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ONTOLOGY REPORT - ANNOTATIONS


Term:replication fork processing
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Accession:GO:0031297 term browser browse the term
Definition:The process in which a DNA replication fork that has stalled is restored to a functional state and replication is restarted. The stalling may be due to DNA damage, DNA secondary structure, bound proteins, dNTP shortage, or other causes.
Synonyms:exact_synonym: collapsed replication fork processing;   recovery from replication fork arrest;   recovery from replication fork stalling
 narrow_synonym: recovery from replication fork arrest at rDNA locus;   recovery from replication fork stalling at rDNA locus;   replication fork processing at rDNA locus;   replication fork processing at ribosomal DNA locus
 related_synonym: replication fork restart;   replication restart
 alt_id: GO:0034065


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replication fork processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AABR07030926.1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537
G Alyref Aly/REF export factor involved_in ISO (PMID:22144908) RGD PMID:22144908 NCBI chr10:105,871,306...105,875,076
Ensembl chr10:105,871,306...105,875,069
JBrowse link
G Atr ATR serine/threonine kinase involved_in ISO (MGI:6467697|PMID:29125140) RGD PMID:29125140 MGI:6467697 NCBI chr 8:96,426,704...96,524,152
Ensembl chr 8:96,426,724...96,524,136
JBrowse link
G Atrx ATRX, chromatin remodeler involved_in IEA
ISO
ISS
GO_REF:0000107
(MGI:5568153|PMID:24651726)
GO_REF:0000024
Ensembl
RGD
UniProt
PMID:24651726 GO_REF:0000024 GO_REF:0000107 MGI:5568153 NCBI chr  X:70,850,981...70,997,330
Ensembl chr  X:70,850,981...70,997,330
JBrowse link
G Blm BLM RecQ like helicase involved_in ISO (PMID:17115688)
(MGI:6467697|PMID:29125140)
RGD PMID:17115688 PMID:29125140 MGI:6467697 NCBI chr 1:134,409,832...134,496,073
Ensembl chr 1:134,409,857...134,484,312
JBrowse link
G Bod1l1 biorientation of chromosomes in cell division 1-like 1 involved_in ISO (PMID:26166705) RGD PMID:26166705 NCBI chr14:69,108,483...69,163,255
Ensembl chr14:69,108,491...69,162,490
JBrowse link
G Cdk9 cyclin-dependent kinase 9 involved_in ISO (PMID:20930849) RGD PMID:20930849 NCBI chr 3:15,996,467...16,001,315
Ensembl chr 3:15,996,468...16,002,410
JBrowse link
G Cenps centromere protein S involved_in ISO (PMID:20347428) RGD PMID:20347428 NCBI chr 5:159,563,917...159,573,534 JBrowse link
G Cenpx centromere protein X involved_in ISO (PMID:20347428) RGD PMID:20347428 NCBI chr10:105,991,469...105,994,411 JBrowse link
G Da2-19 uncharacterized LOC302729 involved_in ISS GO_REF:0000024 UniProt GO_REF:0000024 NCBI chr  X:44,820,693...44,837,935
Ensembl chr  X:44,820,820...44,837,934
JBrowse link
G Ddx11 DEAD/H-box helicase 11 involved_in ISO (PMID:26503245) RGD PMID:26503245 NCBI chr 9:105,833,234...105,862,844
Ensembl chr 9:105,833,504...105,862,550
JBrowse link
G Eme1 essential meiotic structure-specific endonuclease 1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr10:79,586,736...79,595,515
Ensembl chr10:79,586,729...79,595,435
JBrowse link
G Eme2 essential meiotic structure-specific endonuclease subunit 2 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr10:13,913,216...13,915,991
Ensembl chr10:13,913,221...13,915,968
JBrowse link
G Etaa1 ETAA1 activator of ATR kinase involved_in ISO
IBA
(PMID:27723717), (PMID:27723720)
PMID:21873635
RGD PMID:27723717 PMID:27723720 PMID:21873635 RGD:13792537 Ensembl chr14:92,299,553...92,314,104 JBrowse link
G Exd2 exonuclease 3'-5' domain containing 2 involved_in ISO (PMID:31255466) RGD PMID:31255466 NCBI chr 6:100,116,867...100,150,452
Ensembl chr 6:100,116,867...100,150,442
JBrowse link
G Fam111a FAM111 trypsin like peptidase A involved_in ISO (PMID:32165630) RGD PMID:32165630 NCBI chr 1:209,640,865...209,656,551
Ensembl chr 1:209,640,953...209,656,547
JBrowse link
G Fancm FA complementation group M involved_in ISO (PMID:20347428) RGD PMID:20347428 NCBI chr 6:83,126,903...83,180,455
