Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable chitinase 2.

Parent gene

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 g7666 g7666.t2 TTS g7666.t2 25178165 25178165
chr_2 g7666 g7666.t2 isoform g7666.t2 25178408 25179816
chr_2 g7666 g7666.t2 exon g7666.t2.exon1 25178408 25179816
chr_2 g7666 g7666.t2 cds g7666.t2.CDS1 25178408 25179643
chr_2 g7666 g7666.t2 TSS g7666.t2 25180631 25180631

Sequences

>g7666.t2 Gene=g7666 Length=1409
ATCACGGTGGTGTTTGTAGAGGAGACTCAGGATCAGGACTTTATATCAATCATCAAAATC
GTTGGTATCTTCAAGGAATTGTTTCATCATCATTAGTAGATAATAATGAATGTGATACTT
CAAATGATGCAGTTTATACCAATGTTGCAAAATTTATTGACTGGATAAATCAAATGATTG
ATTTTCGATTATCAAATCTTCCTATTCCATCTGCTAACAATTTTGATGATTTCAGAAGAA
ACAGAAAAGAAATAATTTGTTATATTCCAAACTGGACCATGTACAGAAGTGAAAAATCCT
TTTCATTAAATAATTTTAAGCCTGAACTTTGCACAACGGCTGTTTATATGTTTGCTGGTC
TTGATGAAGATGGCGGAATTAAAAGTATAGATCCTTGGGCTGATTTAGAAGATCAAGGTG
GACTAAATGGGTTCAAAAGATTTACATCATTGAAGAAAACTTTTCCACATCTTAGAACAC
TTTTATCAATTGGTGGTTGGAATGAAGGAGTTGAAAAATATTCAAAATTTGTTTCGAATC
CACTTAAAAGAAAAGGTTTTGCTTTACAATCAGCTGAATTTCTTAGACAATATAATTTTG
ATGGATTAGATTTTTATTGGGATTTTCCTGCTAATCCAGAACGTGGTGGAAGTCCAAATG
ATAAAGAAAATTTTGTTTTACTTTTAAAAGATCTTAATGTAGTCTACTCAGCAGCTGGTC
TTTTTCTTAGTGTCACAATGCGAGCAGCAAAATGGATAACTGATATAGCATATAATTTAA
CAGCTATTGCAGATTATGCTGATATGATGAATATGATGAATTTTGACCATAGTGGAGTTT
GGGATAAGAAGATTGGCTATAGTGCAGCACTTTATAAAAAAGCAAAATATCCATCAATTG
AAGATTCAATTCAAATTTTTCTAAATGCAAAAGTTCCACCAAGTAAACTGACTGTTGGAA
TTCCTTTCTATGCAAGAACATTTCTAACAACCGGTGATGGAAATATTGGTGATGAAAGTG
AACGTGAAGCTGAACCTGGACCTATTATAAAAGATAATAGTTTGATTGGATTTAATGAAA
TTTGTTTAATGAAAAAAGAAAAGCAATGGTTTTTTCAATTTGACCAGAAATCATCACAAA
TGATTGGGAAATATTTGACAAATGGAAAGCATGCAGTTGCTGTCTTTGATTCACCACGGT
CTGTAGCGAATAAAGTGAAATATGCAATGGAAAAGAATTTACGAGGCGTATGGGCTTGGT
CAATTGATATGGACGACTTTGATGGAGATTGTGAAATTGATGAAACAGTTTTTAATGACT
ACGGTCCAAGAAAACCACAAATTTATCATCAGAGAGATTTTCCACTTTTACGGACAATGA
ATATAGCAATGAAATTTTTAAATAATTGA

>g7666.t2 Gene=g7666 Length=411
MIDFRLSNLPIPSANNFDDFRRNRKEIICYIPNWTMYRSEKSFSLNNFKPELCTTAVYMF
AGLDEDGGIKSIDPWADLEDQGGLNGFKRFTSLKKTFPHLRTLLSIGGWNEGVEKYSKFV
SNPLKRKGFALQSAEFLRQYNFDGLDFYWDFPANPERGGSPNDKENFVLLLKDLNVVYSA
AGLFLSVTMRAAKWITDIAYNLTAIADYADMMNMMNFDHSGVWDKKIGYSAALYKKAKYP
SIEDSIQIFLNAKVPPSKLTVGIPFYARTFLTTGDGNIGDESEREAEPGPIIKDNSLIGF
NEICLMKKEKQWFFQFDQKSSQMIGKYLTNGKHAVAVFDSPRSVANKVKYAMEKNLRGVW
AWSIDMDDFDGDCEIDETVFNDYGPRKPQIYHQRDFPLLRTMNIAMKFLNN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7666.t2 Gene3D G3DSA:3.20.20.80 Glycosidases 27 369 0
7 g7666.t2 Gene3D G3DSA:3.10.50.10 - 265 338 0
2 g7666.t2 PANTHER PTHR11177:SF344 CHITINASE 2-RELATED 23 402 0
3 g7666.t2 PANTHER PTHR11177 CHITINASE 23 402 0
1 g7666.t2 Pfam PF00704 Glycosyl hydrolases family 18 27 367 0
5 g7666.t2 SMART SM00636 2g34 25 367 0
4 g7666.t2 SUPERFAMILY SSF51445 (Trans)glycosidases 25 375 0

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: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. There were no conditions that were differentially expressed