Gene loci information

Transcript annotation

  • This transcript has been annotated as GPI mannosyltransferase 3.

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_1 g11859 g11859.t5 isoform g11859.t5 18795625 18797861
chr_1 g11859 g11859.t5 exon g11859.t5.exon1 18795625 18797216
chr_1 g11859 g11859.t5 cds g11859.t5.CDS1 18796120 18797216
chr_1 g11859 g11859.t5 exon g11859.t5.exon2 18797269 18797861
chr_1 g11859 g11859.t5 cds g11859.t5.CDS2 18797269 18797779
chr_1 g11859 g11859.t5 TSS g11859.t5 18797889 18797889
chr_1 g11859 g11859.t5 TTS g11859.t5 NA NA

Sequences

>g11859.t5 Gene=g11859 Length=2185
ATGTCAACAATTTTTGTGATTTTTCTATTATTATTTGTAAGAATCGCGTCAGTTTTTCTC
GTACAAACTTTCTTTAGTCCTGATGAATATTGGCAAAGTGTGGAAGTTAGTCATCGTATG
GTCTTCAAGTAAGTGTTTGCAAAAATTTTGTGAATTTGTTTCGCGCGAATTTTGCGGTTT
TATTGTTTACATTCACTTCCATAAAAAGAAATTAGTAAAAAAATTTCAAACATGTGACAT
TTTATACTGTTTATTTATTTTTAATAGTTATGGACATCTTACATGGGAATGGATTCAAGG
AATTCGAAGTTATTTTTACCCGACGCTCTTTGCAGCCATTTACAAAGTTCTTGATATTTT
AAAAATAGACTCACGCGTCTTTTTGATTCTCCTACCGAGAATATTTCAAGCTCTCATCTC
AACCTACGCAGATTATCGTTTCTATAACTGGTGTAACCGCAAAAAATGGTCACTTTTTAT
CATCATTACTAGCTGGTTTTGGTTTTATACTGCAAGCAGAACTTTGATAAATTCATTTGA
AGCTTCTCTTACAACAATCGCTTTAAGTTTCTTTCCTTGGAACAAATTTGATGAAAATAC
TGGATTTTTGTGGATCACTGCTTTATTGTCATTTATTCGACCAACATCGATTGTCACATG
GTTACCTTTATGTATTTATCACGTAAAAAAATCAAAATATCCAGTTTGGGAATTGTTGAT
TAAACGCTATTTGTTTATTGGACTTGTAACTGGAGGAGCATTAATTGCACTAGATTCTTT
CTTCCATGGATCATTCATAGTTACACCATATGAGTTCATTAAAATCAACGTTTTTGAAGG
AATAGCTAGTTTTTATGGTACTCATCCATTTTACTGGTATTTTAGCACAGGACTGCCTGC
TATTCTTGGTATTGGAATAGTTCCATTCTATTTATCAATTTTTACAACAATCAAACGATC
ATGGGATCAATCGACAATTGCAATTATGACTTCAATTATATTGACCATTTTCATGTACTC
TCTACTGCCACACAAAGAATTTAGATTTTTGCTTCAAATACTGCCACTTTGTCTTTACTG
TATTACACAATTCCTGTCAGAATGGAGTAGAACAAAGTCATCACTCGTCATTTGGTTTGT
AGCTATAGTCATTTTTATAAGCAATGCAGTGCCAGCTGGATATCTCGGTTTCGTTCATCA
ACAAGGAACAATAAAAGTTATGGATCAAGTTTCTTCAATTGCAAACAACTATAAAACACA
AGACGGACATCCAGCAAAAATATTTTTCATGATGCCATGTCATTCAACGCCTTTTTATTC
ACACGTCCATAAAAACATTACAATGAGATTCCTCACTTGTGAGCCTAATCTTAACAATCA
GTTGAATTATGTAGATGAAGCTGATAAATTTTATGAAGCTCCAATGAAATGGATTCGAAG
TCATTTACCGGTACATCCAGTGAATGCATTGCCAACTCACGTTGTGGTATTCGACACTCT
AGTACCAATGATCAGTGATTTTCTTTCACTCTATAAACCAATCGAAATTTTCTTCCATGC
TGATCATCTCGTCTCACAACGTGCAGGACATAACGTTTTAATTTATGAGCGTAATGAACA
AGAAGTCAAGAAAAAGGAAGAGGAGAAAGTTATTAAGCAAAAAGATCAAAAAGTTCCGGA
TGAGCTTTAAAAGATGATGACTTAATTATTTTCGCGTAACAGTGTGTCTTGATTAGCAAT
ATATTTTCAATCTCTAATTGCTATCATTTAAAAACCATAAACACATACATACAGGTAAAA
TAAATAAAATTAAGAAAAAAAAACACAAAGAATCAATTTGACGAAAAAAAATGTTGCAAT
ACGAAAAATTAGTGAATTTTTATGCCCTTTCTAGCTAATTGAAATTTCATATTTTGCTTA
AATTTTAAATTGAAAAAAATATTTTAAATTTTAATATTTTATTTTTTGATCCTTAAATCA
TAAAATCATTTATTTGAAAATGTAGTAAAAAAACTTTAGTTTATTTGACAAGAAATAAAA
AGAAACGATTTAATTATAAGAAAGATTTATAACCATGTCATGCCATCTTATTCACAGTCA
TTCACAAATTATCAAATTTATTTTTTTCCAGATGTAAGTCTTCAATCTGATTTATTATAG
CATCATTTTATTCGATCTACACAGT

