Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Dolichyldiphosphatase 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 g4006 g4006.t9 TSS g4006.t9 29485664 29485664
chr_3 g4006 g4006.t9 isoform g4006.t9 29485745 29486709
chr_3 g4006 g4006.t9 exon g4006.t9.exon1 29485745 29486007
chr_3 g4006 g4006.t9 cds g4006.t9.CDS1 29485927 29486007
chr_3 g4006 g4006.t9 exon g4006.t9.exon2 29486117 29486295
chr_3 g4006 g4006.t9 cds g4006.t9.CDS2 29486117 29486295
chr_3 g4006 g4006.t9 exon g4006.t9.exon3 29486364 29486709
chr_3 g4006 g4006.t9 cds g4006.t9.CDS3 29486364 29486709
chr_3 g4006 g4006.t9 TTS g4006.t9 29486901 29486901

Sequences

>g4006.t9 Gene=g4006 Length=788
ATGAACGAATATGTGTATAATGAATCAGAATGGAAGTCTCTTTCATTGACCTTAGTAGAA
TATCCTAGGAGTAAGTGTATTTAAATTAATTTATGTTTGCATAATTATACACATTGACAA
CACAAATCTCATTTGACCTAACATTTCAACTTTTATTTATAGATGATGTTTTTGGTAAAT
TTATGGCAATTTTAGCGCTCGCTCCATTGTATATTATTGCAACCTTTTCTACAATATCAC
TTAGATGTCGAGATTTGCATACGATTTTCTACTTTATTGGAATTCTACTCAATGAAGCTT
TAAACATGACTCTCAAATATTTGATAAAAGAACCTCGTCCAGCTGTACGAGACAACTATT
ACGTTCAATTTGGAATGCCATCATCGCACAGTCAATTTATGTTATTTTTTACAACATATA
GTATACTATTTTTATTTAAAAGATTACATCAGAATTCGCTAGTGGAAAGAATCTTTAGAG
GTATTATTGTTATTTTGATGATAATTGTAACAGCACTTATCTGTTATGGACGACTTTATT
TAATGTATCATACATTAAGTCAAGTTATAGTTGGTGCAATTATTGGTTTTATGACTGCCC
TTATTTGGTTTGTTTTTGTACACTCAATATTGACCCCATACGTCTTCCCGAAAATTGTTT
CGTGGAGAATCTCAGAAATTTTACTCATTCGTGATACCTCTCTTATTCCGAATATAGTCT
TTTTCGAATACACGGCAACTCGTCAAGAAAGTCGAGCAAGACTAAGAAAAAATATGAAAA
TGCAATAG

>g4006.t9 Gene=g4006 Length=201
MAILALAPLYIIATFSTISLRCRDLHTIFYFIGILLNEALNMTLKYLIKEPRPAVRDNYY
VQFGMPSSHSQFMLFFTTYSILFLFKRLHQNSLVERIFRGIIVILMIIVTALICYGRLYL
MYHTLSQVIVGAIIGFMTALIWFVFVHSILTPYVFPKIVSWRISEILLIRDTSLIPNIVF
FEYTATRQESRARLRKNMKMQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g4006.t9 CDD cd03382 PAP2_dolichyldiphosphatase 1 143 1.1166E-41
5 g4006.t9 Gene3D G3DSA:1.20.144.10 - 54 161 6.3E-18
2 g4006.t9 PANTHER PTHR11247:SF1 DOLICHYLDIPHOSPHATASE 1 1 192 4.9E-47
3 g4006.t9 PANTHER PTHR11247 PALMITOYL-PROTEIN THIOESTERASE/DOLICHYLDIPHOSPHATASE 1 1 192 4.9E-47
1 g4006.t9 Pfam PF01569 PAP2 superfamily 30 147 4.7E-16
7 g4006.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 27 -
12 g4006.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 48 -
10 g4006.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 49 67 -
13 g4006.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 68 85 -
8 g4006.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 86 96 -
11 g4006.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 97 122 -
9 g4006.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 123 127 -
14 g4006.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 128 155 -
6 g4006.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 156 201 -
21 g4006.t9 SMART SM00014 acid_phosph_2 27 143 4.2E-14
4 g4006.t9 SUPERFAMILY SSF48317 Acid phosphatase/Vanadium-dependent haloperoxidase 8 146 3.53E-17
17 g4006.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 22 -
18 g4006.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 29 48 -
20 g4006.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 85 -
16 g4006.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 97 119 -
19 g4006.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 129 151 -

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:0016787 hydrolase 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. There were no conditions that were differentially expressed