Gene detail

Detailed information of CAB3979045.1 in Paramuricea clavata

Genomic Location: pcla8_s000179:60654...64026
NR annotation: CAB3979045.1, uroporphyrinogen-III synthase [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-PACLA_8A005516

TCATTTAACTATCTATAATTCTTTTAATCCtacaaaaaacatttataaattaCAGTTCATCAATGCAAATCACTAATGGAAAAGTCACTCATGTTTACTAGCAGATGCAGAATTAATATATCATAGTGCATAGGAATtatcaatttaaaaatatagTAGAACCTTCCCTTACAGACACATCTCTAACATGGACTCCCTCTATTATGAAGTTTCCAATTTCCCTCATGTATATATTTGGCATTACAAAAAACATCTACACCTCTGCCATGAAGAAAATCGGAAGTTCATCCCCTCCCCAGCTCCAGACTCCAGTAAATTTTAATCATATTAGAAATTGATTTCTGCCCTAACTGCCAAGAATGGACATAAAAAATGTTCCCTTAGGAGGAGTCTGGATTTTTCAGGAGTGACCCATTCTCTGAAACCTAACTTTTATAAAATGTACACCTCTCAAATACAGATACTTCATTCCTTTCTTTTGTGTCTGTATAGGGGAGGTTTGACTGTATAACATTGGTTAATACTTCGCAAAATCATCCAAATTTATGTGTTTTTATGTTTTACTTTCAACCATAATTTGACACTACATTTTTTTAATGTCAACGTACTCGTCCCTTCTTCTGAAAATAACACCATCCCCCGGCAAAGGTGATGGGATGAACGGACTCATCCACGCAATGTACCACCGTGTCCCCAAAACATCCTTAATGTTCTCTATCAATCCCAAATCGTACTCTTGTTTCCCCCGTTTTTGTTCGTAAGTGACTTGACCCTTGGAGATCAACCTGACTTGAAGGTAGAGCAAGCCGGTGAAAAGAAGTAAAGAAAATACAGAAACTCCTGCGAGGAACAGGACATAGAACTGATACCCGGAAGCATACCCAAAAATAAGCATAATGAACGGCATGAACATTGTAAAAAAGGTCGCCATTTTAAAACCACCCGCTATGCTGTGGACATATTCGAAGTGGTAAACATTTGCATAAACTGCACCGATCCATAAATAAATCACCATCATGATATAAAATCGATAGTTTTTATACCCGATGCACGTCCCGCCAAAGATGCAGTGATGGTCCCGTTTGAGGATACAAGTATCGCAAATGTGACAATGGAAGGATCGAGGCGGCGAATTGTGTTGGCAAAACGGACAGTAAATCCAACCAGGTTTTAAAACCGATGGCAAACTCGCACTGCCGCTTGTCGTGTCTGTCACCATCATGTAGTACAAGTTTGCAAAGACATTTATGGCGGCGAAAAATCCACAAAACGTGTGCATATACCACCAGGTTGACAAAGGAGCATGATACAATGGCAAAACTGTCATCAGTTCAAAATTTACCACCACAATTAGCGTTACAATCATGAATACGCACGCAGCACGATCTCCAAATCGCTTTGGGAAAAAAGTATGCTTTGAAGCCATCGTTTAAAACACAAAAACGGaagaaatatttataaatttctGTTGTAACAGTTTGTTACAAATTTCCACAAGCCAAACAAACCACGCCTAAGAGACCGAAGTACGGATGGTCAGCGAAACAATTTTGACTCGCATTTCTCAAAATATATTCCCCTGCCAATAACTTTCGGTCTTTTAAAGTACAAAACGAGTGTTATACAATCTAAAAGAGACAAATTTTACAACCAAACAaggttatataaaaaaattaacaaaaatttggtgtttttacagtttcagaattTATCGATATATTACCCAATACTTCATATTAGAGTCAACAACGTATACTTTCCAATATGGCCGACAGCAATGACCTCAAAAAACCGGTTGTACTCATCTTAAAGTCAAAAAACAAGGACGATAGTTATGAACGACTATTCAACGAACACGGATACAAGCCTGTGTTTGTTCCTGTGTTAGCTTTTAAATTCATAAACCAGGCAGATCTAAGAAAGCGGCTTGAAAATCCAGAAAATCATAGCGGACTGGTATTCACAAGTCAACGAGCAGTCGAGGCAGTCAACCTTTGCATCAGGGATATGGCATTTGAAGAAGAGTGGAGCTCATCGTTAAAAGAGAAATGGTCTCAGCTTCCCGTTTTTGTTACAGGCAAGGCGACAGGAAAGCAAGTCAGGGAAAAATTACAATTCTCGCCCATTTTTGGTGAAGACTCGGGGAGTGCAGAGGCATTAGCGGAAACAATTTTGAACAAACGTCCGGCAGATTTAAGCAAGGAATTACTTTTTCCTTGCGCAAATATTAAGAAAGAAATTTTGCcgaatattttgaaagaaaaaggGTACGGGATTTGTTGTATTACGGCATATTGCACACAACGCGATCCACAGTTAGTTGAATCTCTTCGGAAGCTTTTTGAAGAAAACAAAGCCAGGCTCTCTTCGCCAACTTCCGCTACACCTTCAGAAATCATCGGAGAGATTTCGGCCGGTGAGACTTCAAACAATCCCGTTGAGGTTTTGGAAACATCTGGAGGCACATCGGAATTACTGGGACAAACGTCGGAGCTCCAAGGTCGAGAAGAAGTATCGAATGCGCTCGGACAGCTTGCATGTATTGTATTCTTTAGTCCATCTGGGGTTAATTTTGCCCATGATGCTTTGCAGCAGACAATAAGGTCATTTGAAGATATCAAGCTTGTTGCTATTGGTCAATCTACAGCTCAAGAGTTACATAAACACAGCCTAACCGTTGCTGGTGTTCCAGCGAAACCTGACCCACCATCATTGCTCAAAGTCATCGACTCTATCTTGGAGAAAGGTCTAAAGATATGATATATGTAGTTGATACATATTACAAATACATGATCTTGTAATAATATCATCGAACAATATGATCAATAAAGATGATCATGCATATGATCAAGAACATGAATGTGCAATGATGTGATCAGCTTTTAAAAAGTGAACATTTCAAAGTTCaattaatatattgtaaattAGTATTTACATAATGCATACAATGCCCTAAATGATccttttaaaggtgatctacagtccgtatgtaaacaaagcctttgtttacatttttgtgtccaaaatattgagctttattcgacaactatttatattttcaagcttctagagtataataaatgatcaagaaacaacaatcaggcttttcaagaactcaaaacatagttaaactgtttgtatcataaaaagtgggctcatttgtgcacatgcgcagatcggactgtagatcacctttaaaggtTCGTTATGCcaaagaatataaaaaataaactaaataaatgaaattttttactGATCTTAATTACGACTTTATGACGTTAATGTAGATGTTTATAAATTTCGCGTTTCCTTTCCAGAGAATTTGAATGTCACCTCAAAGCTTCTTTTAGTTGTGAAGCACACGCTCCAACCT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P10746	Uroporphyrinogen-III synthase OS=Homo sapiens OX=9606 GN=Mgu PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005720 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02602 all species →	HEM4	Uroporphyrinogen-III synthase HemD	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003754 all species →	Domain	Tetrapyrrole biosynthesis, uroporphyrinogen III synthase	Interproscan
IPR036108 all species →	Homologous_superfamily	Tetrapyrrole biosynthesis, uroporphyrinogen III synthase superfamily	Interproscan
IPR039793 all species →	Family	Uroporphyrinogen-III synthase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12390 all species →	UROPORPHYRINOGEN III SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004852 all species →	Molecular Function	uroporphyrinogen-III synthase activity	Interproscan
GO:0033014 all species →	Biological Process	tetrapyrrole biosynthetic process	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006780 all species →	Biological Process	uroporphyrinogen III biosynthetic process	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01719	hemD, UROS; uroporphyrinogen-III synthase	EC:4.2.1.75	Porphyrin metabolism	ko00860	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of CAB3979045.1 across 21 RNA-seq samples of Paramuricea clavata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

21Samples

15TPM > 0

4Conditions

13.2Max TPM

3.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	4	2.23	6.98
apical branchlet · Temperature treatment at T0	6	5	4.41	13.16
apical branchlet · Temperature treatment at T25	5	3	4.02	10.24
apical branchlet · Control at T0	4	3	3.44	9.02

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	6.98
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.99
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.70
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.69
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	13.16
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	9.30
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	2.00
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.06
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.97
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	10.24
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	8.00
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	1.85
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	9.02
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	2.63
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	2.11
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.