Ensembl chr 6:83,127,093...83,180,028
JBrowse link
G Fbh1 F-box DNA helicase 1 involved_in ISO
IBA
(PMID:25585578)
(MGI:5566975|PMID:24108124)
PMID:21873635
RGD PMID:24108124 PMID:25585578 PMID:21873635 MGI:5566975, RGD:13792537 NCBI chr17:66,749,506...66,787,590
Ensembl chr17:66,749,534...66,787,590
JBrowse link
G Gen1 GEN1 Holliday junction 5' flap endonuclease involved_in ISO (PMID:26578604) RGD PMID:26578604 NCBI chr 6:33,947,599...33,978,461
Ensembl chr 6:33,948,206...33,978,401
JBrowse link
G Khdc3 KH domain containing 3, subcortical maternal complex member involved_in ISS
ISO
GO_REF:0000024
(MGI:6467697|PMID:29125140)
UniProt
RGD
PMID:29125140 GO_REF:0000024 MGI:6467697 NCBI chr 8:73,842,344...73,844,248
Ensembl chr 8:73,842,344...73,844,248
JBrowse link
G Mms22l MMS22-like, DNA repair protein involved_in ISO
IBA
(PMID:21055983), (PMID:21055984), (PMID:21055985)
PMID:21873635
RGD PMID:21055983 PMID:21055984 PMID:21055985 PMID:21873635 RGD:13792537 NCBI chr 5:38,197,707...38,313,745
Ensembl chr 5:38,197,779...38,313,745
JBrowse link
G Nucks1 nuclear casein kinase and cyclin-dependent kinase substrate 1 involved_in ISO (PMID:26323318) RGD PMID:26323318 NCBI chr13:43,345,091...43,374,316
Ensembl chr13:43,345,115...43,370,229
JBrowse link
G Ooep oocyte expressed protein involved_in ISO (MGI:6467697|PMID:29125140) RGD PMID:29125140 MGI:6467697 NCBI chr 8:79,223,388...79,224,554
Ensembl chr 8:79,223,375...79,224,541
JBrowse link
G Pcna proliferating cell nuclear antigen involved_in ISO UniProtKB:Q0VGM9 (MGI:5522574|PMID:24115439) RGD PMID:24115439 MGI:5522574 NCBI chr 3:119,499,039...119,502,911
Ensembl chr 3:119,498,810...119,502,995
JBrowse link
G Primpol primase and DNA directed polymerase involved_in IBA
ISO
PMID:21873635
(PMID:24240614), (PMID:24267451), (PMID:28534480)
RGD PMID:24240614 PMID:24267451 PMID:28534480 PMID:21873635 RGD:13792537 NCBI chr16:45,681,252...45,715,758
Ensembl chr16:45,681,326...45,715,565
JBrowse link
G Rad51 RAD51 recombinase involved_in
acts_upstream_of_or_within
ISO (PMID:22778135), (PMID:25585578)
MGI:5444025 (MGI:5442243|PMID:22778135)
RGD PMID:22778135 PMID:25585578 MGI:5442243 NCBI chr 3:106,099,753...106,125,038
Ensembl chr 3:106,100,381...106,125,035
JBrowse link
G Rfwd3 ring finger and WD repeat domain 3 involved_in ISO (PMID:26474068) RGD PMID:26474068 NCBI chr19:39,235,883...39,268,536
Ensembl chr19:39,236,787...39,268,479
JBrowse link
G Rtel1 regulator of telomere elongation helicase 1 involved_in ISO (MGI:5522574|PMID:24115439) RGD PMID:24115439 MGI:5522574 NCBI chr 3:168,427,247...168,465,349
Ensembl chr 3:168,419,579...168,465,348
JBrowse link
G Setmar SET domain and mariner transposase fusion gene involved_in ISO (PMID:20457750), (PMID:22231448), (PMID:24573677) RGD PMID:20457750 PMID:22231448 PMID:24573677 NCBI chr 4:141,046,058...141,058,183
Ensembl chr 4:141,046,069...141,058,197
JBrowse link
G Smarcal1 Swi/SNF related matrix associated, actin dependent regulator of chromatin, subfamily a-like 1 involved_in ISS
IBA
ISO
GO_REF:0000024
PMID:21873635
(PMID:19793862)
UniProt
RGD
PMID:19793862 PMID:21873635 GO_REF:0000024, RGD:13792537 NCBI chr 9:74,239,718...74,286,156
Ensembl chr 9:74,240,241...74,286,146
JBrowse link
G Thoc1 THO complex 1 involved_in ISO (PMID:22144908) RGD PMID:22144908 NCBI chr18:983,606...1,020,379
Ensembl chr18:983,824...1,019,114
JBrowse link
G Tonsl tonsoku-like, DNA repair protein involved_in ISS
ISO
GO_REF:0000024
(PMID:21055983), (PMID:21055984), (PMID:21055985)
UniProt
RGD
PMID:21055983 PMID:21055984 PMID:21055985 GO_REF:0000024 NCBI chr 7:108,345,704...108,360,792
Ensembl chr 7:108,346,047...108,360,750
JBrowse link
G Traip TRAF-interacting protein involved_in ISO (PMID:26711499), (PMID:27462463) RGD PMID:26711499 PMID:27462463 NCBI chr 8:108,641,860...108,661,640
Ensembl chr 8:108,641,852...108,661,638
JBrowse link
G Wrn WRN RecQ like helicase involved_in ISO (PMID:12882351), (PMID:17115688) RGD PMID:12882351 PMID:17115688 NCBI chr16:58,763,517...58,898,604
Ensembl chr16:58,763,504...58,895,450
JBrowse link
