Gene loci information

Transcript annotation

  • This transcript has been annotated as Alpha-mannosidase 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_3 g100 g100.t1 TTS g100.t1 929596 929596
chr_3 g100 g100.t1 isoform g100.t1 929673 934202
chr_3 g100 g100.t1 exon g100.t1.exon1 929673 930157
chr_3 g100 g100.t1 cds g100.t1.CDS1 929673 930157
chr_3 g100 g100.t1 exon g100.t1.exon2 930367 932050
chr_3 g100 g100.t1 cds g100.t1.CDS2 930367 932050
chr_3 g100 g100.t1 exon g100.t1.exon3 932529 932587
chr_3 g100 g100.t1 cds g100.t1.CDS3 932529 932587
chr_3 g100 g100.t1 exon g100.t1.exon4 932698 933074
chr_3 g100 g100.t1 cds g100.t1.CDS4 932698 933074
chr_3 g100 g100.t1 exon g100.t1.exon5 933129 933387
chr_3 g100 g100.t1 cds g100.t1.CDS5 933129 933387
chr_3 g100 g100.t1 exon g100.t1.exon6 933965 934202
chr_3 g100 g100.t1 cds g100.t1.CDS6 933965 934202
chr_3 g100 g100.t1 TSS g100.t1 NA NA

