General information for g2335.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Endoplasmic reticulum mannosyl-oligosaccharide 1,2-alpha-mannosidase.
Parent gene
- The parent gene g2335 is located on chr_3: 16892172..16892882 (+ 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_3 | g2335 | g2335.t1 | TSS | g2335.t1 | 16889586 | 16889586 |
| chr_3 | g2335 | g2335.t1 | isoform | g2335.t1 | 16889691 | 16892172 |
| chr_3 | g2335 | g2335.t1 | exon | g2335.t1.exon1 | 16889691 | 16889762 |
| chr_3 | g2335 | g2335.t1 | cds | g2335.t1.CDS1 | 16889691 | 16889762 |
| chr_3 | g2335 | g2335.t1 | exon | g2335.t1.exon2 | 16889844 | 16890041 |
| chr_3 | g2335 | g2335.t1 | cds | g2335.t1.CDS2 | 16889844 | 16890041 |
| chr_3 | g2335 | g2335.t1 | exon | g2335.t1.exon3 | 16890281 | 16890505 |
| chr_3 | g2335 | g2335.t1 | cds | g2335.t1.CDS3 | 16890281 | 16890505 |
| chr_3 | g2335 | g2335.t1 | exon | g2335.t1.exon4 | 16890618 | 16891285 |
| chr_3 | g2335 | g2335.t1 | cds | g2335.t1.CDS4 | 16890618 | 16891285 |
| chr_3 | g2335 | g2335.t1 | exon | g2335.t1.exon5 | 16891340 | 16891525 |
| chr_3 | g2335 | g2335.t1 | cds | g2335.t1.CDS5 | 16891340 | 16891525 |
| chr_3 | g2335 | g2335.t1 | exon | g2335.t1.exon6 | 16891592 | 16891842 |
| chr_3 | g2335 | g2335.t1 | cds | g2335.t1.CDS6 | 16891592 | 16891842 |
| chr_3 | g2335 | g2335.t1 | exon | g2335.t1.exon7 | 16891913 | 16892172 |
| chr_3 | g2335 | g2335.t1 | cds | g2335.t1.CDS7 | 16891913 | 16892172 |
| chr_3 | g2335 | g2335.t1 | TTS | g2335.t1 | 16892673 | 16892673 |
Sequences
>g2335.t1 Gene=g2335 Length=1860
ATGTTTGAAAAGGATTCGTATGTGTTGATTGTCGGCGATGAATCGGTAAAAAAGAGAAGA
GGGTTTAAAAGAACATGGAATGCTCTATCTCGTTTTCAAAAGAACCTTATAGTTATTATA
TGTCTAGCTGTATTATTACTCTGGATGTTTGTATTCATCCAGCGAAAAAATTTAAGAATT
GATGCTGAAGTAGAACACGTCAATTTAAGAAAGCCAGACAGCAGTCATAATGAAGAAGGA
GATAAGATTAGGATCATTCCATTATTCAAAGACAACCAGCTATCAATTAAAATGCAAGAA
GAAATAGTTGACAATGCCGATAATTGGGACGATGCAATCAAAAATCTTGTGAACGCAAAT
GGTGAAGTGAATAGCGATGACACTAAAAATTCAATTGACAATCCACAAGCTGTTGAATCT
AATAATAAAAATATTGAACCTCAAAAATCTGAGCTAAAGAAAGATAAGCAAGATGATACT
CAAATAAGTTTTAAGGGCCCTACTAATGATAGACAGAGAGCTGTTGTTGCAGCTATGAAG
CATTCTTGGATGGGCTATAAAACTTATGCCTTTGGTCATGACAATTTAAAGCCGATTAGT
CAAACATATAGTGATTGGTTCAATTTGGGTCTTACGATAGTAGATGCTTTAGATACTCTT
TATATAATGGATATGCAAGAAGAATACGGTGAAGGTAAACGCTGGGTTGAATCAGAAATG
AATTTGGACGTCAATCGTGATGTTAATTTATTTGAAACAACAATACGCGTGTTGGGTGGT
TTATTATCTATGTATCATTTGTCTGGAGAAGAAATTTATCTAACTAAAGCTAAAGATCTT
GGAAGAAGATTGATGCCATCCTTTAATACACCATCAAAAATACCATTCTCAGATGTAAAC
TTGAATACTTTAAGTGCTCATGCTCCAAAATGGAGTCCTGATTCTTCAACTTCAGAAGTA
ACAACTATTCAATTAGAATTTAGAGATTTGTCGCGTATATTAAACGATCCATCATTCGAA
AATGCTGCTGCAATGGTGAGCCAAAAAATTCATGAGCTTCCAAAAACAGATGGACTTGTT
CCGATCTTTATCAATGCGAATACAGGAACTTTTAGGACCTTTTCAACTATTTCATTAGGA
GCTCGTGGAGATTCATATTACGAATATTTGTTAAAACAATGGCTTCAAATCGGGAAACAA
CCTGATCATTATTTGATCGAAGACTACAAAGAAGCTATTGCTGGTGTTATTAAAAATTTA
AGAAAAGAAACACCAAATGAACATCATATCTACATTGGTGAATTAATAAGTGGAAAAGAC
TTTAAACCCAAAATGGATCATTTAACATGTTATTTACCTGGAACGCTTTTACTTGGTTAT
AAAAACGGAATGCCACAATCTCATTTTACCTTGGCAACTGAATTGTTAGAAACATGTTAT
