Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative GPI mannosyltransferase 1.

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 g2353 g2353.t3 TSS g2353.t3 17110165 17110165
chr_3 g2353 g2353.t3 isoform g2353.t3 17111041 17112836
chr_3 g2353 g2353.t3 exon g2353.t3.exon1 17111041 17112438
chr_3 g2353 g2353.t3 cds g2353.t3.CDS1 17111041 17112426
chr_3 g2353 g2353.t3 exon g2353.t3.exon2 17112825 17112836
chr_3 g2353 g2353.t3 TTS g2353.t3 NA NA

Sequences

>g2353.t3 Gene=g2353 Length=1410
ATGCTATCGGGTTTAAAAAAGCATTTAATTATTTCGCTAATAGTCAGATTAATCCTCATA
ATTTATGGTGAAATTCAAGATAAAATATCAGAAGTACCTTATACTGATGTCGATTATCGT
GTTGTTACTGATGGTTCTATGCAAATCGCTCAAGGACATTCACCATTTAATCGACATACC
TATAGATATACACCACTTTTAGCAATATTCCTTCTTCCCAACATTTATCTTCACCCATGC
TTTGGAAAAATCCTTTTTGCAATATTTGATTTGGCAATTGCATTGATTATAAGGAAAATA
ATTATCGAAGAATATTATTCACTTCTCTTAAATCAATCAACATCAATTGAAGATAATAAA
GTAAAGTTTGAGAAGAAATTCAATGGAAATGGAAACAAGAACAAATTTAGGTTGTTTGGT
AGTAAAAAGGACATGAAATTGATTGGAACAAGCGATCGAATGAAGTTTGAAAGAATGGCC
AATTTTGCAGCATATGTGTGGCTTTATAATCCTTTGACAATGATTATTGCTACAAGAGGA
AATGGTGATGCTATCACATCAGCGCTAGTGCTTTTATCCATTTTTTATCTTCTTAAAATT
CAAGACAATGCCAGTGAAAAAGACAATGAAAGAAATGTCATAAAATCTGGCATATTTCAT
GGTCTTGCAATTCATTTACGTTTATATCCAATTTTCTTCAGTCTGGCTTACTACATGTAT
CTTTCTGATAACAAATATCAAATCAACAGCATTCAATCACTTCTGAATTGCTTCCTTAAA
CCAAACCGAAAACAAATTTTTCTCATCTTGACCGTATTGAAAGTGCTGATTTTTCTGACT
GGTGTATTCTATCTGCTATACGATTATAAATATCTTTATGAGTCAATCATTTATCATTTT
GTGAGAAAAGATACACGCCATAATTTTTCACTTTACTTCTATTTGCAATATCTAAATTCT
GGAGGAAAAGTGAATATTCTAGAGAAACTTCTGACTTTTATGCCTCAGATTGTACTCATA
ATTTTAATCAGTTTTCATTTCAGTCGAACTCGTCAAACTATTCAATTTGGCGTGTTTTTA
ATAGCCTTTATAATGGTCACATATAATCCAGTCATTACGAGTCAATACTTTGTTTGGTTT
TTATCCTTGTTTCCATTGACTGTAAATAATTTTAGAAGTCTATCATTCAAACAAATTATC
ATGCTGATTACACTTTGGTTTGCTGGTCAAGGAATGTGGCTTTTTTGTGCTTATTTTCTA
GAATTCAAAGGAATCAACAGTTTCGATTTTATCTGGCTTGCGAGTACTTTCTTTTTCATC
ATAAATATAGTCATTTTACAAATGTTGATTGAAAATTACGATGATTCGAGTATAAAATTG
AAATAGAAATAAAAATTTGTGAAATTTTTG

>g2353.t3 Gene=g2353 Length=461
MLSGLKKHLIISLIVRLILIIYGEIQDKISEVPYTDVDYRVVTDGSMQIAQGHSPFNRHT
YRYTPLLAIFLLPNIYLHPCFGKILFAIFDLAIALIIRKIIIEEYYSLLLNQSTSIEDNK
VKFEKKFNGNGNKNKFRLFGSKKDMKLIGTSDRMKFERMANFAAYVWLYNPLTMIIATRG
NGDAITSALVLLSIFYLLKIQDNASEKDNERNVIKSGIFHGLAIHLRLYPIFFSLAYYMY
LSDNKYQINSIQSLLNCFLKPNRKQIFLILTVLKVLIFLTGVFYLLYDYKYLYESIIYHF
VRKDTRHNFSLYFYLQYLNSGGKVNILEKLLTFMPQIVLIILISFHFSRTRQTIQFGVFL
IAFIMVTYNPVITSQYFVWFLSLFPLTVNNFRSLSFKQIIMLITLWFAGQGMWLFCAYFL
EFKGINSFDFIWLASTFFFIINIVILQMLIENYDDSSIKLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g2353.t3 Coils Coil Coil 453 461 -
2 g2353.t3 PANTHER PTHR12886 PIG-M MANNOSYLTRANSFERASE 6 457 9.7E-123
1 g2353.t3 Pfam PF05007 Mannosyltransferase (PIG-M) 176 450 2.4E-74
17 g2353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 8 -
29 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 9 25 -
20 g2353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 74 -
27 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -
16 g2353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 98 179 -
23 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 180 198 -
22 g2353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 199 217 -
25 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -
14 g2353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 241 265 -
30 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 266 287 -
21 g2353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 288 329 -
26 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 330 347 -
15 g2353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 348 358 -
28 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 359 379 -
19 g2353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 380 398 -
24 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 399 418 -
13 g2353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 419 429 -
31 g2353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 430 450 -
18 g2353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 451 461 -
11 g2353.t3 SignalP_EUK SignalP-noTM SignalP-noTM 1 23 -
6 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -
7 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 160 177 -
5 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 181 198 -
4 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -
10 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 265 287 -
3 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 357 379 -
8 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 399 421 -
9 g2353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 428 450 -

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:0004376 glycolipid mannosyltransferase activity MF
GO:0016021 integral component of membrane CC
GO:0051751 alpha-1,4-mannosyltransferase 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