General information for g3701.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as VIP36-like protein.
Parent gene
- The parent gene g3701 is located on chr_3: 27554875..27556092 (+ 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 | g3701 | g3701.t9 | TSS | g3701.t9 | 27553677 | 27553677 |
| chr_3 | g3701 | g3701.t9 | isoform | g3701.t9 | 27554270 | 27556092 |
| chr_3 | g3701 | g3701.t9 | exon | g3701.t9.exon1 | 27554270 | 27554361 |
| chr_3 | g3701 | g3701.t9 | cds | g3701.t9.CDS1 | 27554275 | 27554361 |
| chr_3 | g3701 | g3701.t9 | exon | g3701.t9.exon2 | 27554566 | 27554608 |
| chr_3 | g3701 | g3701.t9 | cds | g3701.t9.CDS2 | 27554566 | 27554608 |
| chr_3 | g3701 | g3701.t9 | exon | g3701.t9.exon3 | 27554694 | 27554813 |
| chr_3 | g3701 | g3701.t9 | cds | g3701.t9.CDS3 | 27554694 | 27554813 |
| chr_3 | g3701 | g3701.t9 | exon | g3701.t9.exon4 | 27554871 | 27556092 |
| chr_3 | g3701 | g3701.t9 | cds | g3701.t9.CDS4 | 27554871 | 27555379 |
| chr_3 | g3701 | g3701.t9 | TTS | g3701.t9 | NA | NA |
Sequences
>g3701.t9 Gene=g3701 Length=1477
AAAGTATGAGTGGTAGTATATGGAATCAAATTCCTTGTTGGAATCGCAACTGGGAGGTTG
TTGTAGATTTTAAAGTAGCAGGAAAAGGAAAAAAGGATTTATTCGGCGATGGTTTTGTTG
TTTGGTATGCTAGAGATCGTATGATCACCGGTCCAGTATTTGGTAGTAAAGATTTTTTCA
GTGGCCTAGCAATTATTGTAGATACATATAGTAATCATAATGGACCACATAATCACCAAC
ATCCTTATATTTCTGCTATGGTGAACAATGGAACACTTACATATGATCATGATCGAGATG
GAACACATACACAATTAGCAGGATGTGAAGCTCGGTTTAGAAATGTTGAACATACGACAC
AATTGAAAATTAGATACGAAAACGATGTGCTCTCTGTACATACAGATCTTGAGAACAAAA
ATGAATGGAAAGAATGTTTTACCGTTGATGGTGTTGAACTTCCAACTGGTTATTATTTTG
GTGCATCAGCTACAACAGGCGATCTCAGTGATAATCATTTAATTAACTCCATAAAATTCT
TCGAGCTTGAAGGTGCAACTACTGCTGAACGCTCTCAAATTATTCCGCATGCTGCAAAAT
TTGAAGAGCCTCGCGAGCACGTAGACGACCCAAAGCCGGGTTGGTCGAATCTTAAAATTT
TTATAGTCATTCTTTTTGGAATGATCGGCGCTGTAATTCTCAGCATTGGAGGATATATGT
ACTATGAAAAATATCAACAGAATAAAAAGAAAAGATTTTACTGAGGAAAAGCCAAACGAA
CTCAGCAAGCATCAACGACTGCACATAAAAGTAAATTTGTTTAAATAAGAATCTTCCTTT
TACTTTCGCATCTTACTCTTTATACCGAATTCTTCCACAAGACTTGCTGAATTCGATTTA
ACTTGAATCATACTGAAATCAGAAATTGAAAACTTAATGTTCATTATAAATTTTGAAAAC
CAAAAAATGCAACTACGTAGAAACATTAAATAATGTCCCTATATCTATTTTTCCCCTTAC
AAGGATCTCCCTCCTTTTTATCATCATTTTCGATGAATCATAATAAAATAAATGTTTTTA
TGTTTAAACGCCATCATCCTAAAATTTAGATTTTTCTTTTAAAATAAATTTAATAAGTTT
TCTTGTTTATTATACGATATTCTTCACATCACATGATAATTAGTTTTCATTCAAAAATTT
AAAGCGCTTTATATTTTTTATGAGTTGGGCATGAATGATTTTGTTATTTTTACCTTTTAT
AAATCTAGTGTGATCATTATATTAAAAAGAAAAGATTCAATTTTATGGATTCATTAGCAA
AAAATAATTCTTTCTAAATAAATGAGAAAAATAAATTTTATCTTACAAAAAAATTAAAAT
AGTTTTTATTTTTTCATAACTGTGTGTTTACAATGATAAATCAATAATTAGATTTTACAA
TATTCAGACTATAAAAATAGGTAACACATTATTACTT
>g3701.t9 Gene=g3701 Length=252
MSGSIWNQIPCWNRNWEVVVDFKVAGKGKKDLFGDGFVVWYARDRMITGPVFGSKDFFSG
LAIIVDTYSNHNGPHNHQHPYISAMVNNGTLTYDHDRDGTHTQLAGCEARFRNVEHTTQL
KIRYENDVLSVHTDLENKNEWKECFTVDGVELPTGYYFGASATTGDLSDNHLINSIKFFE
LEGATTAERSQIIPHAAKFEEPREHVDDPKPGWSNLKIFIVILFGMIGAVILSIGGYMYY
EKYQQNKKKRFY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3701.t9 | Gene3D | G3DSA:2.60.120.200 | - | 1 | 201 | 2.2E-78 |
| 2 | g3701.t9 | PANTHER | PTHR12223 | VESICULAR MANNOSE-BINDING LECTIN | 2 | 252 | 8.4E-85 |
| 3 | g3701.t9 | PANTHER | PTHR12223:SF36 | VESICULAR INTEGRAL-MEMBRANE PROTEIN VIP36 | 2 | 252 | 8.4E-85 |
| 1 | g3701.t9 | Pfam | PF03388 | Legume-like lectin family | 2 | 182 | 1.2E-76 |
| 9 | g3701.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 217 | - |
| 10 | g3701.t9 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 218 | 240 | - |
| 8 | g3701.t9 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 241 | 252 | - |
| 7 | g3701.t9 | ProSiteProfiles | PS51328 | L-type lectin-like (leguminous) domain profile. | 1 | 181 | 47.267 |
| 5 | g3701.t9 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 2 | 181 | 2.07E-54 |
| 4 | g3701.t9 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 218 | 240 | - |
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:0016020 | membrane | CC |
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.
