Gene loci information

Transcript annotation

  • This transcript has been annotated as Transitional endoplasmic reticulum ATPase TER94.

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_1 g9940 g9940.t18 TSS g9940.t18 6117534 6117534
chr_1 g9940 g9940.t18 isoform g9940.t18 6118496 6119444
chr_1 g9940 g9940.t18 exon g9940.t18.exon1 6118496 6118645
chr_1 g9940 g9940.t18 cds g9940.t18.CDS1 6118558 6118645
chr_1 g9940 g9940.t18 exon g9940.t18.exon2 6118705 6119444
chr_1 g9940 g9940.t18 cds g9940.t18.CDS2 6118705 6119444
chr_1 g9940 g9940.t18 TTS g9940.t18 NA NA

Sequences

>g9940.t18 Gene=g9940 Length=890
TGAATGCTGTCGGTTATGATGATATTGGTGGTTGTCGAAAGCAATTGGCTCAAATTAAAG
AAATGGTCGAGTTACCATTGCGTCATCCATCACTTTTCAAAGCAATTGGTGTTAAACCTC
CACGAGGTATTTTGTTGTATGGACCACCAGGTACTGGAAAAACTTTAATTGCAAGAGCTG
TAGCAAATGAGACTGGCGCTTTCTTCTTCTTAATTAATGGTCCTGAGATTATGTCTAAAT
TAGCTGGTGAATCAGAATCAAATTTGCGTAAAGCATTCGAAGAAGCAGATAAGAATTCAC
CTGCAATTATATTTATTGATGAATTGGATGCAATTGCTCCTAAGCGTGAAAAAACTCATG
GTGAAGTTGAACGCAGAATTGTCTCTCAATTATTGACTCTCATGGACGGTATGAAGAAAA
GCTCTCACGTTATCGTTATTGCTGCAACAAATCGTCCAAATAGTATCGATCCAGCTCTTC
GTCGATTCGGTCGCTTTGATCGTGAAATTGATATTGGCATTCCAGACGCAACTGGCCGTT
TAGAGGTGTTGCGTATTCACACTAAAAATATGAAATTAGGCGAAGATGTTGATCTTGAAC
AAATTGCTGCTGAATCGCATGGTCATGTTGGCGCTGATTTGGCTTCATTGTGCTCAGAAG
CTGCACTTCAACAAATTCGTGAGAAAATGGATTTGATTGATTTGGAAGACGATCAAATTG
ATGCCGACGTTTTAAATTCATTGGCTGTTTCTATGGATAATTTCCGTTATGCTATGACCA
AATCAAGTCCATCAGCTTTGCGTGAAACAGTCGTGGAAACTCCAACAACTACATGGGCCG
ATATTGGTGGTTTAGAAAATGTCAAGCGTGAATTACAAGAATTGGTTCAA

>g9940.t18 Gene=g9940 Length=276
MVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL
AGESESNLRKAFEEADKNSPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGMKKS
SHVIVIAATNRPNSIDPALRRFGRFDREIDIGIPDATGRLEVLRIHTKNMKLGEDVDLEQ
IAAESHGHVGADLASLCSEAALQQIREKMDLIDLEDDQIDADVLNSLAVSMDNFRYAMTK
SSPSALRETVVETPTTTWADIGGLENVKRELQELVQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g9940.t18 CDD cd00009 AAA 11 152 6.02412E-31
8 g9940.t18 Gene3D G3DSA:3.40.50.300 - 1 153 3.1E-62
9 g9940.t18 Gene3D G3DSA:1.10.8.60 - 154 249 1.5E-32
3 g9940.t18 PANTHER PTHR23077:SF69 TRANSITIONAL ENDOPLASMIC RETICULUM ATPASE 1 276 5.7E-166
4 g9940.t18 PANTHER PTHR23077 AAA-FAMILY ATPASE 1 276 5.7E-166
1 g9940.t18 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 23 152 6.3E-49
2 g9940.t18 Pfam PF17862 AAA+ lid domain 175 216 3.1E-12
7 g9940.t18 ProSitePatterns PS00674 AAA-protein family signature. 123 141 -
6 g9940.t18 SMART SM00382 AAA_5 19 155 8.2E-24
5 g9940.t18 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 224 1.28E-61

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:0005524 ATP binding MF
GO:0016887 ATP hydrolysis 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