Rh4DG310500

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0014008
Physical Location & Seq
Reverse (-)
53281623 .. 53283187
1565 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG310500.1

Sequence Viewer

Length: 930 bp
ATGAGCAATGCCTACTGCACTGGATTCTGCAGCTTTCATCATAAAGCAGTGGAAATGCTGTCTTTGAGAAACATGTGTGGAAAAATATTTTTTAGGGCCTTTTCAACGTGCGCCTCACCGATGATCTCTACGAATTTTGCTCTGGTGATGCGTTCCCCATCGTCACTTGCGTTGGCTACCCGGGGTGCACTATCTGATGCTCCCCAGCGTTCAGAGGAGTGGTTTGCCTTGCGGCGAAACAAACTGACTACAAGCACCTTCAGCACTGCCCTGGGATTTTGGAAGGGAAACCGTCGACCTGAGCTCTGGCATGAGAAGGTATTTGATTCACAGAAAGAATTTGCGCAAGCTTCTAAAAATGCCATGCAATGGGGTGTGCTCAATGAAGATGTGGCCATAGAGCGGTATAAAAGCATCACAGGTCGTGAAGTGGGTACATATGGATTTGCATCCCACGGAGAGGAGCGGTTTGATTGGCTTGGTGCCTCCCCTGATGGTCTGCTTGATTGCTTTCAAGGTGGTGGTATCCTGGAAGTGAAGTGTCCTTTTAACAAGGGAAAACCGGAGCAGGGTCTGCCCTGGTCAACGATGCCTTTCTATTACATGCCTCAGGTGCAGGGTCAAATGGAGATAATGGATAGAGAGTGGGTTGATTTATATTGCTGGACACCAAATGGAAGCACAATATTCCGCGTGTGCAGAGACCGTAGTTACTGGGTCTTGATGCATGGAATTTTAAGGGAATTTTGGTGGGATAATGTGATTCCTGCTAAGGAGGCTCTTTTGCTGGGTAATGAAGAAAAGGCCAGGGAGTATATGCCAACTTCTACTCACAAAAAAACCGGCCTTGCAATCGTTAAGAGCTTGGAGTTAGCAAGAGGATCAAAGTTGCTGTGTAGGGAGATTGCTGGCCACATCGAGTTTTACTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04714 map04714
Pfam Domains
Protein Families
YqaJ

Protein Analysis

309

Amino Acids

35.3

Weight (kDa)

8.52

Isoelectric Point (pI)

