General information for g17210.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as N-sulphoglucosamine sulphohydrolase.
Parent gene
- The parent gene g17210 is located on chr_4: 12825301..12827224 (- 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_4 | g17210 | g17210.t1 | TTS | g17210.t1 | 12824896 | 12824896 |
| chr_4 | g17210 | g17210.t1 | isoform | g17210.t1 | 12825301 | 12827224 |
| chr_4 | g17210 | g17210.t1 | exon | g17210.t1.exon1 | 12825301 | 12826736 |
| chr_4 | g17210 | g17210.t1 | cds | g17210.t1.CDS1 | 12825301 | 12826736 |
| chr_4 | g17210 | g17210.t1 | exon | g17210.t1.exon2 | 12827122 | 12827224 |
| chr_4 | g17210 | g17210.t1 | cds | g17210.t1.CDS2 | 12827122 | 12827224 |
| chr_4 | g17210 | g17210.t1 | TSS | g17210.t1 | 12827463 | 12827463 |
Sequences
>g17210.t1 Gene=g17210 Length=1539
ATGATCATTTTTAAATTAGCTGTTTTGATTCTTATAAGTGCATTAAATTTTTCATTAATT
TCATGTGATAAACCAAAAAAACCAAATGTTCTCTTTTTATTAGCGGATGATGCAGGTTTC
GAGATAGGTGCATATCTCAATAAAATAGTTCAAACACCAAACATTGATGCTCTCGCTCGC
CGTTCACTACTTTTTGAAAAAGCATTTGTCAGTGTCAGTTCATGTTCACCAAGTCGTTCA
GCAATTCTAACTGGTCAACCAATTCATCAAAATGGCATGTATGGCTTACACAATGCTGAA
AATCATTTCAATTCCTTTGATAACATTCAATCATTGCCGAAAATTCTCAAAAATCATAAT
ATCAAAACTGGTTTGATAGGAAAGAAACATGTTGGACCATCAGAAGCTTTCAAATTTGAT
TTTGAAGCAACTGAAGAGCAACATTCAATAAATCAAGTTGGTCGAAATATAACAAAAATA
AAACTACTTGTACGAGAATTTTTAAAAAATTCAAGTGATTCACAATTTTTCTTGATGGTT
GCCTTTCATGATCCACATCGTTGTGGCCATGTAACACCACAATTTGGTCCATTTTGTGAA
AGATTTGGTAGTGGTGAAGAAGGGATGGGAATAATTGAAGATTGGCATCCAATTTATTAT
CAATGGGAACAAGTTCAACTTCCTTATTACATTCAAGATACAGAACCAGCAAGAAGAGAC
ATTGCAGCACAATATACCACAATTTCAAGATTAGATCAAGGCATTGGACTTGTTTTGAAG
GAACTTGAAAGTGCTGGAAGAAATCGAGATACTTTAGTGATATACACGAGTGATAATGGC
CCGCCTTTTCCAAGCGGAAGAACAAATTTTTATGAACCAGGCATGAATGTTCCACTTTTA
ATGTCTTCACCTGATAAAAAACGTTGGCATGAAGCTACTTATGCTTTAACTTCGCATCTT
GATTTGCTTCCAACTTTTCTTGATTGGTTTGACATTCCCCAACAAAATTTAGATGAAAAT
GAAGTTACAAGTTTAACTGGAAAATCTTTGCTGTCACTACTTGATCATGATCCACCGAAT
GATGATACAACAGCTGTTTTTGGTAGTCATAACTTTCATGAAGTCACAATGGCTTATCCA
ATGCGTGTCATACGAAACAAACGCTACAAATTAATTCATAATTTATATTATGAATCGAAA
TTTCCAATTGATCAAGACTTTTATGTCTCATGGACTTTCCAAGATATTTTAAATAGAACA
ATTAGTAAAATGGGCATTCCATGGTATAAAACATTAAAAAATTATTACATTCGACCTGAA
TTTGAACTTTATGATTTAAATAAAGACATTTTAGAGAGACAAAATTTGGCATATAAGAAA
GATTTTCTAAAATTGAGAAATGAAATGGAAGAAAAATTGAAGAAATGGCAAGAAGATACA
AATGATCCTTGGAGATGTGAACCTCATGCTGTACTTGAAGATAAAGGAGATTTTAAGGGA
AATCCTAGTTGTTTGACTTTGGCTCATGATGAACTTTGA
>g17210.t1 Gene=g17210 Length=512
MIIFKLAVLILISALNFSLISCDKPKKPNVLFLLADDAGFEIGAYLNKIVQTPNIDALAR
RSLLFEKAFVSVSSCSPSRSAILTGQPIHQNGMYGLHNAENHFNSFDNIQSLPKILKNHN
IKTGLIGKKHVGPSEAFKFDFEATEEQHSINQVGRNITKIKLLVREFLKNSSDSQFFLMV
AFHDPHRCGHVTPQFGPFCERFGSGEEGMGIIEDWHPIYYQWEQVQLPYYIQDTEPARRD
IAAQYTTISRLDQGIGLVLKELESAGRNRDTLVIYTSDNGPPFPSGRTNFYEPGMNVPLL
MSSPDKKRWHEATYALTSHLDLLPTFLDWFDIPQQNLDENEVTSLTGKSLLSLLDHDPPN
DDTTAVFGSHNFHEVTMAYPMRVIRNKRYKLIHNLYYESKFPIDQDFYVSWTFQDILNRT
ISKMGIPWYKTLKNYYIRPEFELYDLNKDILERQNLAYKKDFLKLRNEMEEKLKKWQEDT
NDPWRCEPHAVLEDKGDFKGNPSCLTLAHDEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17210.t1 | CDD | cd16027 | SGSH | 28 | 478 | 4.19163E-124 |
| 7 | g17210.t1 | Coils | Coil | Coil | 448 | 479 | - |
| 6 | g17210.t1 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 27 | 485 | 4.4E-154 |
| 2 | g17210.t1 | PANTHER | PTHR43108:SF6 | N-SULPHOGLUCOSAMINE SULPHOHYDROLASE | 15 | 509 | 1.3E-223 |
| 3 | g17210.t1 | PANTHER | PTHR43108 | N-ACETYLGLUCOSAMINE-6-SULFATASE FAMILY MEMBER | 15 | 509 | 1.3E-223 |
| 1 | g17210.t1 | Pfam | PF00884 | Sulfatase | 28 | 332 | 3.9E-54 |
| 9 | g17210.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 22 | - |
| 10 | g17210.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 11 | g17210.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 17 | - |
| 12 | g17210.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 22 | - |
| 8 | g17210.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 23 | 512 | - |
| 14 | g17210.t1 | ProSitePatterns | PS00523 | Sulfatases signature 1. | 73 | 85 | - |
| 15 | g17210.t1 | ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 22 | 5.0 |
| 4 | g17210.t1 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 26 | 493 | 2.18E-94 |
| 5 | g17210.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 22 | - |
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:0008484 | sulfuric ester hydrolase activity | MF |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01565 (N-sulfoglucosamine sulfohydrolase)
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.