>g11859.t5 Gene=g11859 Length=535
MNIGKVWKLVIVWSSSKCLQKFCEFVSREFCGFIVYIHFHKKKLVKKFQTCDILYCLFIF
NSYGHLTWEWIQGIRSYFYPTLFAAIYKVLDILKIDSRVFLILLPRIFQALISTYADYRF
YNWCNRKKWSLFIIITSWFWFYTASRTLINSFEASLTTIALSFFPWNKFDENTGFLWITA
LLSFIRPTSIVTWLPLCIYHVKKSKYPVWELLIKRYLFIGLVTGGALIALDSFFHGSFIV
TPYEFIKINVFEGIASFYGTHPFYWYFSTGLPAILGIGIVPFYLSIFTTIKRSWDQSTIA
IMTSIILTIFMYSLLPHKEFRFLLQILPLCLYCITQFLSEWSRTKSSLVIWFVAIVIFIS
NAVPAGYLGFVHQQGTIKVMDQVSSIANNYKTQDGHPAKIFFMMPCHSTPFYSHVHKNIT
MRFLTCEPNLNNQLNYVDEADKFYEAPMKWIRSHLPVHPVNALPTHVVVFDTLVPMISDF
LSLYKPIEIFFHADHLVSQRAGHNVLIYERNEQEVKKKEEEKVIKQKDQKVPDEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g11859.t5 Coils Coil Coil 508 530 -
2 g11859.t5 PANTHER PTHR22760 GLYCOSYLTRANSFERASE 62 509 1.5E-110
3 g11859.t5 PANTHER PTHR22760:SF4 GPI MANNOSYLTRANSFERASE 3 62 509 1.5E-110
1 g11859.t5 Pfam PF03901 Alg9-like mannosyltransferase family 48 416 3.0E-89
11 g11859.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 128 -
23 g11859.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 129 149 -
15 g11859.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 150 173 -
22 g11859.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 174 196 -
14 g11859.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 197 215 -
21 g11859.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 216 243 -
18 g11859.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 244 262 -
25 g11859.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 263 286 -
13 g11859.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 287 297 -
24 g11859.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 298 316 -
17 g11859.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 317 321 -
20 g11859.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 322 341 -
12 g11859.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 342 347 -
19 g11859.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 348 370 -
16 g11859.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 371 535 -
9 g11859.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 129 148 -
5 g11859.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 174 196 -
7 g11859.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 217 239 -
8 g11859.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 264 286 -
6 g11859.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 298 315 -
4 g11859.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 349 371 -

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:0006506 GPI anchor biosynthetic process BP
GO:0000026 alpha-1,2-mannosyltransferase activity MF
GO:0004376 glycolipid mannosyltransferase activity MF
GO:0016757 glycosyltransferase activity MF

KEGG

Orthology

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.

Raw TPM values