G Zranb3 zinc finger RANBP2-type containing 3 involved_in ISO
IBA
(PMID:22704558), (PMID:22705370)
PMID:21873635
RGD PMID:22704558 PMID:22705370 PMID:21873635 RGD:13792537 NCBI chr13:39,440,653...39,595,782
Ensembl chr13:39,440,889...39,595,670
JBrowse link
DNA strand resection involved in replication fork processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Mre11 MRE11 homolog, double strand break repair nuclease involved_in ISS
IEA
ISO
GO_REF:0000024
GO_REF:0000107
(PMID:29670289)
UniProt
Ensembl
RGD
PMID:29670289 GO_REF:0000024 GO_REF:0000107 NCBI chr 8:11,618,876...11,680,451
Ensembl chr 8:11,632,354...11,678,279
JBrowse link
G Samhd1 SAM and HD domain containing deoxynucleoside triphosphate triphosphohydrolase 1 involved_in ISO (PMID:28834754), (PMID:29670289) RGD PMID:28834754 PMID:29670289 NCBI chr 3:145,761,549...145,794,420
Ensembl chr 3:145,761,558...145,794,386
JBrowse link
mitotic recombination-dependent replication fork processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Brca2 BRCA2, DNA repair associated involved_in IEA
ISO
GO_REF:0000107
(PMID:21076401)
Ensembl
RGD
PMID:21076401 GO_REF:0000107 NCBI chr12:59,492...103,789
Ensembl chr12:59,819...100,567
JBrowse link
G Rad51 RAD51 recombinase involved_in IEA GO_REF:0000002 InterPro GO_REF:0000002 NCBI chr 3:106,099,753...106,125,038
Ensembl chr 3:106,100,381...106,125,035
JBrowse link
regulation of DNA strand resection involved in replication fork processing term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Zfp365 zinc finger protein 365 involved_in ISS
IBA
ISO
GO_REF:0000024
PMID:21873635
(PMID:23966166)
UniProt
RGD
PMID:23966166 PMID:21873635 GO_REF:0000024, RGD:13792537 NCBI chr20:20,666,240...20,689,734
Ensembl chr20:20,666,240...20,691,238
JBrowse link
replication fork reversal term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G AABR07013288.4 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537
G Dna2 DNA replication helicase/nuclease 2 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr20:25,661,652...25,690,598 JBrowse link
G Fancm FA complementation group M involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 6:83,126,903...83,180,455
Ensembl chr 6:83,127,093...83,180,028
JBrowse link
G Zgrf1 zinc finger, GRF-type containing 1 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr 2:216,012,911...216,075,608
Ensembl chr 2:216,013,005...216,074,750
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19492
    metabolic process 11795
      cellular metabolic process 10721
        cellular macromolecule metabolic process 8206
          DNA metabolic process 883
            DNA-dependent DNA replication maintenance of fidelity 51
              replication fork processing 42
                DNA strand resection involved in replication fork processing + 3
                mitotic recombination-dependent replication fork processing + 2
                negative regulation of mitotic recombination involved in replication fork processing 0
                replication fork reversal 4
                stalled replication fork localization to nuclear periphery 0
Path 2
Term Annotations click to browse term
  biological_process 19492
    metabolic process 11795
      organic substance metabolic process 11335
        organic substance biosynthetic process 5972
          macromolecule biosynthetic process 5033
            cellular macromolecule biosynthetic process 4992
              DNA replication 253
                DNA-dependent DNA replication 151
                  DNA-dependent DNA replication maintenance of fidelity 51
                    replication fork processing 42
                      DNA strand resection involved in replication fork processing + 3
                      mitotic recombination-dependent replication fork processing + 2
                      negative regulation of mitotic recombination involved in replication fork processing 0
                      replication fork reversal 4
                      stalled replication fork localization to nuclear periphery 0
paths to the root