General information for g13171.t22
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chondroitin sulfate glucuronyltransferase.
Parent gene
- The parent gene g13171 is located on chr_1: 28320230..28321582 (- 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 | g13171 | g13171.t22 | isoform | g13171.t22 | 28320230 | 28321582 |
| chr_1 | g13171 | g13171.t22 | exon | g13171.t22.exon1 | 28320230 | 28321582 |
| chr_1 | g13171 | g13171.t22 | cds | g13171.t22.CDS1 | 28320231 | 28321400 |
| chr_1 | g13171 | g13171.t22 | TSS | g13171.t22 | NA | NA |
| chr_1 | g13171 | g13171.t22 | TTS | g13171.t22 | NA | NA |
Sequences
>g13171.t22 Gene=g13171 Length=1353
AGTATCTGAAAGATGATCATTTGAATGACCTAAAATGCGTCAAAATCTTTCTCACAAGAT
CATACAGTAATAAAAAGATTTAATTCCAAAAGAAAAATTTTGATCATTTTTAAAAAGTTC
AAACAAATGCATTTAACATAATCATAGTAGAAATTAAGTGCCAATAGCCCATTGAGATAA
TCATGTATCTTCCTAAAGTGTTTAGATTTAGGAGTTCACAACTCAGTGCTAATCAATATT
TTATTGTATGTCTGATCGGAGGATTTTTATTAAGTTTTTATTGGCCTACATCAAGCTATC
GTGATGAAAATTGCGAACAGAAATTAAGAGAACTCGCTTCAATTAATGGCAATTCACAAA
GTCATTTACTTAATGAAGATTTCGAACCGCAGCTTAATTTAGCACAAAAACCTATGTCAG
CAAAAAAGTCAGTCAAATCGATCGTTCGTCCAAGATATTTCAGTTCAGAATTAAATGTAA
AACAAGATCGATTATTTGTTGGTGTACTAACAGTACAAGAGAATATTGAAAGTTTGGCAA
CTGCCTTCAATAAAACAACTGCACATCTAGTTAATAAGATTAAATTTTTCATTCATGCCG
ATAATATTAAGACAAATTTCAAGCTTAAAAATATTGTCGGATTTACAGATACAAGAGAGA
ATTATCGTGCATTTCATGTTTTAAAGTATATTGGAGACAATTATTTAGAGGATTATGATT
TCTTCTATATAATTGAAGATGGTGCTTATTTGAATGCAAGATCACTTATGGAGAAATTAA
ATCATATAAGCATGAGTTTTGATGTTTACTTGGGTACAAAAATTGAAGATCGTGAAGAAG
GATTTTGTGATTTAAAAGCTGGAATTCTTTTGAGTAGCAGCGTTGTGAAAAAAATTAAAT
TGAAACTTGATGCATGTGTTAGAACAGCTGATGGAACTCATCATAGTGTTAACGTTGGTA
GATGCGTACAACTTGCTACAGACATAAAAGAGTGTCAAGAATTTTTTCAAGCTATCTCGT
TGCCAACTTATGTCCTCTCAAATCAAAAGATTTATCGAGATCTTCATTTTTTAAAAGAGG
ATACAAATTTTAATCAAGCATCTATCATATATCCACTCACTTCAGCTGATGATCTTTACA
TTCTTCATGCATATTTTTCAAAGCTTCATCTTGATGCAGTAAAGAATAAAATCTCAAAAT
TAGAGGAAGAAGCTGCCCACATTGGAAATGGCACGATCTCAAATAACATTTTAGAAATTA
ATTGGCCTCTAGGAGTCAATCAAGCAATGAAACCTCAACACCGTCATGATATTATTTTAT
GGACAAATTTAAATTTAACACATAGTTTTATGA
>g13171.t22 Gene=g13171 Length=390
MYLPKVFRFRSSQLSANQYFIVCLIGGFLLSFYWPTSSYRDENCEQKLRELASINGNSQS
HLLNEDFEPQLNLAQKPMSAKKSVKSIVRPRYFSSELNVKQDRLFVGVLTVQENIESLAT
AFNKTTAHLVNKIKFFIHADNIKTNFKLKNIVGFTDTRENYRAFHVLKYIGDNYLEDYDF
FYIIEDGAYLNARSLMEKLNHISMSFDVYLGTKIEDREEGFCDLKAGILLSSSVVKKIKL
KLDACVRTADGTHHSVNVGRCVQLATDIKECQEFFQAISLPTYVLSNQKIYRDLHFLKED
TNFNQASIIYPLTSADDLYILHAYFSKLHLDAVKNKISKLEEEAAHIGNGTISNNILEIN
WPLGVNQAMKPQHRHDIILWTNLNLTHSFM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13171.t22 | PANTHER | PTHR12369:SF13 | HEXOSYLTRANSFERASE | 13 | 390 | 1.7E-84 |
| 3 | g13171.t22 | PANTHER | PTHR12369 | CHONDROITIN SYNTHASE | 13 | 390 | 1.7E-84 |
| 1 | g13171.t22 | Pfam | PF05679 | Chondroitin N-acetylgalactosaminyltransferase | 242 | 390 | 1.2E-27 |
| 4 | g13171.t22 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 15 | - |
| 6 | g13171.t22 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 16 | 34 | - |
| 5 | g13171.t22 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 35 | 390 | - |
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:0032580 | Golgi cisterna membrane | CC |
| GO:0008376 | acetylgalactosaminyltransferase activity | MF |
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.