53.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqaJ PF09588 73 - 212 2.9e-23 YqaJ-like viral recombinase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0014008)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67660 AT1G67660
fragaria_vesca FvH4_4g24601
malus_domestica MD13G1109900.v1.1
prunus_persica Prupe.1G235100_v2.0.a1 Prupe.1G235100_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0431611
rosa_laevigata RLG00000006904
rosa_multiflora Rmu_sc0031555.1_g000001
rosa_roxburghii Rroxscaffold_5G00373070
rosa_rugosa Rorug04G0251200 Rorug04G0251300
rosa_samantha Rh4AG308100 Rh4BG315700 Rh4CG331200 Rh4DG310500
rosa_wichuraiana Rw4G026700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 345
AccB1I GGYRCC 1 cut(s) 482
AccB7I CCANNNNNTGG 1 cut(s) 369
AccBSI CCGCTC 2 cut(s) 403, 466
AccI GTMKAC 1 cut(s) 295
AccII CGCG 1 cut(s) 693
AciI CCGC 4 cut(s) 232, 403, 466, 691
AclWI GGATC 1 cut(s) 889
AcoI YGGCCR 2 cut(s) 393, 910
AcsI RAATTY 4 cut(s) 133, 338, 732, 743
AcuI CTGAAG 1 cut(s) 244
AfaI GTAC 1 cut(s) 436
AfiI CCNNNNNNNGG 4 cut(s) 369, 402, 460, 569
AflIII ACRYGT 1 cut(s) 72
AgsI TTSAA 2 cut(s) 105, 515
AjnI CCWGG 4 cut(s) 270, 528, 578, 806
AluBI AGCT 4 cut(s) 33, 304, 350, 864
AluI AGCT 4 cut(s) 33, 304, 350, 864
Alw21I GWGCWC 3 cut(s) 190, 306, 381
Alw26I GTCTC 1 cut(s) 696
Alw44I GTGCAC 1 cut(s) 186
AlwI GGATC 1 cut(s) 889
AlwNI CAGNNNCTG 1 cut(s) 574
Ama87I CYCGRG 1 cut(s) 180
AoxI GGCC 5 cut(s) 96, 393, 804, 844, 910
ApaLI GTGCAC 1 cut(s) 186
ApeKI GCWGC 1 cut(s) 30
ApoI RAATTY 4 cut(s) 133, 338, 732, 743
AspLEI GCGC 2 cut(s) 113, 346
AspS9I GGNCC 1 cut(s) 96
AsuC2I CCSGG 2 cut(s) 181, 182
AsuHPI GGTGA 2 cut(s) 108, 157
AvaI CYCGRG 1 cut(s) 180
AxyI CCTNAGG 1 cut(s) 609
BaeGI GKGCMC 1 cut(s) 190
BalI TGGCCA 2 cut(s) 395, 912
BanI GGYRCC 1 cut(s) 482
BanII GRGCYC 1 cut(s) 306
Bbv12I GWGCWC 3 cut(s) 190, 306, 381
BbvI GCAGC 1 cut(s) 42
BccI CCATC 2 cut(s) 166, 488
BciT130I CCWGG 4 cut(s) 272, 530, 580, 808
BciVI GTATCC 1 cut(s) 536
BcnI CCSGG 2 cut(s) 181, 182
BcoDI GTCTC 1 cut(s) 696
BfaI CTAG 1 cut(s) 928
BfmI CTRYAG 1 cut(s) 28
BfuI GTATCC 1 cut(s) 536
BisI GCNGC 2 cut(s) 31, 233
BlsI GCNGC 2 cut(s) 32, 234
Bme1390I CCNGG 6 cut(s) 181, 182, 272, 530, 580, 808
BmeT110I CYCGRG 1 cut(s) 180
BmgT120I GGNCC 1 cut(s) 96
BmiI GGNNCC 1 cut(s) 484
BmrFI CCNGG 6 cut(s) 181, 182, 272, 530, 580, 808
BmrI ACTGGG 1 cut(s) 724
BmsI GCATC 6 cut(s) 138, 187, 423, 458, 579, 714
BmuI ACTGGG 1 cut(s) 724
Bpu10I CCTNAGC 2 cut(s) 300, 771
BpuMI CCSGG 2 cut(s) 181, 182
