General information for g11881.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-L-iduronidase.
Parent gene
- The parent gene g11881 is located on chr_1: 18955185..18961632 (+ 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 | g11881 | g11881.t2 | isoform | g11881.t2 | 18946630 | 18955185 |
| chr_1 | g11881 | g11881.t2 | exon | g11881.t2.exon1 | 18946630 | 18946807 |
| chr_1 | g11881 | g11881.t2 | exon | g11881.t2.exon2 | 18953100 | 18953381 |
| chr_1 | g11881 | g11881.t2 | cds | g11881.t2.CDS1 | 18953104 | 18953381 |
| chr_1 | g11881 | g11881.t2 | exon | g11881.t2.exon3 | 18953433 | 18953614 |
| chr_1 | g11881 | g11881.t2 | cds | g11881.t2.CDS2 | 18953433 | 18953614 |
| chr_1 | g11881 | g11881.t2 | exon | g11881.t2.exon4 | 18953676 | 18953771 |
| chr_1 | g11881 | g11881.t2 | cds | g11881.t2.CDS3 | 18953676 | 18953771 |
| chr_1 | g11881 | g11881.t2 | exon | g11881.t2.exon5 | 18953833 | 18954937 |
| chr_1 | g11881 | g11881.t2 | cds | g11881.t2.CDS4 | 18953833 | 18954937 |
| chr_1 | g11881 | g11881.t2 | exon | g11881.t2.exon6 | 18954993 | 18955185 |
| chr_1 | g11881 | g11881.t2 | cds | g11881.t2.CDS5 | 18954993 | 18955185 |
| chr_1 | g11881 | g11881.t2 | TTS | g11881.t2 | 18955289 | 18955289 |
| chr_1 | g11881 | g11881.t2 | TSS | g11881.t2 | NA | NA |
Sequences
>g11881.t2 Gene=g11881 Length=2036
GCATCGTCGCTGGAGCTTGAGCTGATGATTTTTTTTCCTTCAATACACAGAATATATGAG
TGAATGTGTCATGAAAATATTGAACGCACTCATGTGTGGTGAAAAAAGAAATATTTGTTC
TTTTTTTATCTGTTCAATGTTTTGTGGTGAGTGAGTAAAAACATCTGTTTTGTGTTGTAA
AAATGAAAAAAATTTTGGTATTTTTTTATTGCCTGATTTTCATTTACCTCGTATATGGTC
GAGTTAATGTAATTGATTATGAAAAATCAACAAATGTTATGAAAAGAATGCCAAAATTTT
GGACAAATACTGGCTTTGCCCCAACTGAACCAATCAACAATGTTTTCGATTTCTTTGAGA
CAAAAGATTTAAATATGAATTTAGAAATCATTGGATCAATGCCCAATAATGGACTAAAAT
ACATTCGAATACATTGGCTTTTGAATTTAATAAAAATTAGTGGATATGACAGCAAAAATC
AACCAATATTTAATTTTGAAAAATTAGATACTTTTTTAAGAAAAATGATTAATGAATATA
ACTTATTGCCTGTAATTGAATTTATGACAACTTTAAAGTTTAAAAATATGAACAAAGATT
CATGGAAAACACTTTCTTATCAAATTATTACACATTATGCAGAAATTTATGGATTAAAAA
ATGTTGCAAAATGGAAATTTGAATCCTGGAATGAACCTGATCTTAAAAATTATAACAAAC
TCAACTTTACTTTATCAGATTATTTGGAATACATTTATGGTATAAAAGAAGGTTTAGAAT
TAGCTGAGAGAAATTTCACCTCAAAATATATTTTAAAACTAAGAGGACCAGCTGGATTAT
TCAAAGATGAAAAGAATCATAAATTTTGTTGGTCTGTATTAGAAAAATGTAATCAGAATA
TTACAAATTGCCCAATTGATATAATAACATTTCATCGAAAAGGAAATGGAATCGAAGCTA
ATGAAATAATTGATACAAGTTTTACATTAATAGATGAATTTTCTACAAGATTTAAAAATC
TTTCAAAATTTAAATATTCTAATACTGAAGCAGATCCAATAAAAACTTGGTCACAACCTC
GTGATTTTCAGTCAGATACAAGGTATGCTTCTATTTTAGTAGAAACAATATTTCAGTATT
GGAAAGCAAAATTTGAAAAACAAATGACAAATTTGGAGTCAATTAGTCATGATAATAGTT
TTATGAATTTTTATCCAAATATTTTCACACAACGGACATTATTGGCAAGATTTCAAATGA
ATAACAGTGTACCAATATATAGTCAAATTATTCAAAAACCTGTATACAGTGCATTGGGAT
TGATTGCAAATTTAGCTAAAAATGCATCAAATTATCAGAAAACACAAAACCTTTCTTATC
TCATAACGACACATAATGGAAGAAAAAATAATAAATTTTACTCATGTATAATTATTTTAA
CGCATGTAAACACAACAAAAAATAATAACAGAACAAAAACAATTGAAATCGAGATTAAAA
ATTTACCTCATCGTAATGATCTGCATTATTTTGTTGAAGTCATTGATAATAAACGAACAA
ATCCATCAATGATTTATCAAATTTATAACAAACCAATTTATCCAGATCAGAGAGTTTTTG
AAGAAATGAGAAAAAGTCAGAATCCAAGAATTTTAGAACAACCAACTCAAGTAATTGATG
GAAAAATATTTTTAAATGCTCAACTGATGGAACCATTTATAATATCAATTAGAATTTGCA
