Orthology
- This transcript has been annotated with K10661 (E3 ubiquitin-protein ligase MARCH6)
Pathway
- This transcript belongs to the following 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