BsaBI GATNNNNATC 1 cut(s) 448
BsaI GGTCTC 1 cut(s) 696
BsaJI CCNNGG 7 cut(s) 180, 181, 270, 271, 454, 578, 807
BsaWI WCCGGW 1 cut(s) 562
Bsc4I CCNNNNNNNGG 4 cut(s) 369, 402, 460, 569
Bse118I RCCGGY 1 cut(s) 842
Bse1I ACTGG 2 cut(s) 25, 719
Bse21I CCTNAGG 1 cut(s) 609
Bse3DI GCAATG 2 cut(s) 13, 374
Bse8I GATNNNNATC 1 cut(s) 448
BseBI CCWGG 4 cut(s) 272, 530, 580, 808
BseDI CCNNGG 7 cut(s) 180, 181, 270, 271, 454, 578, 807
BseGI GGATG 1 cut(s) 449
BseJI GATNNNNATC 1 cut(s) 448
BseLI CCNNNNNNNGG 4 cut(s) 369, 402, 460, 569
BseMI GCAATG 2 cut(s) 13, 374
BseMII CTCAG 2 cut(s) 291, 623
BseNI ACTGG 2 cut(s) 25, 719
BseRI GAGGAG 2 cut(s) 230, 476
BseSI GKGCMC 1 cut(s) 190
BseXI GCAGC 1 cut(s) 42
BseYI CCCAGC 2 cut(s) 204, 787
BsgI GTGCAG 2 cut(s) 635, 718
Bsh1236I CGCG 1 cut(s) 693
BshFI GGCC 5 cut(s) 98, 395, 806, 846, 912
BshNI GGYRCC 1 cut(s) 482
BsiHKAI GWGCWC 3 cut(s) 190, 306, 381
BsiHKCI CYCGRG 1 cut(s) 180
BsiSI CCGG 3 cut(s) 181, 563, 843
BslI CCNNNNNNNGG 4 cut(s) 369, 402, 460, 569
BsmAI GTCTC 1 cut(s) 696
BsnI GGCC 5 cut(s) 98, 395, 806, 846, 912
Bso31I GGTCTC 1 cut(s) 696
BsoBI CYCGRG 1 cut(s) 180
Bsp1286I GDGCHC 3 cut(s) 190, 306, 381
Bsp143I GATC 2 cut(s) 123, 881
BspACI CCGC 4 cut(s) 232, 403, 466, 691
BspANI GGCC 5 cut(s) 98, 395, 806, 846, 912
BspCNI CTCAG 2 cut(s) 292, 622
BspFNI CGCG 1 cut(s) 693
BspLI GGNNCC 1 cut(s) 484
BspMAI CTGCAG 1 cut(s) 32
BspPI GGATC 1 cut(s) 889
BspT107I GGYRCC 1 cut(s) 482
BspTNI GGTCTC 1 cut(s) 696
BsrBI CCGCTC 2 cut(s) 403, 466
BsrDI GCAATG 2 cut(s) 13, 374
BsrFI RCCGGY 1 cut(s) 842
BsrI ACTGG 2 cut(s) 25, 719
BssAI RCCGGY 1 cut(s) 842
BssECI CCNNGG 7 cut(s) 180, 181, 270, 271, 454, 578, 807
BssMI GATC 2 cut(s) 123, 881
Bst2UI CCWGG 4 cut(s) 272, 530, 580, 808
Bst4CI ACNGT 2 cut(s) 293, 707
BstAPI GCANNNNNTGC 1 cut(s) 574
BstC8I GCNNGC 2 cut(s) 348, 910
BstDEI CTNAG 3 cut(s) 300, 609, 771
BstDSI CCRYGG 1 cut(s) 454
BstF5I GGATG 1 cut(s) 449
BstFNI CGCG 1 cut(s) 693
BstHHI GCGC 2 cut(s) 113, 346
BstKTI GATC 2 cut(s) 126, 884
BstMAI GTCTC 1 cut(s) 696
BstMBI GATC 2 cut(s) 123, 881
BstMWI GCNNNNNNNGC 4 cut(s) 261, 574, 613, 776
BstNI CCWGG 4 cut(s) 272, 530, 580, 808
BstNSI RCATGY 2 cut(s) 76, 607
BstSCI CCNGG 6 cut(s) 179, 180, 270, 528, 578, 806
BstSFI CTRYAG 1 cut(s) 28
BstSLI GKGCMC 1 cut(s) 190
BstUI CGCG 1 cut(s) 693
BstV1I GCAGC 1 cut(s) 42
Bsu36I CCTNAGG 1 cut(s) 609
BsuI GTATCC 1 cut(s) 536
BsuRI GGCC 5 cut(s) 98, 395, 806, 846, 912
BtgI CCRYGG 1 cut(s) 454
BtsCI GGATG 1 cut(s) 449
BtsI GCAGTG 2 cut(s) 54, 264
