General information for g1276.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Carbohydrate sulfotransferase 13.
Parent gene
- The parent gene g1276 is located on chr_3: 9332953..9335745 (+ 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 | g1276 | g1276.t1 | isoform | g1276.t1 | 9332953 | 9335745 |
| chr_3 | g1276 | g1276.t1 | exon | g1276.t1.exon1 | 9332953 | 9333201 |
| chr_3 | g1276 | g1276.t1 | cds | g1276.t1.CDS1 | 9332953 | 9333201 |
| chr_3 | g1276 | g1276.t1 | exon | g1276.t1.exon2 | 9333732 | 9333835 |
| chr_3 | g1276 | g1276.t1 | cds | g1276.t1.CDS2 | 9333732 | 9333835 |
| chr_3 | g1276 | g1276.t1 | exon | g1276.t1.exon3 | 9333915 | 9334068 |
| chr_3 | g1276 | g1276.t1 | cds | g1276.t1.CDS3 | 9333915 | 9334068 |
| chr_3 | g1276 | g1276.t1 | exon | g1276.t1.exon4 | 9335299 | 9335745 |
| chr_3 | g1276 | g1276.t1 | cds | g1276.t1.CDS4 | 9335299 | 9335745 |
| chr_3 | g1276 | g1276.t1 | TSS | g1276.t1 | NA | NA |
| chr_3 | g1276 | g1276.t1 | TTS | g1276.t1 | NA | NA |
Sequences
>g1276.t1 Gene=g1276 Length=954
ATGTCACATGATGTGATAATTAGAATTACACTAATCAATTTGCTTCTTCTATTATCGGCA
TTAAATGCCAAAAACTTCGAACATCGACTGATACAATCAAATAATATTCAACGACAGGAG
CTTCTTCAGCAAAAATGTGATAAATATTATGTTAATGAAAATAGATCGATTCATACGCTC
AGTGAAATGGACATGGAACATTTGTTGATTGATAGAAGTCACAAATTTCTTTATTGCTAT
GTTCCTAAGATTGCATGCACAAATTGGAAACGTGTTATGATGATAATGACAGGAAAGACA
AATGAAACGGATCCATTGAAAATTTCAGCAACACTTGCACATTCACCTGGCATGTTTGAT
AAATTGAGTTCGTTAACGGCCGAAGAAAAAGAGCAAGTGCTATCAGATTATACAAAGTTT
GTGATTGTAAGGCATCCATTCGAAAGGCTTTTATCGGCTTATAGAAACAAATTCGAGGGA
AATTTTGAGAGTGCCAAATACTTTCAGACACGTATTGGTAGATTGATAATCAAGAATTTT
CGTCCGCATGCATCTCGTGATTCGTTGATGAATGGTCACGATGTCACATTTGATGAGTTT
GTACGTTATTTATTAACACCCGAGCTGAGTATGAATTATCAATCCAATCAATCATCGTTT
AATGAGCATTGGGAATCTATCGAACGTTTGTGTCATCCATGCTTAATTAAGTACAATGTA
ATTGGCAAATATGAGACGATAAATGACGACTCTGCACTCGCATTACATATGATTGGAGCT
GAAAATGTTACATTCCCAAAGGTGCAACGGACATCAGGCACGAGTGAAAAGTTGCAACAA
TATATTGATGAACTTCCTTTGCGACTTATCAAACGTCTCTATCGACTATATGAGAGTGAT
TTCAAACTCTTTGATTATGACCTCGATGACATTTTAGGTTTCGAATTTGGATGA
>g1276.t1 Gene=g1276 Length=317
MSHDVIIRITLINLLLLLSALNAKNFEHRLIQSNNIQRQELLQQKCDKYYVNENRSIHTL
SEMDMEHLLIDRSHKFLYCYVPKIACTNWKRVMMIMTGKTNETDPLKISATLAHSPGMFD
KLSSLTAEEKEQVLSDYTKFVIVRHPFERLLSAYRNKFEGNFESAKYFQTRIGRLIIKNF
RPHASRDSLMNGHDVTFDEFVRYLLTPELSMNYQSNQSSFNEHWESIERLCHPCLIKYNV
IGKYETINDDSALALHMIGAENVTFPKVQRTSGTSEKLQQYIDELPLRLIKRLYRLYESD
FKLFDYDLDDILGFEFG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g1276.t1 | PANTHER | PTHR12137:SF62 | CARBOHYDRATE SULFOTRANSFERASE | 26 | 316 | 6.0E-106 |
| 3 | g1276.t1 | PANTHER | PTHR12137 | CARBOHYDRATE SULFOTRANSFERASE | 26 | 316 | 6.0E-106 |
| 1 | g1276.t1 | Pfam | PF03567 | Sulfotransferase family | 67 | 307 | 2.3E-59 |
| 7 | g1276.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 8 | g1276.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 8 | - |
| 9 | g1276.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 9 | 18 | - |
| 10 | g1276.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 23 | - |
| 6 | g1276.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 317 | - |
| 4 | g1276.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 114 | 309 | 2.61E-5 |
| 5 | g1276.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 23 | - |
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:0016051 | carbohydrate biosynthetic process | BP |
| GO:0008146 | sulfotransferase activity | MF |
| GO:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K01017 (chondroitin 4-sulfotransferase 11)
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.
