Gene loci information

Transcript annotation

  • This transcript has been annotated as Alpha-1,2-mannosyltransferase ALG9.

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 g2419 g2419.t3 TSS g2419.t3 17870683 17870683
chr_3 g2419 g2419.t3 isoform g2419.t3 17870749 17872812
chr_3 g2419 g2419.t3 exon g2419.t3.exon1 17870749 17870814
chr_3 g2419 g2419.t3 exon g2419.t3.exon2 17870945 17871123
chr_3 g2419 g2419.t3 exon g2419.t3.exon3 17871179 17871359
chr_3 g2419 g2419.t3 cds g2419.t3.CDS1 17871289 17871359
chr_3 g2419 g2419.t3 exon g2419.t3.exon4 17871420 17872812
chr_3 g2419 g2419.t3 cds g2419.t3.CDS2 17871420 17872812
chr_3 g2419 g2419.t3 TTS g2419.t3 17872905 17872905

Sequences

>g2419.t3 Gene=g2419 Length=1819
ATGAAAAGAAAGGAGTCATTAAAGTTGGGAAAATCAGGAACATCTTCGAGTTTTCGTCGT
CGGTGAAAGTTCCTCTTATCCAAATGCTGCCGTGAGTGTTCGTCCTCCACTATTTCCAAC
GCTTCAAATTGCTTTTAAAGCTCTACTTTCAGCAAGAATTTGTGCCGCAATTTGGAGCTC
AATAAGTGATTGTGATGAAACTTATAATTATTGGGAAGAATTGCATTATTTATTATACAA
TAAAGGTCTTCAAACGTGGGAATATAGTCCTCAATTTGCTCTCAGATCATACACGTATCT
TCTTGTTCATGGCGTGCCAGCATATATATACAAGGAAATTTTCGATCCCAATCCAATGCT
TTTATTTTATTTTATAAGACTGTTACTTGGCATAAGTTGTGCTGTCGCAGAAGTTTATTT
CTACAAAGGAATTTGTCGTGAATTTGGCGTGCATATTGGAAGGTCATGGTTGGTCTTTCA
ACTGTTCAGTGCGGGAATGTTTATTTCTTCTGCCGCATTATTGCCAAGCTCATTTTCTAT
GTACTTTACGATGGCAGCACTTGCAGCATGGTGGCATCAACAATATAAATTAGCAATATT
TTTTACTGCCATATCAGTGCTACTCGGATGGCCATTCGTTGGATTAATTTCGTTACCAAT
ACTTTACGATATCATTATAAGACGAAAAAAAATTAGGACATTTATTTTTTGGTCAATAAT
TTCTGGTGTAACAGTTTTATTGCCAATGATAATTTTGGATTCTTCATATTATGGAAGAAA
TGTTATTGCTCCATTGAATATTGTTTTCTATAATATTTTTAAGAAAGATGGAGGACCGAA
TTTATATGGAACTGAGCCTTTTTCATATTACATATTTAACGGATTTTTGAATTTCAACAT
TATTTGGTTGCTATCACTCATGACACCTGTTGCTCTTGTAATTGCACATTTTTTAGTTCC
ATCAAAAAGCAAGCAATCAACTCTCTCATTGCCATATTATGTGAGTCTCAGTCCTTACTA
TTTATGGCTTGCAGTAATGATGGCTCAACCTCACAAAGAAGAACGTTTTCTATTTCCTGT
CTATCCACTCGTCAGCTTATGTGGAGCAATTACAATAGATGTGTGCCAAAAATTATTTTT
CCGCATCAAAAGTGCAATTGTCAAGTTTACAACAGCAACACACTACTTAAATCATACAAC
ATTTATAACAGTGATTTTTGTCATTTTATCTGTGACATTGAATTTATCGAGAATTTTGGC
ATTATATCAAAACTATCATGCACCTATGGATGTATTTATGGAATTAAGCACTGCACGAGA
AGATTTAGAAGATCCACATTCACAAAAAATGGATGTATGCATAGGGAAGGATTGGTATCG
ATATCCATCAAGTTTCTTTTTACCGTCAACAAAATATTCAATTCGATTTTTAAAATCAGA
ATTTCGAGGCATGTTACCAGCTTATTATAGTGATGAAGAGAATGCAACACAAATTATTCA
CAATTACTTTAATGACATGAACCGCGAAAATGCTTTCATGTATTTCGATTATAACGACTG
CGATTTACTAGTTGATTTAGATCTCAAAACAAAGAAGCATTCGCCACTCGAACCAAACTA
TTCGTCCAGAACTGATGAATGGAATGTCGTCAAGGAAGTTCCGTTTCTTAATGCACAAGC
TTCGCACCCAATTTATCGCGCATTCTACATACCATTCGTTTCATATAAACATATAAAATA
CGGAAGTTTTAACCTATTACAGAAAATCAAAGATTCTAGTGAAACAGTTGAATCTGATGT
TGTTGAGACAAATAATTAA

>g2419.t3 Gene=g2419 Length=487
MLLFYFIRLLLGISCAVAEVYFYKGICREFGVHIGRSWLVFQLFSAGMFISSAALLPSSF
SMYFTMAALAAWWHQQYKLAIFFTAISVLLGWPFVGLISLPILYDIIIRRKKIRTFIFWS
IISGVTVLLPMIILDSSYYGRNVIAPLNIVFYNIFKKDGGPNLYGTEPFSYYIFNGFLNF
NIIWLLSLMTPVALVIAHFLVPSKSKQSTLSLPYYVSLSPYYLWLAVMMAQPHKEERFLF
PVYPLVSLCGAITIDVCQKLFFRIKSAIVKFTTATHYLNHTTFITVIFVILSVTLNLSRI
LALYQNYHAPMDVFMELSTAREDLEDPHSQKMDVCIGKDWYRYPSSFFLPSTKYSIRFLK
SEFRGMLPAYYSDEENATQIIHNYFNDMNRENAFMYFDYNDCDLLVDLDLKTKKHSPLEP
NYSSRTDEWNVVKEVPFLNAQASHPIYRAFYIPFVSYKHIKYGSFNLLQKIKDSSETVES
DVVETNN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g2419.t3 PANTHER PTHR22760:SF2 ALPHA-1,2-MANNOSYLTRANSFERASE ALG9 2 470 7.2E-143
3 g2419.t3 PANTHER PTHR22760 GLYCOSYLTRANSFERASE 2 470 7.2E-143
1 g2419.t3 Pfam PF03901 Alg9-like mannosyltransferase family 2 350 2.4E-72
17 g2419.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
25 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 26 -
16 g2419.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 27 37 -
27 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 38 60 -
18 g2419.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 61 79 -
23 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 80 104 -
15 g2419.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 105 115 -
24 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 116 134 -
19 g2419.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 135 181 -
28 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 182 200 -
13 g2419.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 201 211 -
29 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 212 230 -
21 g2419.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 231 241 -
22 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 242 262 -
14 g2419.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 263 282 -
26 g2419.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 283 304 -
20 g2419.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 305 487 -
12 g2419.t3 SignalP_EUK SignalP-TM SignalP-TM 1 18 -
6 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 26 -
9 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 38 60 -
5 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 80 102 -
11 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 115 134 -
10 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 182 201 -
8 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 208 230 -
7 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 240 262 -
4 g2419.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 283 305 -

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:0016757 glycosyltransferase activity MF
GO:0000030 mannosyltransferase activity MF

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