BtsIMutI CAGTG 3 cut(s) 18, 54, 264
Cac8I GCNNGC 2 cut(s) 348, 910
CaiI CAGNNNCTG 1 cut(s) 574
CfoI GCGC 2 cut(s) 113, 346
Cfr10I RCCGGY 1 cut(s) 842
Cfr13I GGNCC 1 cut(s) 96
Cfr9I CCCGGG 1 cut(s) 180
Csp6I GTAC 1 cut(s) 435
CviAII CATG 5 cut(s) 73, 311, 364, 604, 728
CviQI GTAC 1 cut(s) 435
DdeI CTNAG 3 cut(s) 300, 609, 771
DpnI GATC 2 cut(s) 125, 883
DpnII GATC 2 cut(s) 123, 881
EaeI YGGCCR 2 cut(s) 393, 910
Ecl136II GAGCTC 1 cut(s) 304
Eco24I GRGCYC 1 cut(s) 306
Eco31I GGTCTC 1 cut(s) 696
Eco53kI GAGCTC 1 cut(s) 304
Eco57I CTGAAG 1 cut(s) 244
Eco81I CCTNAGG 1 cut(s) 609
Eco88I CYCGRG 1 cut(s) 180
EcoICRI GAGCTC 1 cut(s) 304
EcoO109I RGGNCCY 1 cut(s) 96
EcoRII CCWGG 4 cut(s) 270, 528, 578, 806
EcoT22I ATGCAT 1 cut(s) 729
EcoT38I GRGCYC 1 cut(s) 306
FaeI CATG 5 cut(s) 76, 314, 367, 607, 731
FatI CATG 5 cut(s) 72, 310, 363, 603, 727
FauNDI CATATG 1 cut(s) 439
FblI GTMKAC 1 cut(s) 295
Fnu4HI GCNGC 2 cut(s) 31, 233
FokI GGATG 1 cut(s) 436
FriOI GRGCYC 1 cut(s) 306
Fsp4HI GCNGC 2 cut(s) 31, 233
FspBI CTAG 1 cut(s) 928
FspI TGCGCA 1 cut(s) 345
GlaI GCGC 2 cut(s) 112, 345
GluI GCNGC 2 cut(s) 31, 233
GsaI CCCAGC 2 cut(s) 208, 791
HaeIII GGCC 5 cut(s) 98, 395, 806, 846, 912
HapII CCGG 3 cut(s) 181, 563, 843
HhaI GCGC 2 cut(s) 113, 346
Hin1II CATG 5 cut(s) 76, 314, 367, 607, 731
Hin6I GCGC 2 cut(s) 111, 344
HinP1I GCGC 2 cut(s) 111, 344
HincII GTYRAC 2 cut(s) 296, 585
HindII GTYRAC 2 cut(s) 296, 585
HindIII AAGCTT 1 cut(s) 348
HinfI GANTC 3 cut(s) 24, 326, 763
HpaII CCGG 3 cut(s) 181, 563, 843
HphI GGTGA 2 cut(s) 108, 157
Hpy166II GTNNAC 3 cut(s) 188, 296, 585
Hpy188I TCNGA 2 cut(s) 196, 214
Hpy188III TCNNGA 2 cut(s) 425, 721
Hpy8I GTNNAC 3 cut(s) 188, 296, 585
Hpy99I CGWCG 1 cut(s) 297
HpyAV CCTTC 3 cut(s) 268, 277, 310
HpyCH4III ACNGT 2 cut(s) 293, 707
HpyCH4IV ACGT 1 cut(s) 107
HpyCH4V TGCA 9 cut(s) 18, 30, 188, 367, 449, 616, 699, 727, 851
HpyF10VI GCNNNNNNNGC 4 cut(s) 261, 574, 613, 776
HpyF3I CTNAG 3 cut(s) 300, 609, 771
HpySE526I ACGT 1 cut(s) 107
Hsp92II CATG 5 cut(s) 76, 314, 367, 607, 731
HspAI GCGC 2 cut(s) 111, 344
Kzo9I GATC 2 cut(s) 123, 881
LmnI GCTCC 3 cut(s) 205, 463, 565
Lsp1109I GCAGC 1 cut(s) 42
LweI GCATC 6 cut(s) 138, 187, 423, 458, 579, 714
MaeI CTAG 1 cut(s) 928
MaeII ACGT 1 cut(s) 107
MaeIII GTNAC 2 cut(s) 162, 710
MalI GATC 2 cut(s) 125, 883
MbiI CCGCTC 2 cut(s) 403, 466
MboI GATC 2 cut(s) 123, 881
MboII GAAGA 2 cut(s) 398, 809
MhlI GDGCHC 3 cut(s) 190, 306, 381
MlsI TGGCCA 2 cut(s) 395, 912
MluCI AATT 4 cut(s) 133, 338, 732, 743
