Gene loci information

Transcript annotation

  • This transcript has been annotated as Pseudouridine-5’-phosphatase.

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 g7323 g7323.t2 isoform g7323.t2 22945378 22947479
chr_2 g7323 g7323.t2 exon g7323.t2.exon1 22945378 22945755
chr_2 g7323 g7323.t2 exon g7323.t2.exon2 22946591 22946834
chr_2 g7323 g7323.t2 cds g7323.t2.CDS1 22946661 22946834
chr_2 g7323 g7323.t2 exon g7323.t2.exon3 22946898 22947340
chr_2 g7323 g7323.t2 cds g7323.t2.CDS2 22946898 22947340
chr_2 g7323 g7323.t2 exon g7323.t2.exon4 22947416 22947479
chr_2 g7323 g7323.t2 cds g7323.t2.CDS3 22947416 22947479
chr_2 g7323 g7323.t2 TSS g7323.t2 22947593 22947593
chr_2 g7323 g7323.t2 TTS g7323.t2 NA NA

Sequences

>g7323.t2 Gene=g7323 Length=1129
ATGACTGAGAAAAATATTAAGCCTGTGACTCACGTCATATTCGATATGGATGGTCTTTTA
TTAGATACGGAGCATGTATATGAAAAAGTGTTTCAAAAAGTGATATCAAAATACGGAAAG
ACACTTACACCAGAAGTTCGTGTCAAACTATTGGGTTCAACCGAAAAACGAGCATGTGCG
ATTTGTGTTGATGATCTTGAATTAAATGTAAAAGTCGATGACTTTATTAGTGATTTTCGC
AAGCTATCTTTGCAACGTTTACCTAATGTCGAATTTATGCCTGGCGCTGAAAAACTAATT
CTTCACCTTTATTCACACAAAATTCCAATTTGCGTTGCAACTTCAAGTGGTGAAGAAAGT
GTTGCCATTAAGATACAAAAGCACAAGCGCATTTTCAATTTATTTGATCACATTACTAAA
GGGACAGAAGTTAAAGAGGGAAAACCAGCACCAGATATTTTTCTCTTGGCAGCTAGTCGA
TTTAATCCAAAGGCTGAATCAATAAATTGTCTTGTTATAGAAGATGCACCGAATGGAGTA
CAAGGAGCTCTTTCTGCTGGCATGCAAGTGGCAATGATTCCTGCAGATTTCATTACTGAA
GAACAAAAGAGTAAAGCGACAATTGTATTTAAATCGTTAGAAGAATTTAAACCTGAGCTT
TTTGGACTTCCTCCATTCTAATCCTGTATTATTTTCATTGTTTCACTAATCAAGGTAAAA
TCTAGTTCTGATATTTTTATTATGAATTAGGGAACATTTACCCTAATTAAATAATCAAAA
ACTAATTCATGAAAGTATCAAACTATTTAATCTATTCTTAATACAGAGTGATTTTTTTAA
TTAGTTCCATTATTTGTATACATAGTGTATCGATTTTACTTTCTTGAAATTTCAACAAAA
TAAGCTTTATAATTTTGTTACCTCTCACAAAATATACTATAGCAAACAGATAAGTAACAA
TAACAGATATATAAATAAAGATGACGATTTTTAACTTGAAAAAAATCTTGGCATTGAAAA
TTATTCTGTTTGTATTATACTACATTGTAGACATAGCAAAAAAGTTTTTAAGTTGATTGC
ATTATAAAAATTAATATAATAATAAAATATTTAATGTCCAATTATGCAA

>g7323.t2 Gene=g7323 Length=226
MTEKNIKPVTHVIFDMDGLLLDTEHVYEKVFQKVISKYGKTLTPEVRVKLLGSTEKRACA
ICVDDLELNVKVDDFISDFRKLSLQRLPNVEFMPGAEKLILHLYSHKIPICVATSSGEES
VAIKIQKHKRIFNLFDHITKGTEVKEGKPAPDIFLLAASRFNPKAESINCLVIEDAPNGV
QGALSAGMQVAMIPADFITEEQKSKATIVFKSLEEFKPELFGLPPF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g7323.t2 Gene3D G3DSA:3.40.50.1000 - 12 214 0
5 g7323.t2 Gene3D G3DSA:1.10.150.240 Putative phosphatase; domain 2 23 90 0
2 g7323.t2 PANTHER PTHR18901 2-DEOXYGLUCOSE-6-PHOSPHATE PHOSPHATASE 2 3 226 0
1 g7323.t2 Pfam PF13419 Haloacid dehalogenase-like hydrolase 12 193 0
7 g7323.t2 SFLD SFLDG01129 C1.5: HAD, Beta-PGM, Phosphatase Like 8 220 0
8 g7323.t2 SFLD SFLDG01135 C1.5.6: HAD, Beta-PGM, Phosphatase Like 8 220 0
3 g7323.t2 SUPERFAMILY SSF56784 HAD-like 9 224 0
6 g7323.t2 TIGRFAM TIGR01509 HAD-SF-IA-v3: HAD hydrolase, family IA, variant 3 91 192 0

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

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