Sequences

>g100.t1 Gene=g100 Length=3102
ATGACATCAAATGAAGTTAAGAATGATTATGAAGTTAGATTAGTTTCAAAGCCAGAAAGT
TTCAAAAAATTTATTCCAAAAATACACAAAAAGCTTTCGACTGCAAAAAGAAAATTTGAT
TTTTCAAATTTAACTTGTGATATTGACACAAATTTTGTTCCTGAACCAGACAATCAAATG
TTGAATATTTTAAATACTTTACCATTTGATGACAAAGATGGAGGCGTTTGGAAACAAGGT
TTCAACATTTCATATGATCAATCACAATGGAATTCAACAAATAAATTAAAAGTGTTTATT
GTTATGCACAGTCATAATGATCCAGGATGGCTGTACACATTTGATGAATATTATGAAAAA
CAAACAAAGAATATTTTTGAAAACATGTTGAAATATTTGACCAAAAATGAAAAACTCAAA
CTCATTTGGGCTGAAATTGTTTATTTTTCAAAATGGTTTGATTCTTTAGATGAAATTTCC
AAAGAAAAAGTTAAAATGTTAATAGAAAGAAAACAACTTGATTTTGTTACCGGTGGTTGG
GTAATGCCAGATGAAGCAGCAAGTCATTGGTATTCAGTGTTATTGGCATTAACAGAAGGT
CAAACATGGTTAAAAAATGTTCTAAATATCACAAACATCAAAAGTTCTTGGGCAATTGAT
CCCTTCGGCCATTCTTCATCTTTTCCTTATATTCTTAAACATGCCGGTTTTGAAAATCTT
CTTATACAAAGGACACATTATTCGACTAAAAAATATTTTGCAAAACGCCGTGAGCTGGAA
TTTAAATGGAGACAATTATGGGATTTGCGAGGAAAAACTGAATTATTTACTCATATGATG
CCTTTTTATAGCTATGATATTCCTCATACTTGTGGACCAGATCCTTCAGTTTGTTGTCAA
TTTGATTTCAGAAGAAACTTTTGTCCTTGGAATATTCAACCAACAGACATCACAGAATTA
AATATCGAATTAAAAAGTTCATTACTTGTTGATCAATGGAAGAAAAAGTCACAATTATTT
AAAACAAATTCATTATTGACACCATTGGGTGATGATTTTACTTATCAATCTGATTGGGAA
TGGAAAAAACAAACTGAAAATTTTGAAAAACTAATCAATTACATCAATAGCAATTCTGAA
TTTAATGTGGAAGCAAAATTTGCAACACTTCAAGAATATTTTGATTCTGTTAAAAATGAA
ATGAAAATTGAACAATTTCCGAGTTTGAGTGGTGACTTTTTTACTTATTGTGATAGAAAT
ACTCATTATTGGTCAGGTTATTTCACATCTCGACCATTTTACAAGCGAACTGATCGAATT
TTAATGAATTACATTAGATCAGCTGAAATGCTTTATTCATTTGCTGATTTTAAAGAAACA
AAAGATTTTGATACAAAATTAGAATATGCCAGAAGAGCTTTATCAATATTTCAACATCAT
GATGGCGTGTCAGGAACAGCAAGAGATCATGTGATGATAGATTATAATAAAATGATGACA
AGAGGTATTGAAAATAGTAAATATGTCATACAACAATCCATTCATAAACTCATGACAGAC
CCAATTAGTTATGTTTCCGATTTGAATTTCAAATATTTTGAATTTGACGATTTGCAAAGT
GCTGATGGCAATGATGAAGCACGAATTTTGATTGTTGTTGATGAATATAAAAAGTTTATT
GTCATTCATAATTCACAAACATACATGAGAAATGAAATTATTGAGCTTATAGTGAATACT
GACAAATCATGTGTTAGCGATGCTGAAGGGAATTTTATTGAAGCACAAATTTCACCTATA
GTGAAATATTCTGAGAAAGATGTTGAATTTGAAAAAGAAATTTATAAAATTCTTTTTAAA
GTTAAAATTGCACCTTTAGGAATGTCAAATTATGGAATTATTAAAAATGAAAATTGCACA
ACAACTTCATTAGCAAATGTCAAAATTTATTCTGAAAATTCAAATTTTTCTTATCCTGGA
TCAATTGAATTTTTGCCACTTCTTAATTCAAATGTTTTGAAATTTGGCACAAATGATATA
CTTTTTGATGAAAAAGGATTAATTCAAATAATTATCAAAAATTCACGAAATTTTCAATTC
AGTTTAAATTTTATGACATATGGAACTAAATCAATTAAAGGTCAAATGAGTGGTGCTTAT
ATTTTTATGCCTGATGGACCTGCACAGCTTTTGAATATCAAAGAAAAACCAACAGTTTTT
GTGATTGAAGGAAAATTGGAATCATCGTTGACAACAAATCTTTCATGTGTCAATCACAAT
GTCATTTTAAGAAGTGACACTGAAGCAATAGAAATAAGAAATAGCGTTGACATTCAAACA
TTGAATAACACTGAAATTGTCATGCGAGTAAAAACACAAGTTAAAAATTACAATATTTTT
TATACTGACTTGAATGGATTGCAATATGTAAAGCGAAAAATTTTAAGTCTTGTTCCACTT
CAAGGCAATTATTATCCAATAAATTCTGGACTATTCATTGAAGATGATGAAATGAGAATT
TCATTGTTTATCTCAACACCACTTGGTGGTTCATCACTTGATTCTGGTGAATTTGAAATT
ATGCAAGATCGTAAATTGGACCAAGATGATGAAAGAGGACTTCAACAAGGTGTAAAAGAT
AACAGAAAAGTTTTGAATATCTTCAGAATTTTGATTGAAAATCGAAAAATTTGTGAGAAA
CTCAATGAAAAATATCCAATGGGATTTCTCACAAAAGCAGCTTACAAAGAGCAAAAAAGA
CTCATTCATCCTTTAGAAAAGTTGATTTACACAAAAGAAGAATGGCCTGGAATGAAAAAT
TACTTTGGGAACAATCATGAAGAACATGAAGATTTTGAGATTGTTGCTATGAGAAAAGTT
CCTCATGTGGAACCAAATGCAATTGGAGTTGTTGTGCATAAGACAAATTTTGAAAAGTGT
GAGAAAAATGAAGAAAATTTCTTAAATTTAAAAAGATTATTGGGATTACATTCGAAAAAT
ATTTTCAAGTCATCAATAACATTGTTAGAAAAAAATGATCAAGTAATTGAAGATGAAATT
GCATTTTGTCATATGGACACTAAAGGATTTATTTTAACTTAA

