General information for g11075.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Acidic mammalian chitinase.
Parent gene
- The parent gene g11075 is located on chr_1: 13790606..13793813 (+ 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 | g11075 | g11075.t1 | TSS | g11075.t1 | 13789172 | 13789172 |
| chr_1 | g11075 | g11075.t1 | isoform | g11075.t1 | 13789220 | 13790606 |
| chr_1 | g11075 | g11075.t1 | exon | g11075.t1.exon1 | 13789220 | 13789280 |
| chr_1 | g11075 | g11075.t1 | cds | g11075.t1.CDS1 | 13789220 | 13789280 |
| chr_1 | g11075 | g11075.t1 | exon | g11075.t1.exon2 | 13789364 | 13789376 |
| chr_1 | g11075 | g11075.t1 | cds | g11075.t1.CDS2 | 13789364 | 13789376 |
| chr_1 | g11075 | g11075.t1 | exon | g11075.t1.exon3 | 13789455 | 13789681 |
| chr_1 | g11075 | g11075.t1 | cds | g11075.t1.CDS3 | 13789455 | 13789681 |
| chr_1 | g11075 | g11075.t1 | exon | g11075.t1.exon4 | 13789744 | 13790606 |
| chr_1 | g11075 | g11075.t1 | cds | g11075.t1.CDS4 | 13789744 | 13790606 |
| chr_1 | g11075 | g11075.t1 | TTS | g11075.t1 | 13790706 | 13790706 |
Sequences
>g11075.t1 Gene=g11075 Length=1164
ATGAAAAACTTGTTGGGCTTTTTGATTTTGAGTTCAATTTTCTTTGCTGCATTTGCTGCA
AGAAAGAACGTATGCTATTGGGGAACGTGGTCACATTATCGAACTGGTGATGCACATTTT
AGTATTGATAACATTGATTTGGCTCTTTGCACACATTTTGTTTATTCATTCTTGGGAGCT
ACTCCTGAAGGGCATGTTATTCATTTAGATCCAGTTGTTGATCTTGAACTTGGTTATATT
TCAAGATTTACAGCATTAAAAAGTAGAAGTCCTCAAACGAAATTCTTGTTCAGTGTTGGA
GGTTATTCATTTGGTTCTGAAATTTTCTCACGCCTTGCTTCAACTGCTGCAACTCGCGCT
ACATTTGCACAAAGTGTGCTTGCAAAAATCAATGAATTTAATTTTGATGGCTTTGATCTC
GATTGGGAATGGCCAGGACAACGAAATGGAAGCAGTCCTAATGATCGAGATAATTTTGTT
CTTCTTTGTGCTGAAATTCATCGTGTGCTGCAACCAGCTGGAAAAGAATTTGGCATTGCA
GTGGCAGCAGTGGAAAGCTCTGCAGCAATTTCTTATGATGTTCCAAGAGTGCAAGCAAAT
GTTGATTTCATTTTTCTTATGACTTATGACATGCATGGATCATGGAACTCTTTTACTGGA
ATTCATGCAGCATTGTATGCTGGTCCAGCTGATACAAATTCATTTCTACAGACATTAAAT
GTACATGCATCAGTAACATGGTGGTTAAATCAAGGCACACCACGTAATAAATTAGTTGTT
GGTATGCCGTCTTATGGTCGAAGTTTTACACTTCGAAGTGCAGCTAATAATGCTATTGGA
GCTCCTGCAACTGGGGCCGGTAATCCTGGTTTTTTATTAAACGAACCTGGTTTTCTTGGT
TATAATGAAATTTGTCAAATGGTCAGAACTTGGGGATATACAAGAGTTTGGCAATCACAA
CAATTAGTTCCATATGCATTCAATGGAAATCAATGGGTTGGCTATGATGATACTGAATCA
ATAAGACACAAATTACAATACATAATCGATAATAATCTTGCTGGCTCTATGTGGTGGTCA
ATTGAGACGGAAGATTTTCATAATCGTTGCGGAAATGGAAATTCACCATTAATTCGATTA
GCTCAAGAAATGATGAATTGGTAG
>g11075.t1 Gene=g11075 Length=387
MKNLLGFLILSSIFFAAFAARKNVCYWGTWSHYRTGDAHFSIDNIDLALCTHFVYSFLGA
TPEGHVIHLDPVVDLELGYISRFTALKSRSPQTKFLFSVGGYSFGSEIFSRLASTAATRA
TFAQSVLAKINEFNFDGFDLDWEWPGQRNGSSPNDRDNFVLLCAEIHRVLQPAGKEFGIA
VAAVESSAAISYDVPRVQANVDFIFLMTYDMHGSWNSFTGIHAALYAGPADTNSFLQTLN
VHASVTWWLNQGTPRNKLVVGMPSYGRSFTLRSAANNAIGAPATGAGNPGFLLNEPGFLG
YNEICQMVRTWGYTRVWQSQQLVPYAFNGNQWVGYDDTESIRHKLQYIIDNNLAGSMWWS
IETEDFHNRCGNGNSPLIRLAQEMMNW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11075.t1 | Gene3D | G3DSA:3.20.20.80 | Glycosidases | 24 | 382 | 4.4E-124 |
| 8 | g11075.t1 | Gene3D | G3DSA:3.10.50.10 | - | 264 | 335 | 4.4E-124 |
| 2 | g11075.t1 | PANTHER | PTHR11177 | CHITINASE | 20 | 379 | 1.3E-106 |
| 3 | g11075.t1 | PANTHER | PTHR11177:SF360 | CHITINASE 12-RELATED | 20 | 379 | 1.3E-106 |
| 1 | g11075.t1 | Pfam | PF00704 | Glycosyl hydrolases family 18 | 23 | 362 | 1.9E-83 |
| 10 | g11075.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 11 | g11075.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 12 | g11075.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 13 | g11075.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 9 | g11075.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 387 | - |
| 15 | g11075.t1 | ProSitePatterns | PS01095 | Chitinases family 18 active site. | 135 | 143 | - |
| 16 | g11075.t1 | SMART | SM00636 | 2g34 | 21 | 364 | 1.4E-127 |
| 5 | g11075.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 22 | 381 | 2.77E-88 |
| 4 | g11075.t1 | SUPERFAMILY | SSF54556 | Chitinase insertion domain | 265 | 335 | 1.44E-22 |
| 6 | g11075.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 14 | g11075.t1 | SignalP_GRAM_NEGATIVE | SignalP-TM | SignalP-TM | 1 | 19 | - |
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:0008061 | chitin binding | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
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.
