Gene detail

Detailed information of BRAKERKREP00000023719.1 in Hydra viridissima

Genomic Location: QPEY01000524.1:985347...990165
NR annotation: KAG0322706.1, hypothetical protein BGZ97_004702 [Linnemannia gamsii]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000023719

ATGTCGTTAGTCACCAGCCGTTATCAGTCGCGCCAGCTTTTTGTTGGTCTGGAGCGGATGCAGTCACAGGCGCGTGAGCTTGACACCGGTTGGCGGCAGTTGCAACTGGAGCGCGCTGGGCTGGCTCGCCAAGCGCGCATCGATCGCTCGGCGCGCGAAGAGCTAAAGATGATCCCGATTGTGCCGGAGCGCACGCTTTATCTTAACCAGTTGCCGACTTGGCGTGCCCGCCTAGTGCTTATTTTGTTGCTCGGCGCCTTTGCTATGCTCGTCGGTAGAGCGCTTTTTTTGCAAGGTTTATCTACCAAGTTTTTGCAGCAGCAGGGTGAGCGGCGTTATGAACGCACGCTTATCCTACCCGCTACGCGCGGCAAAATTCTCGATCGCAATGGCGTGGTGCTGGCTTCTAGCGTGCCGGCTCGCGCCATCTGGGCTATCCCCGACGACGTCAAACAAGCCGTGCCGGGGCAGCTCGATGCGTTGGCCAAATTGTTGGACGTTCCTGTTGCTGAGCTGCGTCGTCGGCTGGCTGACGAAGACAAAAACTTTGTCTATCTTAAGCGCCAAGTCTCGATGGACGTAGCCGACAAGGTTAGGCAATTGGCTGTGCCGGGAATCCATCAACAGCCCGAGACGCGTCGTTATTATCCCCAGGGTGAAGTGTTAGCCCATGTGCTGGGCTTTACTAATGTAGAAGACCAAGGCCAGGAAGGGGTGGAACTCGCCTTCAATTCTCAGCTGTGTGGCCGTCCGGGTAGCCGTCGCGTCATTAAGGACCGACTTGGTCGCGTTATCGAAGACGTGCAGGCAGCCACCTTGCCCGTCGACGGCCGCGACCTGCGTCTTTCTATCGATACGCGTCTTCAGTACCTCGTGTTTAAGGAACTACAAGATGCCATGGCAAAACACCAGGCGAAGGGAGCGGCGGCGGTGGTGGTGGATGTCCACACCGGCGAAGTCCTGGCACTGGTCAACCTGCCTACTTTTGATCCTAATCACCGCGAGTCCTTCTATGGCGCCAATCTGCGCAACCAGGTAATTACGGATACCTTCGAGCCTGGTTCTATCATGAAGCCTTTCACCGCCGCGCTGGCACTGGATCTAGGGCGCATTACCCCCTCGACGCTTTTTGATACGGGCAACGGCAAGTTCCAGTACCAAGGCAGCACGATTAGTGACGTTAGTCGCAATGGAATCTTAGATATCGCCGGCGTCCTGCGCAGGTCCAGCAATATAGGTATGACGTTGGTTTCCGAACGGCTGGCAGCGCGCGAGATGTGGGATCGCTTCACTGAACTCGGCGTGGGCCAAGCACCGCAATTAGGCTTTCCCGGTGCAGCGCCTGGACGACTGCGTCCTTGGGATCGCTGGCGTCTCATTGAAAAAGCGACGATGGCCTACGGCTACGGCTTATCGGTGTCGCTCTTGCAAGTGGTACGCGCCTACACCGTTTTTGCGCGTGACGGCGATATGGTGTCGCTTACGCTAGTTAAGCGCGACAGTGATCCTACCAGCGTCAAAATCTATACGCCTCATACTGCCGCGCTGGTGCGCGACATGCTGGAAGCAGCGGCGGGTCCTGCGGGTGCAAAGGCGGCCCAGTCCGCACATTGCGGTGGCTGTCACGATAGACGAACCGCAGGTGGGGGGTTACTACGGCGGGGCTATTGCCGCCCCGGTGTTTTCGCGCATTGTCAGTGGCAGCCTACGCCTGATGTCAGTGCAGCCCGATGCGCCTTTCGAATCGACGATTGTGGCGGGTTTAACGGAGCCCCCGCGGTGAGCCGCCCCGCGTTTCACCCGTCGCCTGCTTCGACCGCGGCGCAAGTATTGTCTTGGCTGCGCCAGCGCGTATCGGCGGCGGCTCACCTTAGACTCGACTCGCGCGAGGTACAGCCAGGCGACGTATTCGTGGCCTGCGCCGGTGCGGCCAGCGACGGCCGTCTATATATAGAGCAGGCGCTGGCGCAAGGCGCGGGCGCGGTGTTGGCGCAAGCACCCGCGCCGGATAGTATGGCGCCGGCTTTGGCAGCCGACGCCGTTTTGCCTGTCGATGGCCTGCGTGGTTTGCTTGGCGAGTTGGCTGACGTTTGGTATGGGCATCCTTCGAGGGCAATGAGTATCGTGGCCGTTACGGGTACGAACGGCAAGACCTCTTGCGTGCAGTGGATTGCTCAAGCGCTTGGCCGTCATGGCAAACCGTGCGCCACTATCGGTACCTTGGGCGCTCTGCTGCCTGATGGCCGCTCGCTGGGTGGTCAGCTAACTACGCCCGACGTGCTCACTGTGCACCGCACATTAGCCGCTATGCGCGACGCTGGCGTGCAAGCGGTCGCTATCGAAGCGTCTTCTATCGGCATCGATCAGGGACGTTTAGAGGGTGTACAGATCACTGTGGCCGCCTTCACCAATCTCACCCGCGACCACCTCGACTACCATCAGACCATGGAACGATATGAGCAGGCGAAGGCGCGTTTGTTCGCCTGGCCTGACTTGGTCGCGGCCGTCATTAACTTGGACGATGGCGCCGGGCGCCGTCTCATGCGCGGCGTGCCGGCCTCCATCGCCGTCGGGTACAGCGCCAACGCGGACGCTGCAGAGGCGAGTTTACGCGCCTCCGAATTGCAGACGACGGCGCAAGGTCAGGTTTTCAACCTGCAGACACCGAATGGTCAAGCGCAGATCGTCACGGGTCTTTTAGGCGACCATAATGTGTCGAATCTACTGCTTGTGGCCAGCGTCTTGTACAAACTCAGTTGGCCCTTGCCATTAATCGCTCGCGAATTGGCGGCCATGCAGCCGGTAGATGGCCGTTTGCAAATAGTCGATTCGCCCGTGCTGGCCAATTTGAACGCCACGCCAGACGGACCCCTAACGGTGGTGGATTATTCTCATACGCCAGACGCGTTACGGCGCGCGCTTATCGCGTTGCGCCCAGTGGCGCAGGCGCGTGGTGGGCGCTTAATCTGCTTGTTTGGCTGCGGCGGTGATCGCGATCCCGGCAAGCGCGCCGACATGGGTCGCATAGCGGCCGAACTGGCTGATGGCGTTCACATCACCAGCGATAATCCCCGCAGTGAGGATCCGGCGGCCATCATGGCGCAAATTTGTGCCGGCATTCCTGCTGGTACGCCGATGACGGTTGAGGTCGATCGTGCCCGCGCCATTATGCAGACGATTTGGTCTGCCTCGCCCGCAGACGTCATTCTCGTCGCGGGTAAAGGGCACGAGGTTTATCAGGAGATGGGTGGGCGCAAGCACCCTTTCGATGATCGCCAGTGGGTCCGTTTGGCGTTGTTACTGCCGCGTGTGAAGTCGGTGTCTATCGATACCCGGCGCATCGGCGTCAACGAACTCTTCGTGGCTTTGATGGGTGAGCATTTCGACGGTCACGATTATCTGTCTCAGGCTCAAGCGGGTGGCGCCAGCGCGGCCGTGGTGGCGCGGCCAATAGCGGGTAGCTCGCTGCCGCAGCTCGTGCTGGGAGACACCCGTCAGGCGCTAATGCGCATGGGAGCGGCGTGGCGCGCCCGCTTCGATCTGCCAGTGATTGCGGTGACGGGCAGTAACGGCAAAACCACCACCAAGGAAATGATGGCGGCCATATTGGCCGACTGGCAGGGCGAGCAGAGCCGCCTAGCCACTGTGGGCAATCTTAACAACGATATCGGCGTGCCGCTGACGCTTTTGCGTTTAACCGCCCAACACCGGCTCGCCGTATTGGAGTTGGGTATGAATCATCCCGGTGAGATCGAGGTGCTGGCCGGCATGGTGGCGCCCACGGTAGCCGTGATAACCAATGCTCAACGCGAACACCAGGAATTTATGCATACTGTTGAAGCGGTGGCGCGCGAGAATGGCGCCGCAGTGAGTGCGCTGCCTGCAAACGGTGTGGCCGTCTACCCTGGTGACGACTTATATACACCGCTTTGGGACCAACTCGCTATGAAGCGTCGCGTGTGGCGTTTTGGGCTACGAGCGGGTTTGGAAGTCTATGCGGAAGGCATTGAGGCTGAAGTCCAATCGACGCGTTGCCGAGTGGTGACCCCACTGGGGACAGCTGAACTGCATTTGCCTCTTCCCGGACTACACAACCTACGCAATGCGCTGGCGGCTATCGCCGGTACGCTCGCGGTGGGCGCGCCGTTGGCCAGCGCTATGCGCGCCTTAGCATCGTTTAGCGCCGTGGCCGGACGGATGCAACGCAAGCCTATGCGTGATGGCACGCTACTCATTGATGATACCTACAACGCCAACTCCGATTCCGTTCGCGCCGCGATTGATGTGCTGGCGCCTTTGCCCGCGCCGCGCGTTTTGGTGCTGGGCGATATGGGAGAAGTGGGGGCGGAGGGGGCCGCTATGCATCGCGAGGTAGGCCAATATGCCCGCGAGCGAGGGCTCGATGCCATGATCACCTTAGGCGAAGCCAGCCGTGGTGCTGCAGCTGCTTTTGGTGATGGCGCGTGCACCTGCGCTTCGGTGGATGAGGTGGCGGCTGTGCTACGTCGCATGCGCCCGTCCAGCGTATTGGTAAAAGGATCACGTTTTATGCGTATGGAGCGCGTAGTGCAGGCTTTTTCTATCGATCACAGCCAGACGGCGCCAGGCCAGCGAGACGAGCATGCTACTTGA

