General information for g5204.t6
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.t6 | isoform | g5204.t6 | 7638276 | 7641534 |
| chr_2 | g5204 | g5204.t6 | exon | g5204.t6.exon1 | 7638276 | 7639487 |
| chr_2 | g5204 | g5204.t6 | cds | g5204.t6.CDS1 | 7638278 | 7639487 |
| chr_2 | g5204 | g5204.t6 | exon | g5204.t6.exon2 | 7641061 | 7641534 |
| chr_2 | g5204 | g5204.t6 | cds | g5204.t6.CDS2 | 7641061 | 7641164 |
| chr_2 | g5204 | g5204.t6 | TSS | g5204.t6 | 7641630 | 7641630 |
| chr_2 | g5204 | g5204.t6 | TTS | g5204.t6 | NA | NA |
Sequences
>g5204.t6 Gene=g5204 Length=1686
ATGAATTTCGTGCATAAGAATGATGCACGGGTGCATCAGATCATAAGTTTAGTGGTAGTT
TTAGTATTTTTTATTAATTTAGTAAATTCACAAAATTTAAACAATATTTTATCTACGAAG
GAAAAAAATGAGCTCAAGTGAGTATTATTCGAATTTATCCTTGATATTTTGCAACTCACG
AACGATATAAACATTTCTTATCATAATATTTTACTTCTTTTATCTCTTTTTAGGGAAGAG
GTATGCAAAATTGGTATTTCCTACATTCATGCAAAAAATTAATATGGATCAAATTCATTT
ATTTTATTGACATTAATGTTTATTATTAATTTAGGCTCGGGAAATGTTCTATCATGCTTA
TAGAGCATATATGGATAATGCTTTTCCTGCGGACGAACTGCAGCCACTTTCTTGTAAAGG
AAGAATTCGTGGTATTTCGAAATCGAGAGGGGATTTGGATGATACATTAGGAAATTTTTC
TATGACTTTGGTAGATACACTCGATACATTAGTGATATTAGGAGATTTTGAAGAATTTGA
GTCAGCTGTAAAGCTTGTGATTAAAAATGTTCAATTTGACAATGATATCATTGTGTCTGT
ATTTGAGACAAATATCCGTATGCTTGGCGGCCTCTTGTCAGCTCACGTGCTTGCCGAATA
TATTCAGAAAGAAGCTCACATAATGATGTGGTATCGAGGAGAATTACTCGAAATGGCAAA
AGATCTTGGCTATCGATTGCTTCCTGCGTTCAATACATCCACTGGTATTCCACATGCACG
AATCAATTTAAAATATGGAATGAAATCGGAAGCACTGAAACATTCACGTGAAACTTGTAC
AGCATGTGCTGGTACAATTCTTTTAGAGTTTGCTGCTCTTTCTCGTCTTAGTGGTGAACC
AATATTCGAAGCTAAAGCACATCAAGCTATGGACGCTTTATGGAAAATCAGAAATCGTTC
TTCTAATTTGATGGGAACTGTAGTCAACGTTCATTCGGGTGATTGGATCAGACGAGATTC
TGGTGTTGGTGCAGGCATAGATTCTTACTACGAATATTGTTTAAAATCTTACATATTACT
TGGGGATGAACGATATTTATCGAGATTTAATCGTCATTATAATGCTGTCATGAAATACGT
TAAACAAGGGCCTATGTTTCTAGATGTGCATATGCATCGACCACACACAAAGAGTAAAAA
CTTTATGGACGCATTGCTTGCTTTTTGGCCTGGATTGCAAGTTTTAAGCGGTGACTTAAA
ACCAGCCGTACAAACACACGAAATGCTATATCAAGTAATGCAAATTCATAAATTCATTCC
TGAAGCTTTTACATACGATTTTCAAATTCACTGGGGTCAATATCATTTAAGACCGGAATT
TATTGAATCTACATACTTTTTGTACAAAGCAACTGGAGATCATTATTATTTACAAGTGGG
TAAGACAGCGCTCAAAACAATCCAAAAATATGCCAAAGTCCCTTGTGGATATGCCGCAGT
AAACGATATCAGAACTGGCAAACACGAAGACCGAATGGACTCATTCATGCTTTCTGAAAC
AATCAAATACCTTTATCTTCTATTTGCTGAAGAAGAAGATCTTCCTTTAAATATTGATGA
CTTTATTTTTACTACAGAAGCACATTTACTTCCACTTAGTCTTGGAAAACTAACAAATAA
CACAGG
>g5204.t6 Gene=g5204 Length=438
MDNAFPADELQPLSCKGRIRGISKSRGDLDDTLGNFSMTLVDTLDTLVILGDFEEFESAV
KLVIKNVQFDNDIIVSVFETNIRMLGGLLSAHVLAEYIQKEAHIMMWYRGELLEMAKDLG
YRLLPAFNTSTGIPHARINLKYGMKSEALKHSRETCTACAGTILLEFAALSRLSGEPIFE
AKAHQAMDALWKIRNRSSNLMGTVVNVHSGDWIRRDSGVGAGIDSYYEYCLKSYILLGDE
RYLSRFNRHYNAVMKYVKQGPMFLDVHMHRPHTKSKNFMDALLAFWPGLQVLSGDLKPAV
QTHEMLYQVMQIHKFIPEAFTYDFQIHWGQYHLRPEFIESTYFLYKATGDHYYLQVGKTA
LKTIQKYAKVPCGYAAVNDIRTGKHEDRMDSFMLSETIKYLYLLFAEEEDLPLNIDDFIF
TTEAHLLPLSLGKLTNNT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5204.t6 | Gene3D | G3DSA:1.50.10.10 | - | 1 | 437 | 0 |
| 2 | g5204.t6 | PANTHER | PTHR45679:SF2 | ER DEGRADATION-ENHANCING ALPHA-MANNOSIDASE-LIKE PROTEIN 3 | 1 | 437 | 0 |
| 3 | g5204.t6 | PANTHER | PTHR45679 | ER DEGRADATION-ENHANCING ALPHA-MANNOSIDASE-LIKE PROTEIN 2 | 1 | 437 | 0 |
| 5 | g5204.t6 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 37 | 51 | 0 |
| 6 | g5204.t6 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 74 | 92 | 0 |
| 9 | g5204.t6 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 125 | 144 | 0 |
| 10 | g5204.t6 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 220 | 237 | 0 |
| 7 | g5204.t6 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 278 | 294 | 0 |
| 4 | g5204.t6 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 332 | 356 | 0 |
| 8 | g5204.t6 | PRINTS | PR00747 | Glycosyl hydrolase family 47 signature | 391 | 411 | 0 |
| 1 | g5204.t6 | Pfam | PF01532 | Glycosyl hydrolase family 47 | 2 | 428 | 0 |
| 11 | g5204.t6 | SUPERFAMILY | SSF48225 | Seven-hairpin glycosidases | 1 | 429 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5204/g5204.t6; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5204.t6.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.
