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.t16 TSS g9940.t16 6117534 6117534
chr_1 g9940 g9940.t16 isoform g9940.t16 6117649 6120002
chr_1 g9940 g9940.t16 exon g9940.t16.exon1 6117649 6117665
chr_1 g9940 g9940.t16 exon g9940.t16.exon2 6117775 6118134
chr_1 g9940 g9940.t16 exon g9940.t16.exon3 6118209 6118396
chr_1 g9940 g9940.t16 exon g9940.t16.exon4 6118480 6118645
chr_1 g9940 g9940.t16 cds g9940.t16.CDS1 6118558 6118645
chr_1 g9940 g9940.t16 exon g9940.t16.exon5 6118705 6120002
chr_1 g9940 g9940.t16 cds g9940.t16.CDS2 6118705 6120002
chr_1 g9940 g9940.t16 TTS g9940.t16 6120807 6120807

Sequences

>g9940.t16 Gene=g9940 Length=2029
ATGGCTGATCCAAAACAAGGAGATGATTTAGCTACAGCAATTTTAAAGCAAAAGTCTAAA
CCTAATCGTTTGATGGTCGATGATGCTACAAATGATGATAACTCAATTGTTTGTCTATCG
CAAGCAAAAATGGACGAGTTGCAATTGTTTCGCGGAGATACAGTTTTGTTAAAGGGGAAA
AGAAGAAAGGAGACTGTTTGTATTGTTTTATCTGACGATACATGTCCTAATGAGAAAATT
CGTATGAATCGTGTTGTTCGTAACAATTTGCGTGTTCGACTCTCGGATATTGTCGCCATT
CAATCATGTCCTGATGTTAAATATGGCAAACGTGTTCATATTTTGCCAATTGATGACACT
GTCGAAGGTCTGACTGGCAATATCTTTGATGTTTATTTGAAACCATACTTCCTCGAAGCT
TATCGTCCTATTCATAAAGACGATACTTTTATTGTTCGTGGTGGCATGAGAGCTGTTGAA
TTTAAAGTTGTTGGAACAGATCCTGAACCATATTGTATAGTTGCTCCCGATACTGTAATT
CATTGTGAAGGAGATCCGATTAAACGAAGAAGAAGAAGCGTTGAATGCTGTCGGTTATGA
TGATATTGGTGGTTGTCGAAAGCAATTGGCTCAAATTAAAGAAATGGTCGAGTTACCATT
GCGTCATCCATCACTTTTCAAAGCAATTGGTGTTAAACCTCCACGAGGTATTTTGTTGTA
TGGACCACCAGGTACTGGAAAAACTTTAATTGCAAGAGCTGTAGCAAATGAGACTGGCGC
TTTCTTCTTCTTAATTAATGGTCCTGAGATTATGTCTAAATTAGCTGGTGAATCAGAATC
AAATTTGCGTAAAGCATTCGAAGAAGCAGATAAGAATTCACCTGCAATTATATTTATTGA
TGAATTGGATGCAATTGCTCCTAAGCGTGAAAAAACTCATGGTGAAGTTGAACGCAGAAT
TGTCTCTCAATTATTGACTCTCATGGACGGTATGAAGAAAAGCTCTCACGTTATCGTTAT
TGCTGCAACAAATCGTCCAAATAGTATCGATCCAGCTCTTCGTCGATTCGGTCGCTTTGA
TCGTGAAATTGATATTGGCATTCCAGACGCAACTGGCCGTTTAGAGGTGTTGCGTATTCA
CACTAAAAATATGAAATTAGGCGAAGATGTTGATCTTGAACAAATTGCTGCTGAATCGCA
TGGTCATGTTGGCGCTGATTTGGCTTCATTGTGCTCAGAAGCTGCACTTCAACAAATTCG
TGAGAAAATGGATTTGATTGATTTGGAAGACGATCAAATTGATGCCGACGTTTTAAATTC
ATTGGCTGTTTCTATGGATAATTTCCGTTATGCTATGACCAAATCAAGTCCATCAGCTTT
GCGTGAAACAGTCGTGGAAACTCCAACAACTACATGGGCCGATATTGGTGGTTTAGAAAA
TGTCAAGCGTGAATTACAAGAATTGGTTCAATATCCAGTTGAGCATCCAGATAAATTTTT
GAAATTTGGTATGCAACCATCACGCGGTGTTCTTTTCTATGGTCCACCCGGTTGTGGTAA
AACTTTGCTCGCTAAAGCAATTGCTAATGAATGTCAGGCTAACTTTATCTCAGTCAAGGG
TCCTGAACTTTTAACTATGTGGTTCGGTGAATCAGAAGCAAATGTTAGAGACATTTTTGA
TAAAGCTCGTTCTGCTGCACCATGTGTTTTGTTCTTTGATGAATTGGACAGTATTGCTAA
ATCTCGCGGAGGCAATGTCGGTGATGCAGGTGGAGCTGCTGACAGAGTTATTAATCAAAT
TTTGACTGAAATGGATGGTATGGGAGCCAAGAAAAATGTCTTCATTATTGGTGCAACAAA
TCGTCCTGACATCATCGATAGCGCTATTCTTCGTCCTGGTCGTCTAGATCAGTTGATTTA
TATTCCATTGCCCGATGAAAAATCACGCATTGCTATTTTGCAATCTAACTTGCGCAAGAG
TCCAGTCGGTAAAGAAGTCGACTTGGGATATATTGCAAAAGTCACAAAT

