Gene loci information

Transcript annotation

  • This transcript has been annotated as Bifunctional coenzyme A 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 g10149 g10149.t1 TTS g10149.t1 7789521 7789521
chr_1 g10149 g10149.t1 isoform g10149.t1 7789675 7791229
chr_1 g10149 g10149.t1 exon g10149.t1.exon1 7789675 7791012
chr_1 g10149 g10149.t1 cds g10149.t1.CDS1 7789675 7791012
chr_1 g10149 g10149.t1 exon g10149.t1.exon2 7791083 7791229
chr_1 g10149 g10149.t1 cds g10149.t1.CDS2 7791083 7791229
chr_1 g10149 g10149.t1 TSS g10149.t1 7791289 7791289

Sequences

>g10149.t1 Gene=g10149 Length=1485
ATGGCAAATTTCAATAAAGGCTTATTAATAATTACTTGCCTATCAAAACTATCAGCATCA
CTGACATTGGCAAGTAAAAAAATAGCTCATCATTTGTACATTCATTATCATCCAAAAGAG
CCACAGAAATATGAAAAATTCAGTAAGGCACTTTCAAGCATTTATTCATGCTCAATTGAA
ATGTGTGGAAACATTGATGTTCGTGTTTTGATTTCTACAATGAAAACCAACGCAAGTTTA
ATGTCACGAATAAAAAATGTCGATTTAGTGTTTGTTGATGATCAAATTGAAAATTCATTA
AGTGATAAAACACTTTCTATTATCCAATTTGAATCATTATTAGATGAGAATGAAACTAGA
TACAACAATGTAGTGTTAGGAGGTACATTTGATCGATTGCATGTTGGTCATAAGATACTA
CTTTCTGAAGCCGCATTAAGGGCGAAACAGCGATTAGTCGTAGGTGTTACTGATGTCAAT
ATGATTACTTCAAAGAAGCTACCTGAACTTGTATTGCCGCTTGAAAAGCGAATTGATGAT
GTAAAAGAATTTCTTAATGATGTTGATAATACAATCAAATATGAAGTTGTTCCTATACAA
GATCCATTCGGACCAACCGCCTCAGATCCAAATCTTGATTTGATTGTAGTCAGTGATGAA
ACACTCAAAGGAGGATATAAAGTCAATGAGATTAGGAAGGAAAAGAATTTTAGAGAACTT
GAAATTTACAGCATTCCATTAGTTGAAATAAAAGAAGTTCTCAAAGAAAAAGAAAATAAA
GTGAGCTCATCGAATCAACGAATGGATATTTTAGGTACGCAATTTAAAGAGCCACAACCA
AGACCAGATTTACCACAATGGCCTTATATCATTGGTCTCATCGGTGGAATTGCATCAGGA
AAAAGCAAAATGAGTGAGCGTTTTATGAAAATGGGTGCAGGCATCATTGATTGTGACAAA
TTGGCTCATTCAATTTATGAACCTGGTGAGGAATGTTATTATGAAATAATTAAAGAATTT
GGAGAAGATTTAATTGATGTAAATGGAAGAATTGATAGAAAGAAACTTGGTGCAATTGTT
TTCTCGGATAAAAATAAGCTGCAACAGCTAAATCAAATTGTATGGCCTAATCTTTTGAAA
AAGGCAAAAAACAAAATCAATGAGCTTTATGAAAAGGAGAAGCGTAAAATTGTTATTTTG
GAAGCAGCAGTTTTAATTCAAGCGGGTTGGGAGAAAGAATGTCATGAAATTTGGTCAATG
ATAATTCCACCAGAAGTTGCTATAAAAAGACTCATGGAAAGAAACAATTTGACTGAGGTA
GAAGCCAAAGCACGTCTTGCATCGCAAGTGGATAATTCAGTCGTGGTCTCACATTCAAAT
GTAGTATTTTCATCTTTATGGAGCTATGAGTATTCACAAGCACAAGCTGAAAAAGCTTGG
AGCGAATTACTTAAGCGCCTTAACTTTTTATCTGGAAAAATTTAG

>g10149.t1 Gene=g10149 Length=494
MANFNKGLLIITCLSKLSASLTLASKKIAHHLYIHYHPKEPQKYEKFSKALSSIYSCSIE
MCGNIDVRVLISTMKTNASLMSRIKNVDLVFVDDQIENSLSDKTLSIIQFESLLDENETR
YNNVVLGGTFDRLHVGHKILLSEAALRAKQRLVVGVTDVNMITSKKLPELVLPLEKRIDD
VKEFLNDVDNTIKYEVVPIQDPFGPTASDPNLDLIVVSDETLKGGYKVNEIRKEKNFREL
EIYSIPLVEIKEVLKEKENKVSSSNQRMDILGTQFKEPQPRPDLPQWPYIIGLIGGIASG
KSKMSERFMKMGAGIIDCDKLAHSIYEPGEECYYEIIKEFGEDLIDVNGRIDRKKLGAIV
FSDKNKLQQLNQIVWPNLLKKAKNKINELYEKEKRKIVILEAAVLIQAGWEKECHEIWSM
IIPPEVAIKRLMERNNLTEVEAKARLASQVDNSVVVSHSNVVFSSLWSYEYSQAQAEKAW
SELLKRLNFLSGKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g10149.t1 CDD cd02164 PPAT_CoAS 123 267 6.85683E-57
18 g10149.t1 CDD cd02022 DPCK 290 451 4.12634E-57
12 g10149.t1 Coils Coil Coil 247 267 -
11 g10149.t1 Coils Coil Coil 383 403 -
10 g10149.t1 Gene3D G3DSA:3.40.50.620 HUPs 122 273 1.0E-45
9 g10149.t1 Gene3D G3DSA:3.40.50.300 - 286 491 3.3E-65
5 g10149.t1 Hamap MF_00376 Dephospho-CoA kinase [coaE]. 288 486 21.317694
3 g10149.t1 PANTHER PTHR10695:SF49 BIFUNCTIONAL PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE-DEPHOSPHO-COA KINASE 121 488 7.0E-95
4 g10149.t1 PANTHER PTHR10695 DEPHOSPHO-COA KINASE-RELATED 121 488 7.0E-95
1 g10149.t1 Pfam PF01467 Cytidylyltransferase-like 126 266 7.7E-13
2 g10149.t1 Pfam PF01121 Dephospho-CoA kinase 289 463 2.9E-43
14 g10149.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 24 -
15 g10149.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 7 -
16 g10149.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 8 19 -
17 g10149.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 20 24 -
13 g10149.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 25 494 -
22 g10149.t1 ProSiteProfiles PS51219 Dephospho-CoA kinase (DPCK) domain profile. 290 494 48.982
6 g10149.t1 SUPERFAMILY SSF52374 Nucleotidylyl transferase 123 264 1.35E-15
7 g10149.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 289 480 5.33E-26
8 g10149.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -
21 g10149.t1 TIGRFAM TIGR00125 cyt_tran_rel: cytidyltransferase-like domain 124 189 1.7E-7
20 g10149.t1 TIGRFAM TIGR00152 TIGR00152: dephospho-CoA kinase 290 473 1.6E-42

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:0009058 biosynthetic process BP
GO:0005524 ATP binding MF
GO:0004140 dephospho-CoA kinase activity MF
GO:0003824 catalytic activity MF
GO:0015937 coenzyme A biosynthetic process BP

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