General information for g4311.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-N-acetylgalactosaminidase.
Parent gene
- The parent gene g4311 is located on chr_2: 1143563..1145278 (+ 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 | g4311 | g4311.t1 | isoform | g4311.t1 | 1141930 | 1145278 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon1 | 1141930 | 1142078 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS1 | 1141930 | 1142078 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon2 | 1143563 | 1143737 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS2 | 1143563 | 1143737 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon3 | 1143795 | 1143968 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS3 | 1143795 | 1143968 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon4 | 1144026 | 1144121 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS4 | 1144026 | 1144121 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon5 | 1144228 | 1144392 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS5 | 1144228 | 1144392 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon6 | 1144639 | 1144801 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS6 | 1144639 | 1144801 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon7 | 1144867 | 1145057 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS7 | 1144867 | 1145057 |
| chr_2 | g4311 | g4311.t1 | exon | g4311.t1.exon8 | 1145117 | 1145278 |
| chr_2 | g4311 | g4311.t1 | cds | g4311.t1.CDS8 | 1145117 | 1145278 |
| chr_2 | g4311 | g4311.t1 | TTS | g4311.t1 | 1145645 | 1145645 |
| chr_2 | g4311 | g4311.t1 | TSS | g4311.t1 | NA | NA |
Sequences
>g4311.t1 Gene=g4311 Length=1275
ATGTCTGTGATATTACTTTTACTTGCTCTCTCATCAACCGTTATAGCACTTGATAATGGA
TTGGCACTTACACCACCTATGGGTTGGCTTAGTTGGGAAAGATTTCGTTGTAATACAGAT
TGTGAAGGTGATCCCGAAAATTGTATATCTGAAAATCTATTTCGTACAATGGCAGATTTG
GTTGTATCTGAAGGATATGCAGCAGTAGGATATGAATACATCAATGTGGATGATTGTTGG
TTAGAAAAAAATCGTGGTCCTCGTGGTGAACTCGTTGCTGATAGAAAAAGATTCCCAAGT
GGAATGCGTGCATTGGCAGATTATGTTCATGCGAAAGGTCTCAAATTTGGAATTTATGAG
GATTATGGCAATTATACTTGCGCTGGCTACCCAGGAATTCTCGGTTCATCACGACAAGAT
GCTGAACAGTTTGCCTCTTGGGAAGTGGATTATGTCAAATTAGATGGCTGTTATTCACTT
CCCACTGATATGGATGTTGGGTATCCCGAGTTTGGAAGACATTTAAATAGAACAGGTCGA
CCAATGGTGTACAGCTGTAGCTGGCCTGTGTATCAAATTTATGCTGGAATAAGTCCAAAT
TTCACTTCAATTATTGAGCATTGTAACTTGTGGAGAAACTTTGATGACATTCAAGATTCA
TGGGCATCGCTCGAGAGTATCATTGATTACTATGGTAACAATCAGGACTACATCATTCCA
AATGCTGGCCCAGGACATTTTAACGACGCCGACATGCTTGGCAACTTTGGTCTTAGTTAT
GAACAATCAAAAACTCAAATGGCATTGTGGGCAATTCTTGCTCAACCTTTGCTTATGTCA
GTAGATTTGAGAACAATAAGACCAGAATATAAAGCTATTTTGCAAAATAAGAAAATTATT
GCAGTCGATCAAGATCCGTTAGGAATTCAAGGGCGAAGAATCTACAAACATAAAGGAATT
GAAATTTGGTCACGACCCATCACTCCAATTTATCAAACTTATTACTCATATGCTGTTGCC
TTCGTTAATCGTCGCACTGACGGTACACCCAGCGATGTCGCTGTTACATTGCGTGAATTA
GGTTTGCAATCACCTACAGGCTATCGTGTTGAAGATTTGTATGAAGATGTTGATTATGGC
