Gene loci information

Transcript annotation

  • This transcript has been annotated as Bifunctional 3’-phosphoadenosine 5’-phosphosulfate synthase.

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 g11605 g11605.t1 TTS g11605.t1 17424500 17424500
chr_1 g11605 g11605.t1 isoform g11605.t1 17424763 17428697
chr_1 g11605 g11605.t1 exon g11605.t1.exon1 17424763 17425817
chr_1 g11605 g11605.t1 cds g11605.t1.CDS1 17424763 17425817
chr_1 g11605 g11605.t1 exon g11605.t1.exon2 17425896 17426037
chr_1 g11605 g11605.t1 cds g11605.t1.CDS2 17425896 17426037
chr_1 g11605 g11605.t1 exon g11605.t1.exon3 17426115 17426633
chr_1 g11605 g11605.t1 cds g11605.t1.CDS3 17426115 17426633
chr_1 g11605 g11605.t1 exon g11605.t1.exon4 17426726 17426848
chr_1 g11605 g11605.t1 cds g11605.t1.CDS4 17426726 17426848
chr_1 g11605 g11605.t1 exon g11605.t1.exon5 17428650 17428697
chr_1 g11605 g11605.t1 cds g11605.t1.CDS5 17428650 17428697
chr_1 g11605 g11605.t1 TSS g11605.t1 17428743 17428743

Sequences

>g11605.t1 Gene=g11605 Length=1887
ATGAGCTGCGAACCCAGCGCAAGTGGAGACGTGAAAAAACAAAAGACGTGTCTTCAAGTG
GCAACAAATGTAACTGAACAAAAGCATCATGTTACTCGAGAGACACGCGGACAAAATTTG
GGATTATGCCGTGGCTTTCGAGGTTGTACAGTTTGGTTGACGGGATTATCGGGTGCAGGT
AAAACTTCTATTGGTTTTGAACTTGAAGCACTTCTAGTATCAAAGGGCATTCCTTCATAT
GGACTCGATGGTGACAACATTCGTACGGGATTAAATAAAAACTTAGGCTTCTCGCAAGCA
GATCGCGAAGAAAATATTCGTCGAGTGGCTGAAGTGGCTAAATTGTTTGCCGATAGTGGT
GTTGTGGCAATTTGTAGTTTTGTTTCTCCATTTGCTGAAGATCGTGATATGGCGCGAAGA
ATTCATAAAGAGGCCGATTTGAAGTTTTATGAAATATTCGTCGATACACCATTAAACGTT
TGCGAGTCTCGTGACGTCAAAGGTCTTTACAAAAAAGCTCGAGAAGGTGCAATTCAAGGC
TTTACTGGTGTAACGCAAGCTTATGAAGCTCCAGATAAACCGGATTTAATTGTAAAAACT
GAAGGTCTTTCCATTCAAGAATCAACTCAATGCGTTATTGAGCTGCTAGTTAAAGAAAAT
ATCATCCCAAAGAGTATCACAGATGTTTATGGAATCCATGAATTATTTGTTCCATCACAC
CGTCGTTCCGCAATGCTTGCAGAAGCTCAAACTTTGCCCACATTAGAGATCAGTGAAGTT
GAATGTCAATGGCTTCAAGTACTAGCGGAGGGTTGGGCTTCACCTCTTAAAGGTTTTATG
CGTGAAAAGGACTATCTTCAAACATTACATTTTAATTGTATTGTGACAGATGACGGTACC
GTCATTAATCATTCTGTCCCGATTGTTTTATCGCTATCAGAGAGTGATAAGAGTCGATTA
CAAGATGTTAGCGCATTCACATTAACTTATGATAAGAAACCGATCGCAATTTTACGTAAC
CCTGAATTCTTTTATCAACGAAAAGAGGAACGTTGTGCTCGACAATTTGGCACAGCTAAT
CCCAATCATCCTTATATCAAGATGATTTTAGAGTCTGGTGATTTTCTTGTTGGTGGTGAT
TTGGAAGTCTTAGATAGAATTAAATGGAATGATGGTTTAGATCAATATCGTTTAACACCA
AATGAAATTCGCAACAAGATTAAGGAAATGAATGCAGATGCAGTTTTTGCTTTTCAATTG
AGAAATCCTATTCATAACGGTCATGCGTTATTAATGAAAGATTGTAAGCGACAATTATTA
GATCGGGGTTATAAAAAACCAGTATTACTTTTACATCCACTCGGCGGATGGACGAAAGAT
GACGATGTTCCTTTGCCAACCAGAATGGCTCAACACCAAGCTGTCATGGACGCAGGAGTG
TTGGATCGTGATAGCACAATTCTTGCCATTTTTCCTTCGCCAATGATGTATGCGGGACCA
ACTGAAGTTCAATGGCATGCTAAATCTCGAATGAATGCCGGTGCAAGCTTTTATATTGTA
GGTCGCGATCCAGCCGGAATGCCACATCCCAATAAAGAAATGTACCCTGATGGTAATCTT
TATGATGACACACATGGCAGCAGAGTTTTGAAAATGGCTCCGGGACTTGATAATATCGTT
ATTTTGCCATTTAGAGTGGCAGCTTATGATACATCTGTTAACGAAATGGCATTTTTCGAC
CCTAAACGTAAAGAAGACTTTTTATTCATATCTGGCACAAAAATGCGTGGATTTGCAAAA
AGTGGTGAGTTGCCGCCAAAAGGATTTATGGAACCCAAAGCATGGAGTATTCTTGCTGAA
TATTATCAATCACTTAATAAGAACTAG

