Gene detail

Detailed information of g4309.t2 in Acropora digitifera

Genomic Location: chr2Alt:24553480...24571242
NR annotation: XP_015764197.1, PREDICTED: Bloom syndrome protein homolog isoform X3 [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g4309.t2

ATGCTAAAAGAGCGAGGAGAAATACCAAATCATTGTTATAGAAACGTTCTGAAGCTTTCAAGTTGCAGTAAACAGCCCCACACATCTGCCCAAAATAATGCCCGTTCCACCCAATGTGTTTTCAAAAGACACAACACAACTCTTTCTAGGAGTCAGTATCAAGAAAACAAGCACATTTCACCTTTATTGGTAAAAAACAAGAGACTTTCAAAAGGAAATAATCGTTCAGAGGTTATTGATTCAGTTAATGAAGTTTCTGTATTGTCAACAAATGTGGGAGATTGCATAAGCAAGGATTCTCAAATGCTGACCGATTTACTGGACTTCAGTGATGAGGAATGGGCAGACAATTTTGAAAGTGACACTACGCAAGCTTCACCATTAGCCACAAGCGTTGTTTCTTCTGGTGGCATTCTCAAGAAAGCAGAGTCATCACCTTTTACCCAAAACAGAGATGATGGCTTTTTACTTGAACGGAAACCTATCAGTACTACCATTCAAACCAATACTGTTAACTCATCCATCACTTCCCCGAAAAATAATTATGTGCCCAACAATGGCAATGACAATGATTTGAAGCAGAGGGATATGCCATATCACAGAGAAATGTGGAAAATATTGAAAAATGTTTACGGTATCCGGGCTTTGAGGACCAATCAGTTGGAAGCCATAAATGCTGCCATGATGAAGCTTGACTGTTTCATTTTAATGCCAACTGGAGGTGGAAAGAGCCTTTGTTTTCAGTTGACTGGTTTAATGGGTACCGGTGTCACATTTGTCATTTCTCCCTTGAGATCTCTTATTCAAGATCAAGTACAGAGGCTCCAGTCACTAAAGTTGCCTGCTGTCCACTTACTTGGGGATACAGGTCCTGGGTCAACAAAACATCTTAATGCTGTCTATCAGGACCTCTCCCTAAGAAATCCAACGGTCAAGCTTGTGTATGTAACGCCAGAGAAACTTTCAGCCAGTGATAAGCTTATTGCTGTTATGAACAGCCTTTATAGTCGTGGACGTCTTGAAAGGATTGTAATTGACGAAGCACATTGCGTTAGCCAATGGGGCCACGACTTTCGTCCGGACTACAAAAAGCTGTCATCATTAAGAAGCAAGTTCCCTGAGGTTCCTTTTATGGCTCTCACTGCAACTGCTACACCTCGTGTGCGAAAAGATGTGCTACATCAGCTGAAGATGAAAGAACCAAAATGGTTTACACAAAGCTTTAATCGACCTAATTTACGATTCATTGTCAAACCGAAGAAGAAAGTTATGGAAGAAATCCTTCACTATGTCAAGACAAAGCATCCAATTTCGTCTGGAATAATTTATTGCTTATCCAGAAACGATTGTGAGCGGGTTGCAGAATGCTTAAATGAAGCTGATGTTAGTGCAATTGCATATCATGCTGGCCTATCAGATAACCAAAGAACGAAGTGTCAAGAAGCATGGATAAAGGGTCAATATAAGGTGGTATGTGCTACCATTGCCTTCGGCATGGGAATTGATAAAGGTACCGTGAGGTATGTGATTCATCACTCAATGCCCAAATCATTGGAGGGGTATTACCAGGAGTGTGGAAGGGCAGGACGCGATGGTGAACCAGCTGAATGTATTCTGTTTTATTTGTACGGTGATACAAGTAGAATAAGGAGGATGATCCAAAACAGCCCAGAAAGAAGTGCAGACTCCAAGCAGGTGGACATGGATAACCTTTATCGCGTGGTGCAGTATTGTGAAAATGTAACAGAATGCAGGAGGGTACAATTGTTGCATTACTTTGGTGAGACGGACTTTGATCCATCCCAGTGCCGCAGTAGGCCTGACACAGTATGCGATACATGTGCTAGTTCTGGTTCATTTGTCTACAAAGACATCACATCTGAGGCTAAGGCCTTTGTGGAGAGTGTGAACTCTATCGTTCATGGTGGGAGTAACAACTGGAGAAAGCCTATCAGGAGTTATACATTGAATCATTTTATTGACATTTTCAAGGGGTCTGAAAGCTCTCGAGTTACGTCAGAAGGCCATGATGAAACTCCTTTGTATGGTTTGGGAAGAACTTACCACAGAAATGATGCGGAAAGACTTGGCCATCTTCTAGTTTTAAAACATGTTCTGGAGGAACATATGGTTTTTGGAAACCATGACAATGTCATTAGCTATGTTAAACTGGGACCTAAAGCTTTGGATATTCTTCATTCCCGAGTCAAGCTTCCACAGTTTGCAGTGAGAGAAAAAAGCTGCGGGAAGTCTAAAGGCAAGGTTGATGAAAACTCTACGATCTTGGGAGGCACGACGGACACAGGTAGCCTCAGCGAGGGGTGCGAAAGCGAGTCGCATTATTGGCAGCACGACCAAAATTCAGGATTTATGCGTAAAAGGAAAAGGAAGTCAACAGGACCAACGACAAGGTTCGGCTGTACTTCAAGCAGCAGCAGCGCGAGTATTGGTGGTCCTGTGCAAAAGGTGAGAAAAACAGTGCAGAAGTACCCTCACAATAGGTTGCAACAAACAGGAACGAAGCTTTGTGGATTAGGAAACAAAATCGGTCAAAGAGAAAGTCTCGTTCTCATGGCACCACCACGTCCTAAAAGAAGACTTTGA

