Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative GPI-anchored wall transfer protein 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_2 g5051 g5051.t9 TTS g5051.t9 6618905 6618905
chr_2 g5051 g5051.t9 isoform g5051.t9 6619171 6620880
chr_2 g5051 g5051.t9 exon g5051.t9.exon1 6619171 6620147
chr_2 g5051 g5051.t9 cds g5051.t9.CDS1 6619177 6620142
chr_2 g5051 g5051.t9 exon g5051.t9.exon2 6620338 6620880
chr_2 g5051 g5051.t9 TSS g5051.t9 6621056 6621056

Sequences

>g5051.t9 Gene=g5051 Length=1520
ATGTTGCCATCAGAATACAAAATTTTTCATGAAAGTTTTATGAAAAACAATAATGGAACG
ACTGCAATAGATAGCTTTCTATACATTATTCCATCTAGTTTTGCTATATTTCATACGATT
ACATTGACATCAGTACTTAGACTTAACAGTAATAGCAACGTTCCAGCAAGATTTTTAGTC
GAGTTTTTAACAATTTGCCTGAGTTTAGTCCTCTACACAACAATATTTAGTGATGCAATT
AGTCACATTTGTATCACACTTATCCTTATCACAATCACTTCAATCATTCGGCAATTACAT
GGAAAGTGCCACCTCACACCTTTCGTTCAAATTCCCGCGATTCTTCCAGATTTTATAACA
GGTAACTAATCAATTAGAACATTTAACACCATCATCATTAACAACATCGCAATATTTTTT
TTATTCGATTCTTTTTCATAGTTGGACGATCAATAATCAGTCTCATCACTGCCGTTTGCA
TTCTCGCTGTAGATTTTCAATGTTTTCCAAGAAAACTTGCAAAAACAGAAAAATTTGGCT
TTGGACTGATGGATGTAGGAGTAGGTCTATTCGTATTTTCGAATGGGATTGTTGTGAAGC
ATTCAGCAGCTGCATTTTCAAAAAAGAAATTTCAAAAACTTCTTGTTTCATGTCTACCAC
TCTTTATTCTCGGCTTTTCAAGGCTGGTCCTTACAAAAGAAATCAATTATCAAGAGCATG
TCACTGAATATGGAGTACATTGGAATTTTTTCATCACACTTGCAGTGACAAAAATCTTTG
GAACAGTATTGGAAGGTTTTATGAAAACAGCCGAACATATAAAGTATTCTGCACTAATGT
TACTTATGTTTCACGAAACTTGTTTACAATTGGGCTTATCAAATTATATAATGGATGATA
ATGTAGCACGCAATAATTTAATAGCTGCAAATCGTGAAGGAATTTTCTCGACAACTGGTT
ATGTTTCACTTTATTTGGCGTCAATATATATTGGCACGCTATTGAAATCAGATGGACAAG
AGCTGTTGAAAGTGCGAGAAGTTTTTCATAAAGCTGTAAAATTGGGACTGACTTCAGCTT
TTTGCTGGAAAATGATTTATGTGTGTAATGGAATGTTTGGAGTGTCAAGACGAAGTGCAA
ATATGGGTTATAATTTCTGGGTCCTTGCAGTCGGAACATCTATGATGTTTTTGTTTATGT
TAATAGAAATGTTTATATATTATATAAATTTTAATCGACCACAATGGCAACAAGTGGAAC
CAAACACAAAAGCGCAATTGAATGAGCCAGAATTTCATGTTCCTTATGTTCCGCTTATTT
TACAAGCAATCAACTATAATGGACTTGCATTTTTCCTCATCGCCAATCTATTTACGGGAA
TTGTGAATGTTTGCTTTCAAACGATGCTTTTAAGCACATCAGCAAGCATTCTCATCATCA
CTTATTATACATTCTTGCTAAATGTTATTATGGTATTTTTATTCGTTAACAAGTTCAAAC
TGAAAATATGGTAAGAAAAA

>g5051.t9 Gene=g5051 Length=321
MDVGVGLFVFSNGIVVKHSAAAFSKKKFQKLLVSCLPLFILGFSRLVLTKEINYQEHVTE
YGVHWNFFITLAVTKIFGTVLEGFMKTAEHIKYSALMLLMFHETCLQLGLSNYIMDDNVA
RNNLIAANREGIFSTTGYVSLYLASIYIGTLLKSDGQELLKVREVFHKAVKLGLTSAFCW
KMIYVCNGMFGVSRRSANMGYNFWVLAVGTSMMFLFMLIEMFIYYINFNRPQWQQVEPNT
KAQLNEPEFHVPYVPLILQAINYNGLAFFLIANLFTGIVNVCFQTMLLSTSASILIITYY
TFLLNVIMVFLFVNKFKLKIW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g5051.t9 PANTHER PTHR20661 PHOSPHATIDYLINOSITOL-GLYCAN BIOSYNTHESIS CLASS W PROTEIN 1 319 2.3E-77
1 g5051.t9 Pfam PF06423 GWT1 127 280 5.7E-34
12 g5051.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 30 -
24 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 31 48 -
17 g5051.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 49 62 -
23 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 63 81 -
14 g5051.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 82 92 -
21 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 93 115 -
18 g5051.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 116 134 -
22 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 135 152 -
13 g5051.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 153 171 -
27 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 172 191 -
16 g5051.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 192 202 -
25 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 203 226 -
11 g5051.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 227 265 -
20 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 266 286 -
19 g5051.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 287 291 -
26 g5051.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 292 313 -
15 g5051.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 314 321 -
9 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 31 48 -
7 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 81 -
3 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 93 115 -
6 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 130 152 -
5 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 172 194 -
4 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 204 226 -
10 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 266 288 -
8 g5051.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 292 314 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5051/g5051.t9; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5051.t9.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0006506 GPI anchor biosynthetic process BP
GO:0016746 acyltransferase activity MF
GO:0016021 integral component of membrane CC

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