General information for g10529.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Syntaxin-7.
Parent gene
- The parent gene g10529 is located on chr_1: 10359069..10359570 (+ 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_1 | g10529 | g10529.t1 | TSS | g10529.t1 | 10357976 | 10357976 |
| chr_1 | g10529 | g10529.t1 | isoform | g10529.t1 | 10358192 | 10359148 |
| chr_1 | g10529 | g10529.t1 | exon | g10529.t1.exon1 | 10358192 | 10358276 |
| chr_1 | g10529 | g10529.t1 | cds | g10529.t1.CDS1 | 10358192 | 10358276 |
| chr_1 | g10529 | g10529.t1 | exon | g10529.t1.exon2 | 10358340 | 10358409 |
| chr_1 | g10529 | g10529.t1 | cds | g10529.t1.CDS2 | 10358340 | 10358409 |
| chr_1 | g10529 | g10529.t1 | exon | g10529.t1.exon3 | 10358464 | 10358998 |
| chr_1 | g10529 | g10529.t1 | cds | g10529.t1.CDS3 | 10358464 | 10358998 |
| chr_1 | g10529 | g10529.t1 | exon | g10529.t1.exon4 | 10359059 | 10359148 |
| chr_1 | g10529 | g10529.t1 | cds | g10529.t1.CDS4 | 10359059 | 10359148 |
| chr_1 | g10529 | g10529.t1 | TTS | g10529.t1 | 10359575 | 10359575 |
Sequences
>g10529.t1 Gene=g10529 Length=780
ATGAGTTCCTTCGATAATAGTGATGCAGAATTTCAAAAGCATTCACAATTCATTAGTACC
AGCGTCCAAAAAATTTACCAAAATGTTTCATCTATGAATCGTATGGTCAGTCAAGTTGGA
ACAGCTCAAGAGACACCAGAAATAAGACAGCAATTACATCAAATTCGCACTTATACTCAA
CAATTAATAAAAGATACTGACTCTTCATTCAAAGATATTGTAAATTGTAAAGATCGTCAT
CTTAAAATCCAAAGAGATCGGTTAGTTGATGAGTTTACAGCAGCACTTACTGCATTTCAA
GCTGTTCAAAAGAGAACAGTTGATTTGGAGAAAAATGCCATTCGTCAAGCAAAAGCAAAT
GTCACATTACCTAAACCACCATCGTCTAACAAATCAACCAGTAATAGCTTTTCCGAGTCA
CAATTTGAAAATAATTTTGTTGATAATAGAGGCCCAACACAAGCACAATTACAACAAGAA
GAGATTGATTTGCAAGCATTAGAAGAACAAGAAAGAACAATTCGAGAATTAGAAGAAAAT
ATTGTGGGTGTAAATGAAATTTATAAGAAATTAGGTGCATTAGTATATGAACAAGGCCAG
ACAGTCGATTCAATTGAGGCTTCTGTTGAAAACGCAAGCGTTTTTGTTCAAGATGGAACA
GAGCAATTACGACGCGCAAGTCATTATAGCAATCAAGCACGAAAGAAAAAATTGATATTA
GCCCTCATTCTTGGTGGTATACTGGCAGTGATTATTCTACTTTTCATCATAAGAAACTAA
>g10529.t1 Gene=g10529 Length=259
MSSFDNSDAEFQKHSQFISTSVQKIYQNVSSMNRMVSQVGTAQETPEIRQQLHQIRTYTQ
QLIKDTDSSFKDIVNCKDRHLKIQRDRLVDEFTAALTAFQAVQKRTVDLEKNAIRQAKAN
VTLPKPPSSNKSTSNSFSESQFENNFVDNRGPTQAQLQQEEIDLQALEEQERTIRELEEN
IVGVNEIYKKLGALVYEQGQTVDSIEASVENASVFVQDGTEQLRRASHYSNQARKKKLIL
ALILGGILAVIILLFIIRN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g10529.t1 | Coils | Coil | Coil | 157 | 187 | - |
| 6 | g10529.t1 | Gene3D | G3DSA:1.20.58.70 | - | 2 | 122 | 3.1E-31 |
| 7 | g10529.t1 | Gene3D | G3DSA:1.20.5.110 | - | 153 | 258 | 2.3E-23 |
| 15 | g10529.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 119 | 141 | - |
| 16 | g10529.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 122 | 141 | - |
| 3 | g10529.t1 | PANTHER | PTHR19957:SF90 | SYNTAXIN-7 | 8 | 254 | 1.2E-53 |
| 4 | g10529.t1 | PANTHER | PTHR19957 | SYNTAXIN | 8 | 254 | 1.2E-53 |
| 1 | g10529.t1 | Pfam | PF14523 | Syntaxin-like protein | 18 | 112 | 3.6E-25 |
| 2 | g10529.t1 | Pfam | PF05739 | SNARE domain | 201 | 251 | 6.0E-13 |
| 9 | g10529.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 237 | - |
| 11 | g10529.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 238 | 257 | - |
| 10 | g10529.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 258 | 259 | - |
| 17 | g10529.t1 | ProSiteProfiles | PS50192 | t-SNARE coiled-coil homology domain profile. | 164 | 226 | 15.17 |
| 13 | g10529.t1 | SMART | SM00503 | SynN_4 | 3 | 111 | 1.0E-5 |
| 14 | g10529.t1 | SMART | SM00397 | tSNARE_6 | 159 | 226 | 4.8E-9 |
| 5 | g10529.t1 | SUPERFAMILY | SSF47661 | t-snare proteins | 6 | 219 | 5.49E-34 |
| 12 | g10529.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 238 | 257 | - |
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 |
| GO:0016192 | vesicle-mediated transport | BP |
KEGG
Orthology
- This transcript has been annotated with K08488 (syntaxin 7)
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.