Transcript

chr2Alt.g4309.t2

ATGGTTGATTGTGTTCAGCAGCTGGGAAAAGAGTACGATGTCAGGTTGAGCATCTTGAAAACATGCTAAAAGAGCGAGGAGAAATACCAAATCATTGTTATAGAAACGTTCTGAAGCTTTCAAGTTGCAGTAAACAGCCCCACACATCTGCCCAAAATAATGCCCGTTCCACCCAATGTGTTTTCAAAAGACACAACACAACTCTTTCTAGGAGTCAGTATCAAGAAAACAAGCACATTTCACCTTTATTGGTAAAAAACAAGAGACTTTCAAAAGGAAATAATCGTTCAGAGGTTATTGATTCAGTTAATGAAGTTTCTGTATTGTCAACAAATGTGGGAGATTGCATAAGCAAGGATTCTCAAATGCTGACCGATTTACTGGACTTCAGTGATGAGGAATGGGCAGACAATTTTGAAAGTGACACTACGCAAGCTTCACCATTAGCCACAAGCGTTGTTTCTTCTGGTGGCATTCTCAAGAAAGCAGAGTCATCACCTTTTACCCAAAACAGAGATGATGGCTTTTTACTTGAACGGAAACCTATCAGTACTACCATTCAAACCAATACTGTTAACTCATCCATCACTTCCCCGAAAAATAATTATGTGCCCAACAATGGCAATGACAATGATTTGAAGCAGAGGGATATGCCATATCACAGAGAAATGTGGAAAATATTGAAAAATGTTTACGGTATCCGGGCTTTGAGGACCAATCAGTTGGAAGCCATAAATGCTGCCATGATGAAGCTTGACTGTTTCATTTTAATGCCAACTGGAGGTGGAAAGAGCCTTTGTTTTCAGTTGACTGGTTTAATGGGTACCGGTGTCACATTTGTCATTTCTCCCTTGAGATCTCTTATTCAAGATCAAGTACAGAGGCTCCAGTCACTAAAGTTGCCTGCTGTCCACTTACTTGGGGATACAGGTCCTGGGTCAACAAAACATCTTAATGCTGTCTATCAGGACCTCTCCCTAAGAAATCCAACGGTCAAGCTTGTGTATGTAACGCCAGAGAAACTTTCAGCCAGTGATAAGCTTATTGCTGTTATGAACAGCCTTTATAGTCGTGGACGTCTTGAAAGGATTGTAATTGACGAAGCACATTGCGTTAGCCAATGGGGCCACGACTTTCGTCCGGACTACAAAAAGCTGTCATCATTAAGAAGCAAGTTCCCTGAGGTTCCTTTTATGGCTCTCACTGCAACTGCTACACCTCGTGTGCGAAAAGATGTGCTACATCAGCTGAAGATGAAAGAACCAAAATGGTTTACACAAAGCTTTAATCGACCTAATTTACGATTCATTGTCAAACCGAAGAAGAAAGTTATGGAAGAAATCCTTCACTATGTCAAGACAAAGCATCCAATTTCGTCTGGAATAATTTATTGCTTATCCAGAAACGATTGTGAGCGGGTTGCAGAATGCTTAAATGAAGCTGATGTTAGTGCAATTGCATATCATGCTGGCCTATCAGATAACCAAAGAACGAAGTGTCAAGAAGCATGGATAAAGGGTCAATATAAGGTGGTATGTGCTACCATTGCCTTCGGCATGGGAATTGATAAAGGTACCGTGAGGTATGTGATTCATCACTCAATGCCCAAATCATTGGAGGGGTATTACCAGGAGTGTGGAAGGGCAGGACGCGATGGTGAACCAGCTGAATGTATTCTGTTTTATTTGTACGGTGATACAAGTAGAATAAGGAGGATGATCCAAAACAGCCCAGAAAGAAGTGCAGACTCCAAGCAGGTGGACATGGATAACCTTTATCGCGTGGTGCAGTATTGTGAAAATGTAACAGAATGCAGGAGGGTACAATTGTTGCATTACTTTGGTGAGACGGACTTTGATCCATCCCAGTGCCGCAGTAGGCCTGACACAGTATGCGATACATGTGCTAGTTCTGGTTCATTTGTCTACAAAGACATCACATCTGAGGCTAAGGCCTTTGTGGAGAGTGTGAACTCTATCGTTCATGGTGGGAGTAACAACTGGAGAAAGCCTATCAGGAGTTATACATTGAATCATTTTATTGACATTTTCAAGGGGTCTGAAAGCTCTCGAGTTACGTCAGAAGGCCATGATGAAACTCCTTTGTATGGTTTGGGAAGAACTTACCACAGAAATGATGCGGAAAGACTTGGCCATCTTCTAGTTTTAAAACATGTTCTGGAGGAACATATGGTTTTTGGAAACCATGACAATGTCATTAGCTATGTTAAACTGGGACCTAAAGCTTTGGATATTCTTCATTCCCGAGTCAAGCTTCCACAGTTTGCAGTGAGAGAAAAAAGCTGCGGGAAGTCTAAAGGCAAGGTTGATGAAAACTCTACGATCTTGGGAGGCACGACGGACACAGGTAGCCTCAGCGAGGGGTGCGAAAGCGAGTCGCATTATTGGCAGCACGACCAAAATTCAGGATTTATGCGTAAAAGGAAAAGGAAGTCAACAGGACCAACGACAAGGTTCGGCTGTACTTCAAGCAGCAGCAGCGCGAGTATTGGTGGTCCTGTGCAAAAGGTGAGAAAAACAGTGCAGAAGTACCCTCACAATAGGTTGCAACAAACAGGAACGAAGCTTTGTGGATTAGGAAACAAAATCGGTCAAAGAGAAAGTCTCGTTCTCATGGCACCACCACGTCCTAAAAGAAGACTTTGAACTGTCTTCATGACGTACCACGTCGCCTTGAAGTGGACCGCGATTAATTAACTTTCTGCACTGGGAATTAGGGGTTTTCTGCAAGTATGCAATAGAAAGATTTTATTTCGTTCTGTATTTTTTTTTACCCTAAACAATTAATTGAGATTTCAAAATAAAATTATGCTTTTGTG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9DEY9	RecQ-like DNA helicase BLM OS=Xenopus laevis OX=8355 GN=blm PE=2 SV=1
O88700	RecQ-like DNA helicase BLM OS=Mus musculus OX=10090 GN=Blm PE=1 SV=1
P54132	RecQ-like DNA helicase BLM OS=Homo sapiens OX=9606 GN=BLM PE=1 SV=1

