Gene loci information

Transcript annotation

  • This transcript has been annotated as Endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase.

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 g2335 g2335.t2 TSS g2335.t2 16889586 16889586
chr_3 g2335 g2335.t2 isoform g2335.t2 16889691 16891276
chr_3 g2335 g2335.t2 exon g2335.t2.exon1 16889691 16889762
chr_3 g2335 g2335.t2 cds g2335.t2.CDS1 16889691 16889762
chr_3 g2335 g2335.t2 exon g2335.t2.exon2 16889844 16890041
chr_3 g2335 g2335.t2 cds g2335.t2.CDS2 16889844 16890041
chr_3 g2335 g2335.t2 exon g2335.t2.exon3 16890281 16890505
chr_3 g2335 g2335.t2 cds g2335.t2.CDS3 16890281 16890505
chr_3 g2335 g2335.t2 exon g2335.t2.exon4 16890618 16891276
chr_3 g2335 g2335.t2 cds g2335.t2.CDS4 16890618 16891274
chr_3 g2335 g2335.t2 TTS g2335.t2 NA NA

Sequences

>g2335.t2 Gene=g2335 Length=1154
ATGTTTGAAAAGGATTCGTATGTGTTGATTGTCGGCGATGAATCGGTAAAAAAGAGAAGA
GGGTTTAAAAGAACATGGAATGCTCTATCTCGTTTTCAAAAGAACCTTATAGTTATTATA
TGTCTAGCTGTATTATTACTCTGGATGTTTGTATTCATCCAGCGAAAAAATTTAAGAATT
GATGCTGAAGTAGAACACGTCAATTTAAGAAAGCCAGACAGCAGTCATAATGAAGAAGGA
GATAAGATTAGGATCATTCCATTATTCAAAGACAACCAGCTATCAATTAAAATGCAAGAA
GAAATAGTTGACAATGCCGATAATTGGGACGATGCAATCAAAAATCTTGTGAACGCAAAT
GGTGAAGTGAATAGCGATGACACTAAAAATTCAATTGACAATCCACAAGCTGTTGAATCT
AATAATAAAAATATTGAACCTCAAAAATCTGAGCTAAAGAAAGATAAGCAAGATGATACT
CAAATAAGTTTTAAGGGCCCTACTAATGATAGACAGAGAGCTGTTGTTGCAGCTATGAAG
CATTCTTGGATGGGCTATAAAACTTATGCCTTTGGTCATGACAATTTAAAGCCGATTAGT
CAAACATATAGTGATTGGTTCAATTTGGGTCTTACGATAGTAGATGCTTTAGATACTCTT
TATATAATGGATATGCAAGAAGAATACGGTGAAGGTAAACGCTGGGTTGAATCAGAAATG
AATTTGGACGTCAATCGTGATGTTAATTTATTTGAAACAACAATACGCGTGTTGGGTGGT
TTATTATCTATGTATCATTTGTCTGGAGAAGAAATTTATCTAACTAAAGCTAAAGATCTT
GGAAGAAGATTGATGCCATCCTTTAATACACCATCAAAAATACCATTCTCAGATGTAAAC
TTGAATACTTTAAGTGCTCATGCTCCAAAATGGAGTCCTGATTCTTCAACTTCAGAAGTA
ACAACTATTCAATTAGAATTTAGAGATTTGTCGCGTATATTAAACGATCCATCATTCGAA
AATGCTGCTGCAATGGTGAGCCAAAAAATTCATGAGCTTCCAAAAACAGATGGACTTGTT
CCGATCTTTATCAATGCGAATACAGGAACTTTTAGGACCTTTTCAACTATTTCATTAGGA
GCTCGTGGAGATTC

>g2335.t2 Gene=g2335 Length=384
MFEKDSYVLIVGDESVKKRRGFKRTWNALSRFQKNLIVIICLAVLLLWMFVFIQRKNLRI
DAEVEHVNLRKPDSSHNEEGDKIRIIPLFKDNQLSIKMQEEIVDNADNWDDAIKNLVNAN
GEVNSDDTKNSIDNPQAVESNNKNIEPQKSELKKDKQDDTQISFKGPTNDRQRAVVAAMK
HSWMGYKTYAFGHDNLKPISQTYSDWFNLGLTIVDALDTLYIMDMQEEYGEGKRWVESEM
NLDVNRDVNLFETTIRVLGGLLSMYHLSGEEIYLTKAKDLGRRLMPSFNTPSKIPFSDVN
LNTLSAHAPKWSPDSSTSEVTTIQLEFRDLSRILNDPSFENAAAMVSQKIHELPKTDGLV
PIFINANTGTFRTFSTISLGARGD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2335.t2 Gene3D G3DSA:1.50.10.10 - 168 384 4.5E-82
14 g2335.t2 MobiDBLite mobidb-lite consensus disorder prediction 124 145 -
15 g2335.t2 MobiDBLite mobidb-lite consensus disorder prediction 124 161 -
16 g2335.t2 MobiDBLite mobidb-lite consensus disorder prediction 146 161 -
2 g2335.t2 PANTHER PTHR11742 MANNOSYL-OLIGOSACCHARIDE ALPHA-1,2-MANNOSIDASE-RELATED 23 384 1.7E-97
3 g2335.t2 PANTHER PTHR11742:SF55 ENDOPLASMIC RETICULUM MANNOSYL-OLIGOSACCHARIDE 1,2-ALPHA-MANNOSIDASE 23 384 1.7E-97
7 g2335.t2 PRINTS PR00747 Glycosyl hydrolase family 47 signature 178 198 2.6E-30
6 g2335.t2 PRINTS PR00747 Glycosyl hydrolase family 47 signature 210 224 2.6E-30
5 g2335.t2 PRINTS PR00747 Glycosyl hydrolase family 47 signature 247 265 2.6E-30
4 g2335.t2 PRINTS PR00747 Glycosyl hydrolase family 47 signature 286 305 2.6E-30
1 g2335.t2 Pfam PF01532 Glycosyl hydrolase family 47 178 384 5.9E-68
11 g2335.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 35 -
12 g2335.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 53 -
10 g2335.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 54 384 -
8 g2335.t2 SUPERFAMILY SSF48225 Seven-hairpin glycosidases 166 384 9.81E-74
13 g2335.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 35 52 -

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:0016020 membrane CC
GO:0005509 calcium ion binding MF
GO:0004571 mannosyl-oligosaccharide 1,2-alpha-mannosidase activity 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.

Raw TPM values