Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g5318 g5318.t18 TSS g5318.t18 8706373 8706373
chr_2 g5318 g5318.t18 isoform g5318.t18 8706418 8707617
chr_2 g5318 g5318.t18 exon g5318.t18.exon1 8706418 8706478
chr_2 g5318 g5318.t18 cds g5318.t18.CDS1 8706418 8706478
chr_2 g5318 g5318.t18 exon g5318.t18.exon2 8706532 8706683
chr_2 g5318 g5318.t18 cds g5318.t18.CDS2 8706532 8706683
chr_2 g5318 g5318.t18 exon g5318.t18.exon3 8706747 8706965
chr_2 g5318 g5318.t18 cds g5318.t18.CDS3 8706747 8706965
chr_2 g5318 g5318.t18 exon g5318.t18.exon4 8707176 8707309
chr_2 g5318 g5318.t18 cds g5318.t18.CDS4 8707176 8707309
chr_2 g5318 g5318.t18 exon g5318.t18.exon5 8707384 8707617
chr_2 g5318 g5318.t18 cds g5318.t18.CDS5 8707384 8707405
chr_2 g5318 g5318.t18 TTS g5318.t18 8707663 8707663

Sequences

>g5318.t18 Gene=g5318 Length=800
ATGGAAACATCGAGTGTGAGTGCATTTAAGATTGCAGTTGACTTTGTGCTATTAGCAATA
CCTGGCCTCATTGCTTTAATTTTGAATCTCTTTGTGACTCCATTTCAACGAAATTTCTTC
TGTAATGATTTGTCAATTATGTATCCATATAAACCTGATACAATCACTACATTGCAACTT
GCTCTTGTTGGTGTAATTGTGAGCGTCGTATTTGTATTTATCGTGGAATTAATTCATAAG
TTTAATAATTCATATAAATATGATGATGACGATGATAAAGAGAGCAAAATTCTGTATAAA
TGGAACATTTCACCATTCATTCAGAATTTATATCAGTATATTGGCCTCCTGTTGTTTGGA
ATATCAATCAATCAGTTTATAACTGATGGCACAAAATTTGTTGTTGGACGTTTAAGACCA
CACTTTATGGATATAACTGGAACACTTACATCTCTGACTACACTTGCACTAATCAGGATG
TTAGTGATTGGACTCTCACAAATGCTCGAATTTCATTTCCTTCTGGTCATGCGAGTTTCT
CATTCTATTGTTCATTTTTCTGTGCATTTTATATTCAATCGCGAATGAAATTTGGAGGGT
CAAAGCTTTTGAAACATTTTATTCAATTAGTGTTTGTCACAGCTGCTCTTTATACTGGCT
TATCACGAATTACGGACTATAAGCATCATCCAACTGACGTAATAGCTGGCAGTATTTTAG
GAATTCTTATTGCATTTGTTGTTTGCTTTTATTTTTCTGATTTATTTAAGAGAAAAATTA
ATAATGTCTTACCGAGATGA

>g5318.t18 Gene=g5318 Length=195
METSSVSAFKIAVDFVLLAIPGLIALILNLFVTPFQRNFFCNDLSIMYPYKPDTITTLQL
ALVGVIVSVVFVFIVELIHKFNNSYKYDDDDDKESKILYKWNISPFIQNLYQYIGLLLFG
ISINQFITDGTKFVVGRLRPHFMDITGTLTSLTTLALIRMLVIGLSQMLEFHFLLVMRVS
HSIVHFSVHFIFNRE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g5318.t18 PANTHER PTHR10165 LIPID PHOSPHATE PHOSPHATASE 9 145 1.4E-25
2 g5318.t18 PANTHER PTHR10165:SF173 FI04477P-RELATED 9 145 1.4E-25
7 g5318.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
16 g5318.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
10 g5318.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 36 54 -
15 g5318.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 55 78 -
8 g5318.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 79 109 -
17 g5318.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 110 127 -
11 g5318.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 128 146 -
13 g5318.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 147 166 -
9 g5318.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 167 172 -
14 g5318.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 173 192 -
12 g5318.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 193 195 -
4 g5318.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
3 g5318.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 55 77 -
5 g5318.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 106 128 -
6 g5318.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 143 165 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5318/g5318.t18; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5318.t18.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0042577 lipid phosphatase activity MF
GO:0006644 phospholipid metabolic process BP

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. There were no conditions that were differentially expressed