Transcript

BRAKERKRET00000023719

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8XVI2	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase OS=Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000) OX=267608 GN=murE PE=3 SV=1
A4XQR9	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase OS=Ectopseudomonas mendocina (strain ymp) OX=399739 GN=murE PE=3 SV=1
Q8PPB2	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase OS=Xanthomonas axonopodis pv. citri (strain 306) OX=190486 GN=murE PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0015600 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02875 all species →	Mur_ligase_C	Mur ligase family, glutamate ligase domain	Domain	Interproscan
PF03717 all species →	PBP_dimer	Penicillin-binding Protein dimerisation domain	Domain	Interproscan
PF00905 all species →	Transpeptidase	Penicillin binding protein transpeptidase domain	Domain	Interproscan
PF04999 all species →	FtsL	Cell division protein FtsL	Coiled-coil	Interproscan
PF08245 all species →	Mur_ligase_M	Mur ligase middle domain	Domain	Interproscan
PF01225 all species →	Mur_ligase	Mur ligase family, catalytic domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036615 all species →	Homologous_superfamily	Mur ligase, C-terminal domain superfamily	Interproscan
IPR011922 all species →	Family	Cell division protein FtsL	Interproscan
IPR036565 all species →	Homologous_superfamily	Mur-like, catalytic domain superfamily	Interproscan
IPR035911 all species →	Homologous_superfamily	MurE/MurF, N-terminal	Interproscan
IPR004101 all species →	Domain	Mur ligase, C-terminal	Interproscan
IPR012338 all species →	Homologous_superfamily	Beta-lactamase/transpeptidase-like	Interproscan
IPR005761 all species →	Family	UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase	Interproscan
IPR005311 all species →	Domain	Penicillin-binding protein, dimerisation domain	Interproscan
IPR005863 all species →	Family	UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase	Interproscan
IPR001460 all species →	Domain	Penicillin-binding protein, transpeptidase	Interproscan
IPR036138 all species →	Homologous_superfamily	Penicillin-binding protein, dimerisation domain superfamily	Interproscan
IPR013221 all species →	Domain	Mur ligase, central	Interproscan
IPR000713 all species →	Domain	Mur ligase, N-terminal catalytic domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23135 all species →	MUR LIGASE FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0009058 all species →	Biological Process	biosynthetic process	Interproscan
GO:0016881 all species →	Molecular Function	acid-amino acid ligase activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0051301 all species →	Biological Process	cell division	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008360 all species →	Biological Process	regulation of cell shape	Interproscan
GO:0008658 all species →	Molecular Function	penicillin binding	Interproscan
GO:0047480 all species →	Molecular Function	UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase activity	Interproscan
GO:0071555 all species →	Biological Process	cell wall organization	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

No KEGG orthology assignment for BRAKERKREP00000023719.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023719.1 across 29 RNA-seq samples of Hydra viridissima. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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.

29Samples

0TPM > 0

7Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole body	18	0	0.00	0.00
Whole	6	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep1	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
unannotated	1	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.