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00270 all species →	DEAD	DEAD/DEAH box helicase	Domain	Interproscan
PF09382 all species →	RQC	RQC domain	Domain	Interproscan
PF16124 all species →	RecQ_Zn_bind	RecQ zinc-binding	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR011545 all species →	Domain	DEAD/DEAH box helicase domain	Interproscan
IPR004589 all species →	Family	DNA helicase, ATP-dependent, RecQ type	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR018982 all species →	Domain	RQC domain	Interproscan
IPR032284 all species →	Domain	ATP-dependent DNA helicase RecQ, zinc-binding domain	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR036390 all species →	Homologous_superfamily	Winged helix DNA-binding domain superfamily	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13710 all species →	DNA HELICASE RECQ FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0004386 all species →	Molecular Function	helicase activity	Interproscan
GO:0006310 all species →	Biological Process	DNA recombination	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0043138 all species →	Molecular Function	3'-5' DNA helicase activity	Interproscan
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005694 all species →	Cellular Component	chromosome	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006268 all species →	Biological Process	DNA unwinding involved in DNA replication	Interproscan
GO:0009378 all species →	Molecular Function	four-way junction helicase activity	Interproscan
GO:0032508 all species →	Biological Process	DNA duplex unwinding	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
K10901	BLM, RECQL3, SGS1; bloom syndrome protein	EC:5.6.2.4	DNA repair and recombination proteins	ko03400	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g4309.t2 across 39 RNA-seq samples of Acropora digitifera. 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.

39Samples

0TPM > 0

1Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	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
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 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.