>g100.t1 Gene=g100 Length=1033
MTSNEVKNDYEVRLVSKPESFKKFIPKIHKKLSTAKRKFDFSNLTCDIDTNFVPEPDNQM
LNILNTLPFDDKDGGVWKQGFNISYDQSQWNSTNKLKVFIVMHSHNDPGWLYTFDEYYEK
QTKNIFENMLKYLTKNEKLKLIWAEIVYFSKWFDSLDEISKEKVKMLIERKQLDFVTGGW
VMPDEAASHWYSVLLALTEGQTWLKNVLNITNIKSSWAIDPFGHSSSFPYILKHAGFENL
LIQRTHYSTKKYFAKRRELEFKWRQLWDLRGKTELFTHMMPFYSYDIPHTCGPDPSVCCQ
FDFRRNFCPWNIQPTDITELNIELKSSLLVDQWKKKSQLFKTNSLLTPLGDDFTYQSDWE
WKKQTENFEKLINYINSNSEFNVEAKFATLQEYFDSVKNEMKIEQFPSLSGDFFTYCDRN
THYWSGYFTSRPFYKRTDRILMNYIRSAEMLYSFADFKETKDFDTKLEYARRALSIFQHH
DGVSGTARDHVMIDYNKMMTRGIENSKYVIQQSIHKLMTDPISYVSDLNFKYFEFDDLQS
ADGNDEARILIVVDEYKKFIVIHNSQTYMRNEIIELIVNTDKSCVSDAEGNFIEAQISPI
VKYSEKDVEFEKEIYKILFKVKIAPLGMSNYGIIKNENCTTTSLANVKIYSENSNFSYPG
SIEFLPLLNSNVLKFGTNDILFDEKGLIQIIIKNSRNFQFSLNFMTYGTKSIKGQMSGAY
IFMPDGPAQLLNIKEKPTVFVIEGKLESSLTTNLSCVNHNVILRSDTEAIEIRNSVDIQT
LNNTEIVMRVKTQVKNYNIFYTDLNGLQYVKRKILSLVPLQGNYYPINSGLFIEDDEMRI
SLFISTPLGGSSLDSGEFEIMQDRKLDQDDERGLQQGVKDNRKVLNIFRILIENRKICEK
LNEKYPMGFLTKAAYKEQKRLIHPLEKLIYTKEEWPGMKNYFGNNHEEHEDFEIVAMRKV
PHVEPNAIGVVVHKTNFEKCEKNEENFLNLKRLLGLHSKNIFKSSITLLEKNDQVIEDEI
AFCHMDTKGFILT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g100.t1 Gene3D G3DSA:3.20.110.10 Glycoside hydrolase 38 45 420 0
12 g100.t1 Gene3D G3DSA:1.20.1270.50 Families 57/38 glycoside transferase middle domain 421 531 0
11 g100.t1 Gene3D G3DSA:2.60.40.1180 - 532 933 0
13 g100.t1 Gene3D G3DSA:2.70.98.30 - 648 925 0
4 g100.t1 PANTHER PTHR11607:SF57 ALPHA-MANNOSIDASE 2X 53 1028 0
5 g100.t1 PANTHER PTHR11607 ALPHA-MANNOSIDASE 53 1028 0
3 g100.t1 Pfam PF01074 Glycosyl hydrolases family 38 N-terminal domain 97 416 0
2 g100.t1 Pfam PF09261 Alpha mannosidase middle domain 422 517 0
1 g100.t1 Pfam PF07748 Glycosyl hydrolases family 38 C-terminal domain 681 872 0
9 g100.t1 SMART SM00872 Alpha_mann_mid_2 422 499 0
6 g100.t1 SUPERFAMILY SSF88713 Glycoside hydrolase/deacetylase 54 420 0
7 g100.t1 SUPERFAMILY SSF88688 Families 57/38 glycoside transferase middle domain 422 524 0
8 g100.t1 SUPERFAMILY SSF74650 Galactose mutarotase-like 557 1032 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:0030246 carbohydrate binding MF
GO:0006013 mannose metabolic process BP
GO:0005975 carbohydrate metabolic process BP
GO:0003824 catalytic activity MF
GO:0004559 alpha-mannosidase activity MF

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