General information for g5984.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Arylsulfatase B.
Parent gene
- The parent gene g5984 is located on chr_2: 13164565..13166412 (- 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_2 | g5984 | g5984.t1 | TTS | g5984.t1 | 13164497 | 13164497 |
| chr_2 | g5984 | g5984.t1 | isoform | g5984.t1 | 13164565 | 13166412 |
| chr_2 | g5984 | g5984.t1 | exon | g5984.t1.exon1 | 13164565 | 13165370 |
| chr_2 | g5984 | g5984.t1 | cds | g5984.t1.CDS1 | 13164565 | 13165370 |
| chr_2 | g5984 | g5984.t1 | exon | g5984.t1.exon2 | 13165428 | 13165918 |
| chr_2 | g5984 | g5984.t1 | cds | g5984.t1.CDS2 | 13165428 | 13165918 |
| chr_2 | g5984 | g5984.t1 | exon | g5984.t1.exon3 | 13165973 | 13166321 |
| chr_2 | g5984 | g5984.t1 | cds | g5984.t1.CDS3 | 13165973 | 13166321 |
| chr_2 | g5984 | g5984.t1 | exon | g5984.t1.exon4 | 13166385 | 13166412 |
| chr_2 | g5984 | g5984.t1 | cds | g5984.t1.CDS4 | 13166385 | 13166412 |
| chr_2 | g5984 | g5984.t1 | TSS | g5984.t1 | 13166563 | 13166563 |
Sequences
>g5984.t1 Gene=g5984 Length=1674
ATGAATAAAACGCGTAAAAACTTCTCTACAAATTTGACAGCATTGTTTTATATTCTCTTT
CAACTCATTAAAGTCGTGTATACTGATAAATCACCTCCGAATATAATTTTTATATTAGCT
GATGATTTGGGTTGGAATGATGTGAGCTTTCATGGAAGTTCTCAAATTTTTACACCACAT
ATCGATGCATTGGCCTATTCAGGGATTATTTTAAATTCCTATTATGTTAATCCGATATGT
ACACCATCAAGATCAGCTTTAATGACAGGCAAATATCCAATCCATACTGGTATGCAGCAT
ACTGTTCTTTTTGGAGCTGAAGCTAGAGGATTACCACTAACAGAAAAAATCTTACCTCAA
TATCTTAAAGATCTTGGTTATTCAAATCATATTGTTGGTAAATGGCATTTGGGAAGTTAT
ACAAAAGCATACACACCATTAATGAGAGGATTTGAGTCACATGTTGGATTTTGGACAGGT
CATCAAGATTATTTTGATCATACAGCAGAAGAAAAAGGAATGTGGGGGTTAGATATGCGA
CGAAACTTTGATGTTGCTTATGATTTACATGGGAAATATATAACCGATGTAATTTCAAAT
GAAGCTGTAAAAGTTATTCATAATCGTAATACGAGCCAACCACTTTTTCTCTATGTTGCT
CATGCTGCATCACATTCAGGAAATTCTTATAATCCTTTGCCTGCATTTGATGATGATGTT
GCAAAAATAAAACACATTGATGACTTCAATAGAAGAAAATTTGCAGCAATAGTGCAGCAT
ATGGATAAATCAGTTGGTGAAATTGTTAATGCACTTGCAGAAGAAAATATATTAAATAAT
TCAATAATTATTTTTTCATCCGACAATGGTGGACCCGCAGCCGGTTTTAATTTAAATGCA
GCTTCAAATTTTCCATTGAGAGGCGTTAAAAATACTTTATGGGAGGGTGGCATAAGAGCT
GCAGGTTTTATTTGGTCACCATTATTGAAGCAAAGAGCTCGAGTTTCAAATCAACTGTTT
CATATTTCTGATTGGTTGCCAACACTCTATCACGCTGCTGGTGGTAATTCATCAATTTTT
AAACAAAGAAAAATTGACGGTATAGATCAATTTGAAATACTCAATGAAAATTTGCAATCA
TCTCGAACTGAGGTTCTTCATAATATTGACAATATTTGGGGAAGCTCATCTCTTATGATG
GATAAATGGAAATTAGTTGTCGGTACAAATTATGATGGACAGTGGGATTATTGGTATGGA
CCAGTTGGTAACAGAACTGAGTCTTCTTATTCTATCAATGATTTATTAAATTCTTCAACG
GCAAAAGCGTTAGAAAAATTAAACATGTTACCTGATGTTGATACAATTTTAAGATCTAGA
AGAGCTGCAACAGTCGCATGCACAAATATTGAAATAGATAAATGTAAACCTCTTGAAAAA
CCTTGCTTATTTGACATTTTAAATGATCCATGCGAAGAGAATAATTTAGCTGACAAATAT
CCTAATATAATGAAAACTTTAATGTCACGTTTGAATGAATTTAATGCTTCTTCAATACCA
GCATCAAATTTACCAATAGATCAAAGAGGTAATCCAAAATATCATAATTATGTGTGGACC
AATTGGGGTGATTTCAACAACGATGTTAATGAACATTCAACAATTCATTACTAA
>g5984.t1 Gene=g5984 Length=557
MNKTRKNFSTNLTALFYILFQLIKVVYTDKSPPNIIFILADDLGWNDVSFHGSSQIFTPH
IDALAYSGIILNSYYVNPICTPSRSALMTGKYPIHTGMQHTVLFGAEARGLPLTEKILPQ
YLKDLGYSNHIVGKWHLGSYTKAYTPLMRGFESHVGFWTGHQDYFDHTAEEKGMWGLDMR
RNFDVAYDLHGKYITDVISNEAVKVIHNRNTSQPLFLYVAHAASHSGNSYNPLPAFDDDV
AKIKHIDDFNRRKFAAIVQHMDKSVGEIVNALAEENILNNSIIIFSSDNGGPAAGFNLNA
ASNFPLRGVKNTLWEGGIRAAGFIWSPLLKQRARVSNQLFHISDWLPTLYHAAGGNSSIF
KQRKIDGIDQFEILNENLQSSRTEVLHNIDNIWGSSSLMMDKWKLVVGTNYDGQWDYWYG
PVGNRTESSYSINDLLNSSTAKALEKLNMLPDVDTILRSRRAATVACTNIEIDKCKPLEK
PCLFDILNDPCEENNLADKYPNIMKTLMSRLNEFNASSIPASNLPIDQRGNPKYHNYVWT
NWGDFNNDVNEHSTIHY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5984.t1 | CDD | cd16029 | 4-S | 33 | 412 | 0.0 |
| 2 | g5984.t1 | PANTHER | PTHR10342 | ARYLSULFATASE | 16 | 546 | 6.0E-209 |
| 3 | g5984.t1 | PANTHER | PTHR10342:SF269 | RE14504P | 16 | 546 | 6.0E-209 |
| 1 | g5984.t1 | Pfam | PF00884 | Sulfatase | 33 | 354 | 1.0E-64 |
| 7 | g5984.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 28 | - |
| 8 | g5984.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 11 | - |
| 9 | g5984.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 12 | 23 | - |
| 10 | g5984.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 24 | 28 | - |
| 6 | g5984.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 29 | 557 | - |
| 13 | g5984.t1 | ProSitePatterns | PS00523 | Sulfatases signature 1. | 78 | 90 | - |
| 4 | g5984.t1 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 31 | 542 | 3.34E-120 |
| 5 | g5984.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 28 | - |
| 12 | g5984.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5984/g5984.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5984.t1.fa.iupred3.txt does not exist
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 K01135 (arylsulfatase B)
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.