>g9940.t16 Gene=g9940 Length=462
MVELPLRHPSLFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL
AGESESNLRKAFEEADKNSPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGMKKS
SHVIVIAATNRPNSIDPALRRFGRFDREIDIGIPDATGRLEVLRIHTKNMKLGEDVDLEQ
IAAESHGHVGADLASLCSEAALQQIREKMDLIDLEDDQIDADVLNSLAVSMDNFRYAMTK
SSPSALRETVVETPTTTWADIGGLENVKRELQELVQYPVEHPDKFLKFGMQPSRGVLFYG
PPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFDKARSAAPCVLFFDE
LDSIAKSRGGNVGDAGGAADRVINQILTEMDGMGAKKNVFIIGATNRPDIIDSAILRPGR
LDQLIYIPLPDEKSRIAILQSNLRKSPVGKEVDLGYIAKVTN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g9940.t16 CDD cd00009 AAA 11 152 2.18924E-30
17 g9940.t16 CDD cd00009 AAA 262 429 5.93392E-30
13 g9940.t16 Gene3D G3DSA:3.40.50.300 - 1 153 1.0E-61
14 g9940.t16 Gene3D G3DSA:1.10.8.60 - 154 249 3.8E-32
12 g9940.t16 Gene3D G3DSA:3.40.50.300 - 250 430 2.4E-72
15 g9940.t16 Gene3D G3DSA:1.10.8.60 - 431 462 2.5E-5
4 g9940.t16 PANTHER PTHR23077:SF69 TRANSITIONAL ENDOPLASMIC RETICULUM ATPASE 1 462 1.0E-295
5 g9940.t16 PANTHER PTHR23077 AAA-FAMILY ATPASE 1 462 1.0E-295
2 g9940.t16 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 23 152 1.9E-48
3 g9940.t16 Pfam PF17862 AAA+ lid domain 175 216 5.9E-12
1 g9940.t16 Pfam PF00004 ATPase family associated with various cellular activities (AAA) 296 429 8.7E-46
11 g9940.t16 ProSitePatterns PS00674 AAA-protein family signature. 123 141 -
10 g9940.t16 ProSitePatterns PS00674 AAA-protein family signature. 399 417 -
8 g9940.t16 SMART SM00382 AAA_5 19 155 8.2E-24
9 g9940.t16 SMART SM00382 AAA_5 292 431 3.9E-24
6 g9940.t16 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 224 6.63E-61
7 g9940.t16 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 254 461 3.39E-63

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