GTAAAAATATCAAGAGACCAATTGCACCATTTAACCTTAGAATAAGACAATTAAATTTAC
AAGAAATTATTTTGTTTTGGTCAGATTATTCCTATAAAATGAGATGCATAAAAACTTATG
AACTATTTTTTAAATATGAAGATGATTACCAACAAATTGAAACAAAAAACATTCCATTTT
TGTATTATCAATTACGACATTCAATTCCTGGATGCTTCAAAGTACGATCTTTGGATATTA
ATCATCAATACAGCGACTTTTCTAAAGAAACTTGTTTTAATACGATCAAAATTTAA
>g11881.t2 Gene=g11881 Length=617
MKKILVFFYCLIFIYLVYGRVNVIDYEKSTNVMKRMPKFWTNTGFAPTEPINNVFDFFET
KDLNMNLEIIGSMPNNGLKYIRIHWLLNLIKISGYDSKNQPIFNFEKLDTFLRKMINEYN
LLPVIEFMTTLKFKNMNKDSWKTLSYQIITHYAEIYGLKNVAKWKFESWNEPDLKNYNKL
NFTLSDYLEYIYGIKEGLELAERNFTSKYILKLRGPAGLFKDEKNHKFCWSVLEKCNQNI
TNCPIDIITFHRKGNGIEANEIIDTSFTLIDEFSTRFKNLSKFKYSNTEADPIKTWSQPR
DFQSDTRYASILVETIFQYWKAKFEKQMTNLESISHDNSFMNFYPNIFTQRTLLARFQMN
NSVPIYSQIIQKPVYSALGLIANLAKNASNYQKTQNLSYLITTHNGRKNNKFYSCIIILT
HVNTTKNNNRTKTIEIEIKNLPHRNDLHYFVEVIDNKRTNPSMIYQIYNKPIYPDQRVFE
EMRKSQNPRILEQPTQVIDGKIFLNAQLMEPFIISIRICSKNIKRPIAPFNLRIRQLNLQ
EIILFWSDYSYKMRCIKTYELFFKYEDDYQQIETKNIPFLYYQLRHSIPGCFKVRSLDIN
HQYSDFSKETCFNTIKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g11881.t2 | CDD | cd00063 | FN3 | 526 | 614 | 0.00910157 |
| 12 | g11881.t2 | Gene3D | G3DSA:2.60.40.1500 | Glycosyl hydrolase domain; family 39 | 34 | 519 | 3.3E-149 |
| 13 | g11881.t2 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 37 | 385 | 3.3E-149 |
| 11 | g11881.t2 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 524 | 617 | 2.1E-9 |
| 2 | g11881.t2 | PANTHER | PTHR12631:SF8 | ALPHA-L-IDURONIDASE | 31 | 604 | 3.1E-85 |
| 3 | g11881.t2 | PANTHER | PTHR12631 | ALPHA-L-IDURONIDASE | 31 | 604 | 3.1E-85 |
| 6 | g11881.t2 | PRINTS | PR00745 | Glycosyl hydrolase family 39 signature | 144 | 161 | 2.4E-6 |
| 4 | g11881.t2 | PRINTS | PR00745 | Glycosyl hydrolase family 39 signature | 161 | 177 | 2.4E-6 |
| 5 | g11881.t2 | PRINTS | PR00745 | Glycosyl hydrolase family 39 signature | 301 | 318 | 2.4E-6 |
| 1 | g11881.t2 | Pfam | PF01229 | Glycosyl hydrolases family 39 | 32 | 520 | 8.9E-55 |
| 15 | g11881.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 16 | g11881.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 17 | g11881.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 14 | - |
| 18 | g11881.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 14 | g11881.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 617 | - |
| 21 | g11881.t2 | ProSitePatterns | PS01027 | Glycosyl hydrolases family 39 active site. | 164 | 173 | - |
| 9 | g11881.t2 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 39 | 384 | 1.04E-28 |
| 7 | g11881.t2 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 373 | 529 | 1.91E-14 |
| 8 | g11881.t2 | SUPERFAMILY | SSF49265 | Fibronectin type III | 528 | 614 | 2.31E-5 |
| 10 | g11881.t2 | SignalP_EUK | SignalP-TM | SignalP-TM | 1 | 19 | - |
| 20 | g11881.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 24 | - |
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:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | MF |
| GO:0005515 | protein binding | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K01217 (L-iduronidase)
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.