MluNI TGGCCA 2 cut(s) 395, 912
MnlI CCTC 7 cut(s) 124, 208, 454, 496, 618, 769, 872
Mox20I TGGCCA 2 cut(s) 395, 912
Mph1103I ATGCAT 1 cut(s) 729
MscI TGGCCA 2 cut(s) 395, 912
MseI TTAA 3 cut(s) 549, 737, 858
Msp20I TGGCCA 2 cut(s) 395, 912
MspI CCGG 3 cut(s) 181, 563, 843
MspR9I CCNGG 6 cut(s) 181, 182, 272, 530, 580, 808
MvaI CCWGG 4 cut(s) 272, 530, 580, 808
MvnI CGCG 1 cut(s) 693
MwoI GCNNNNNNNGC 4 cut(s) 261, 574, 613, 776
NciI CCSGG 2 cut(s) 181, 182
NdeI CATATG 1 cut(s) 439
NdeII GATC 2 cut(s) 123, 881
NlaIII CATG 5 cut(s) 76, 314, 367, 607, 731
NlaIV GGNNCC 1 cut(s) 484
NmuCI GTSAC 1 cut(s) 162
NsbI TGCGCA 1 cut(s) 345
NsiI ATGCAT 1 cut(s) 729
NspI RCATGY 2 cut(s) 76, 607
PasI CCCWGGG 1 cut(s) 271
PciI ACATGT 1 cut(s) 72
PcsI WCGNNNNNNNCGW 1 cut(s) 167
PfeI GAWTC 3 cut(s) 24, 326, 763
PflMI CCANNNNNTGG 1 cut(s) 369
PfoI TCCNGGA 1 cut(s) 528
PkrI GCNGC 2 cut(s) 32, 234
PscI ACATGT 1 cut(s) 72
Psp124BI GAGCTC 1 cut(s) 306
Psp6I CCWGG 4 cut(s) 270, 528, 578, 806
PspFI CCCAGC 2 cut(s) 204, 787
PspGI CCWGG 4 cut(s) 270, 528, 578, 806
PspN4I GGNNCC 1 cut(s) 484
PspPI GGNCC 1 cut(s) 96
PstI CTGCAG 1 cut(s) 32
PstNI CAGNNNCTG 1 cut(s) 574
RsaI GTAC 1 cut(s) 436
RsaNI GTAC 1 cut(s) 435
SacI GAGCTC 1 cut(s) 306
SalI GTCGAC 1 cut(s) 294
SaqAI TTAA 3 cut(s) 549, 737, 858
SatI GCNGC 2 cut(s) 31, 233
Sau3AI GATC 2 cut(s) 123, 881
Sau96I GGNCC 1 cut(s) 96
ScrFI CCNGG 6 cut(s) 181, 182, 272, 530, 580, 808
SduI GDGCHC 3 cut(s) 190, 306, 381
SfaNI GCATC 6 cut(s) 138, 187, 423, 458, 579, 714
SfcI CTRYAG 1 cut(s) 28
SmaI CCCGGG 1 cut(s) 182
Sse9I AATT 4 cut(s) 133, 338, 732, 743
SsiI CCGC 4 cut(s) 232, 403, 466, 691
SspI AATATT 2 cut(s) 87, 687
SspMI CTAG 1 cut(s) 928
SstI GAGCTC 1 cut(s) 306
StyD4I CCNGG 6 cut(s) 179, 180, 270, 528, 578, 806
TaaI ACNGT 2 cut(s) 293, 707
TaiI ACGT 1 cut(s) 110
TaqI TCGA 2 cut(s) 295, 918
TasI AATT 4 cut(s) 133, 338, 732, 743
TauI GCSGC 1 cut(s) 235
TfiI GAWTC 3 cut(s) 24, 326, 763
Tru1I TTAA 3 cut(s) 549, 737, 858
Tru9I TTAA 3 cut(s) 549, 737, 858
TscAI CASTG 3 cut(s) 25, 54, 271
TseFI GTSAC 1 cut(s) 162
TseI GCWGC 1 cut(s) 30
Tsp45I GTSAC 1 cut(s) 162
TspDTI ATGAA 3 cut(s) 26, 399, 810
TspGWI ACGGA 1 cut(s) 471
TspMI CCCGGG 1 cut(s) 180
TspRI CASTG 3 cut(s) 25, 54, 271
Van91I CCANNNNNTGG 1 cut(s) 369
VneI GTGCAC 1 cut(s) 186
XapI RAATTY 4 cut(s) 133, 338, 732, 743
XceI RCATGY 2 cut(s) 76, 607
XmaI CCCGGG 1 cut(s) 180
XmiI GTMKAC 1 cut(s) 295
XspI CTAG 1 cut(s) 928
Zsp2I ATGCAT 1 cut(s) 729
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.