CAAACATATATAAAGCAACCAACAGGATTAGCTCCAGAAATTACTTATTTCAATCTTGAG
GGAGAAAGCTCAACTGACATCTATGTTAAAGCTAACGATGCTCACAATCTCCAAAGACCG
GAATTCATTGAAAGTCTTTATTATTTCTATGCAATTACAGGTAATAAAACTTACCAAGAC
ATGGGATGGAATATTTTTCAATCGTTTGAAAAATATACTCGTGTAAGTCATGGTTACACG
TCAATTAACAATGTAAGAAATGCAAAGGATGTCCGTCCAAAAGACATGATGGAAACTTTT
TGGCTCGGAGAAACTTTGAAATATTTCTATCTTTTGTTTAGTGACGATCGTAATGAAATT
GATTTAGATAAATTTATATTCAATACTGAAGCACATTTGATTCCTATTCGAGAAAACTGA
>g2335.t1 Gene=g2335 Length=619
MFEKDSYVLIVGDESVKKRRGFKRTWNALSRFQKNLIVIICLAVLLLWMFVFIQRKNLRI
DAEVEHVNLRKPDSSHNEEGDKIRIIPLFKDNQLSIKMQEEIVDNADNWDDAIKNLVNAN
GEVNSDDTKNSIDNPQAVESNNKNIEPQKSELKKDKQDDTQISFKGPTNDRQRAVVAAMK
HSWMGYKTYAFGHDNLKPISQTYSDWFNLGLTIVDALDTLYIMDMQEEYGEGKRWVESEM
NLDVNRDVNLFETTIRVLGGLLSMYHLSGEEIYLTKAKDLGRRLMPSFNTPSKIPFSDVN
LNTLSAHAPKWSPDSSTSEVTTIQLEFRDLSRILNDPSFENAAAMVSQKIHELPKTDGLV
PIFINANTGTFRTFSTISLGARGDSYYEYLLKQWLQIGKQPDHYLIEDYKEAIAGVIKNL
RKETPNEHHIYIGELISGKDFKPKMDHLTCYLPGTLLLGYKNGMPQSHFTLATELLETCY
QTYIKQPTGLAPEITYFNLEGESSTDIYVKANDAHNLQRPEFIESLYYFYAITGNKTYQD
MGWNIFQSFEKYTRVSHGYTSINNVRNAKDVRPKDMMETFWLGETLKYFYLLFSDDRNEI
DLDKFIFNTEAHLIPIREN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g2335.t1 | Gene3D | G3DSA:1.50.10.10 | - | 168 | 619 | 2.3E-180 |
| 18 | g2335.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 124 | 145 | - |
| 19 | g2335.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 124 | 161 | - |
| 20 | g2335.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 146 | 161 | - |
| 2 | g2335.t1 | PANTHER | PTHR11742 | MANNOSYL-OLIGOSACCHARIDE ALPHA-1,2-MANNOSIDASE-RELATED | 23 | 618 | 4.5E-207 |
| 3 | g2335.t1 | PANTHER | PTHR11742:SF55 | ENDOPLASMIC RETICULUM MANNOSYL-OLIGOSACCHARIDE 1,2-ALPHA-MANNOSIDASE | 23 | 618 | 4.5E-207 |
| 6 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 178 | 198 | 3.3E-63 |
| 5 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 210 | 224 | 3.3E-63 |
| 9 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 247 | 265 | 3.3E-63 |
| 10 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 286 | 305 | 3.3E-63 |
| 4 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 380 | 397 | 3.3E-63 |
| 7 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 444 | 460 | 3.3E-63 |
| 11 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 517 | 541 | 3.3E-63 |
| 8 | g2335.t1 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 579 | 599 | 3.3E-63 |
| 1 | g2335.t1 | Pfam | PF01532 | Glycosyl hydrolase family 47 | 178 | 615 | 5.8E-153 |
| 15 | g2335.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 35 | - |
| 16 | g2335.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 36 | 53 | - |
| 14 | g2335.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 54 | 619 | - |
| 12 | g2335.t1 | SUPERFAMILY | SSF48225 | Seven-hairpin glycosidases | 166 | 616 | 1.44E-157 |
| 17 | g2335.t1 | 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 transcript has been annotated with K23741 (endoplasmic reticulum Man9GlcNAc2 1,2-alpha-mannosidase)
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.