>g11605.t1 Gene=g11605 Length=628
MSCEPSASGDVKKQKTCLQVATNVTEQKHHVTRETRGQNLGLCRGFRGCTVWLTGLSGAG
KTSIGFELEALLVSKGIPSYGLDGDNIRTGLNKNLGFSQADREENIRRVAEVAKLFADSG
VVAICSFVSPFAEDRDMARRIHKEADLKFYEIFVDTPLNVCESRDVKGLYKKAREGAIQG
FTGVTQAYEAPDKPDLIVKTEGLSIQESTQCVIELLVKENIIPKSITDVYGIHELFVPSH
RRSAMLAEAQTLPTLEISEVECQWLQVLAEGWASPLKGFMREKDYLQTLHFNCIVTDDGT
VINHSVPIVLSLSESDKSRLQDVSAFTLTYDKKPIAILRNPEFFYQRKEERCARQFGTAN
PNHPYIKMILESGDFLVGGDLEVLDRIKWNDGLDQYRLTPNEIRNKIKEMNADAVFAFQL
RNPIHNGHALLMKDCKRQLLDRGYKKPVLLLHPLGGWTKDDDVPLPTRMAQHQAVMDAGV
LDRDSTILAIFPSPMMYAGPTEVQWHAKSRMNAGASFYIVGRDPAGMPHPNKEMYPDGNL
YDDTHGSRVLKMAPGLDNIVILPFRVAAYDTSVNEMAFFDPKRKEDFLFISGTKMRGFAK
SGELPPKGFMEPKAWSILAEYYQSLNKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g11605.t1 CDD cd02027 APSK 50 200 0.0000
15 g11605.t1 CDD cd00517 ATPS 252 621 0.0000
10 g11605.t1 Gene3D G3DSA:3.40.50.300 - 20 226 0.0000
12 g11605.t1 Gene3D G3DSA:3.10.400.10 Sulfate adenylyltransferase 231 390 0.0000
11 g11605.t1 Gene3D G3DSA:3.40.50.620 HUPs 391 628 0.0000
6 g11605.t1 Hamap MF_00065 Adenylyl-sulfate kinase [cysC]. 46 220 36.0827
4 g11605.t1 PANTHER PTHR11055 BIFUNCTIONAL 3’-PHOSPHOADENOSINE 5’-PHOSPHOSULFATE SYNTHASE 11 628 0.0000
5 g11605.t1 PANTHER PTHR11055:SF16 BIFUNCTIONAL 3’-PHOSPHOADENOSINE 5’-PHOSPHOSULFATE SYNTHASE 2 11 628 0.0000
3 g11605.t1 Pfam PF01583 Adenylylsulphate kinase 47 202 0.0000
2 g11605.t1 Pfam PF14306 PUA-like domain 232 385 0.0000
1 g11605.t1 Pfam PF01747 ATP-sulfurylase 394 621 0.0000
8 g11605.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 46 218 0.0000
9 g11605.t1 SUPERFAMILY SSF88697 PUA domain-like 232 389 0.0000
7 g11605.t1 SUPERFAMILY SSF52374 Nucleotidylyl transferase 395 622 0.0000
13 g11605.t1 TIGRFAM TIGR00455 apsK: adenylyl-sulfate kinase 43 216 0.0000
14 g11605.t1 TIGRFAM TIGR00339 sopT: sulfate adenylyltransferase 235 620 0.0000

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:0000103 sulfate assimilation BP
GO:0005524 ATP binding MF
GO:0004020 adenylylsulfate kinase activity MF
GO:0004781 sulfate adenylyltransferase (ATP) 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.

Raw TPM values