GTTTTGTCACCAAATACTAAGATAAAGGTCAAAGTTAATCCATCCGGTGTTGTGATTTTA
CGTGCTGATGTACAACCAGAGCGATTTTCAAAGCGTCCTCTTAATCCTTTTTATTACCGT
TATACGAAAAAATAA
>g4311.t1 Gene=g4311 Length=424
MSVILLLLALSSTVIALDNGLALTPPMGWLSWERFRCNTDCEGDPENCISENLFRTMADL
VVSEGYAAVGYEYINVDDCWLEKNRGPRGELVADRKRFPSGMRALADYVHAKGLKFGIYE
DYGNYTCAGYPGILGSSRQDAEQFASWEVDYVKLDGCYSLPTDMDVGYPEFGRHLNRTGR
PMVYSCSWPVYQIYAGISPNFTSIIEHCNLWRNFDDIQDSWASLESIIDYYGNNQDYIIP
NAGPGHFNDADMLGNFGLSYEQSKTQMALWAILAQPLLMSVDLRTIRPEYKAILQNKKII
AVDQDPLGIQGRRIYKHKGIEIWSRPITPIYQTYYSYAVAFVNRRTDGTPSDVAVTLREL
GLQSPTGYRVEDLYEDVDYGVLSPNTKIKVKVNPSGVVILRADVQPERFSKRPLNPFYYR
YTKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 22 | g4311.t1 | CDD | cd14792 | GH27 | 25 | 305 | 7.95646E-138 |
| 15 | g4311.t1 | Gene3D | G3DSA:3.20.20.70 | Aldolase class I | 17 | 307 | 8.2E-117 |
| 16 | g4311.t1 | Gene3D | G3DSA:2.60.40.1180 | - | 308 | 410 | 7.9E-32 |
| 3 | g4311.t1 | PANTHER | PTHR11452 | ALPHA-GALACTOSIDASE/ALPHA-N-ACETYLGALACTOSAMINIDASE | 5 | 401 | 3.4E-167 |
| 4 | g4311.t1 | PANTHER | PTHR11452:SF66 | ALPHA-GALACTOSIDASE | 5 | 401 | 3.4E-167 |
| 5 | g4311.t1 | PRINTS | PR00740 | Glycosyl hydrolase family 27 signature | 19 | 38 | 4.0E-46 |
| 6 | g4311.t1 | PRINTS | PR00740 | Glycosyl hydrolase family 27 signature | 65 | 80 | 4.0E-46 |
| 8 | g4311.t1 | PRINTS | PR00740 | Glycosyl hydrolase family 27 signature | 106 | 127 | 4.0E-46 |
| 7 | g4311.t1 | PRINTS | PR00740 | Glycosyl hydrolase family 27 signature | 140 | 157 | 4.0E-46 |
| 10 | g4311.t1 | PRINTS | PR00740 | Glycosyl hydrolase family 27 signature | 167 | 185 | 4.0E-46 |
| 9 | g4311.t1 | PRINTS | PR00740 | Glycosyl hydrolase family 27 signature | 261 | 282 | 4.0E-46 |
| 2 | g4311.t1 | Pfam | PF16499 | Alpha galactosidase A | 24 | 305 | 9.3E-137 |
| 1 | g4311.t1 | Pfam | PF17450 | Alpha galactosidase A C-terminal beta sandwich domain | 308 | 396 | 3.7E-16 |
| 18 | g4311.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 19 | g4311.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 20 | g4311.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 21 | g4311.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 16 | - |
| 17 | g4311.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 424 | - |
| 12 | g4311.t1 | SUPERFAMILY | SSF51445 | (Trans)glycosidases | 17 | 306 | 5.62E-87 |
| 11 | g4311.t1 | SUPERFAMILY | SSF51011 | Glycosyl hydrolase domain | 307 | 402 | 1.19E-23 |
| 14 | g4311.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
| 23 | g4311.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 16 | - |
| 13 | g4311.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 16 | - |
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:0004553 | hydrolase activity, hydrolyzing O-glycosyl compounds | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01204 (alpha-N-acetylgalactosaminidase)
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.
