General information for g5204.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ER degradation-enhancing alpha-mannosidase-like protein 3.
Parent gene
- The parent gene g5204 is located on chr_2: 7640557..7641534 (- 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_2 | g5204 | g5204.t5 | isoform | g5204.t5 | 7638276 | 7639487 |
| chr_2 | g5204 | g5204.t5 | exon | g5204.t5.exon1 | 7638276 | 7639487 |
| chr_2 | g5204 | g5204.t5 | cds | g5204.t5.CDS1 | 7638278 | 7639480 |
| chr_2 | g5204 | g5204.t5 | TSS | g5204.t5 | NA | NA |
| chr_2 | g5204 | g5204.t5 | TTS | g5204.t5 | NA | NA |
Sequences
>g5204.t5 Gene=g5204 Length=1212
TTTTTCTATGACTTTGGTAGATACACTCGATACATTAGTGATATTAGGAGATTTTGAAGA
ATTTGAGTCAGCTGTAAAGCTTGTGATTAAAAATGTTCAATTTGACAATGATATCATTGT
GTCTGTATTTGAGACAAATATCCGTATGCTTGGCGGCCTCTTGTCAGCTCACGTGCTTGC
CGAATATATTCAGAAAGAAGCTCACATAATGATGTGGTATCGAGGAGAATTACTCGAAAT
GGCAAAAGATCTTGGCTATCGATTGCTTCCTGCGTTCAATACATCCACTGGTATTCCACA
TGCACGAATCAATTTAAAATATGGAATGAAATCGGAAGCACTGAAACATTCACGTGAAAC
TTGTACAGCATGTGCTGGTACAATTCTTTTAGAGTTTGCTGCTCTTTCTCGTCTTAGTGG
TGAACCAATATTCGAAGCTAAAGCACATCAAGCTATGGACGCTTTATGGAAAATCAGAAA
TCGTTCTTCTAATTTGATGGGAACTGTAGTCAACGTTCATTCGGGTGATTGGATCAGACG
AGATTCTGGTGTTGGTGCAGGCATAGATTCTTACTACGAATATTGTTTAAAATCTTACAT
ATTACTTGGGGATGAACGATATTTATCGAGATTTAATCGTCATTATAATGCTGTCATGAA
ATACGTTAAACAAGGGCCTATGTTTCTAGATGTGCATATGCATCGACCACACACAAAGAG
TAAAAACTTTATGGACGCATTGCTTGCTTTTTGGCCTGGATTGCAAGTTTTAAGCGGTGA
CTTAAAACCAGCCGTACAAACACACGAAATGCTATATCAAGTAATGCAAATTCATAAATT
CATTCCTGAAGCTTTTACATACGATTTTCAAATTCACTGGGGTCAATATCATTTAAGACC
GGAATTTATTGAATCTACATACTTTTTGTACAAAGCAACTGGAGATCATTATTATTTACA
AGTGGGTAAGACAGCGCTCAAAACAATCCAAAAATATGCCAAAGTCCCTTGTGGATATGC
CGCAGTAAACGATATCAGAACTGGCAAACACGAAGACCGAATGGACTCATTCATGCTTTC
TGAAACAATCAAATACCTTTATCTTCTATTTGCTGAAGAAGAAGATCTTCCTTTAAATAT
TGATGACTTTATTTTTACTACAGAAGCACATTTACTTCCACTTAGTCTTGGAAAACTAAC
AAATAACACAGG
>g5204.t5 Gene=g5204 Length=401
MTLVDTLDTLVILGDFEEFESAVKLVIKNVQFDNDIIVSVFETNIRMLGGLLSAHVLAEY
IQKEAHIMMWYRGELLEMAKDLGYRLLPAFNTSTGIPHARINLKYGMKSEALKHSRETCT
ACAGTILLEFAALSRLSGEPIFEAKAHQAMDALWKIRNRSSNLMGTVVNVHSGDWIRRDS
GVGAGIDSYYEYCLKSYILLGDERYLSRFNRHYNAVMKYVKQGPMFLDVHMHRPHTKSKN
FMDALLAFWPGLQVLSGDLKPAVQTHEMLYQVMQIHKFIPEAFTYDFQIHWGQYHLRPEF
IESTYFLYKATGDHYYLQVGKTALKTIQKYAKVPCGYAAVNDIRTGKHEDRMDSFMLSET
IKYLYLLFAEEEDLPLNIDDFIFTTEAHLLPLSLGKLTNNT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g5204.t5 | Gene3D | G3DSA:1.50.10.10 | - | 1 | 400 | 0 |
| 2 | g5204.t5 | PANTHER | PTHR45679:SF2 | ER DEGRADATION-ENHANCING ALPHA-MANNOSIDASE-LIKE PROTEIN 3 | 1 | 400 | 0 |
| 3 | g5204.t5 | PANTHER | PTHR45679 | ER DEGRADATION-ENHANCING ALPHA-MANNOSIDASE-LIKE PROTEIN 2 | 1 | 400 | 0 |
| 9 | g5204.t5 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 37 | 55 | 0 |
| 7 | g5204.t5 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 88 | 107 | 0 |
| 6 | g5204.t5 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 183 | 200 | 0 |
| 8 | g5204.t5 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 241 | 257 | 0 |
| 5 | g5204.t5 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 295 | 319 | 0 |
| 4 | g5204.t5 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 354 | 374 | 0 |
| 1 | g5204.t5 | Pfam | PF01532 | Glycosyl hydrolase family 47 | 1 | 391 | 0 |
| 10 | g5204.t5 | SUPERFAMILY | SSF48225 | Seven-hairpin glycosidases | 2 | 392 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5204/g5204.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5204.t5.fa.iupred3.txt does not exist
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.
