Rroxscaffold_1G00030830

DNA ligase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014814
Physical Location & Seq
Forward (+)
41437550 .. 41453564
16015 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00030830.1

Sequence Viewer

Length: 861 bp
ATGCTCGAAAAAAATGGCGGTGCTGCGCGTGTTTTGGGTTATGGAGACAGTGGGGTGTTTACAGAGGATGAATGTGAGAGTGATGTGCATGTTGTTGGGTGGAATGTGTTGGGTGAGACTTGGCCATATTTCAGGCCAAATTTTGTAAAAATGGAGAAGAGTTTCGATCTCCCGCCGATCTCCTCCTCTTTGTTCCATGGATGGTTGACCTCCGTTGTGCCGAATGAGTGTACAGTGGGTAGTTGTTGGCCACCGACAAGGACTGCAGTCTCTCAAGCAAGACCGGTCCCGCTTTCTATCTCATCTCTCTCTTTTTCTTCTTCTTCTTCTTTCTCCTCCTCCTGCTATAGCTTCCATTCGCAACAATGGCAGCGTGTTGCTGCTGTAACACCACGGACCTCTCTCTTTCTTAGTTCGGCAGTCCGGTGCAGCTATCCGGTTCGGCAATCCGGTGCGGTGTCCGGTCGGCAATCCGGTTCAGCGATCCGGTCGGCAATCCAGTCGCGCTGTCCGATTCGGCAATCCCGGTGCGGCTGTCCGGTCGGCAATCCGGTTCAGCAGTCCGGTCGGCGGTCCGGTTCAGCGGTCCGGTTCGGCGATACCGGTTCGAGCCCCTCCCCGCCTCTCTCACTCCCGACCGGCGCCGTTCGGTTCTTGTTCAAAGTTTCCGTTCCCGCCTCCAATGGAGACTTCCGCAGGTATGTTCACACCGGTGATTTTCGGTTTTCCGCTTCGATGAAGCTAGACCCTTTCTCTCGTAAATTTGTTGGTTCGTACGCCGTTTTCTTGGATACAACTTATTGCAATCCCAAATTCGTGTTTCCTTCACAAGAAGAATCGTTGATTACATTTCTAGCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000012 GO:0000726 GO:0002237 GO:0003006 GO:0003674 GO:0003824 GO:0003909 GO:0003910 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006266 GO:0006271 GO:0006273 GO:0006281 GO:0006302 GO:0006303 GO:0006304 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006979 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009266 GO:0009314 GO:0009409 GO:0009411 GO:0009416 GO:0009605 GO:0009607 GO:0009617 GO:0009628 GO:0009791 GO:0009845 GO:0009987 GO:0010033 GO:0010154 GO:0010225 GO:0010243 GO:0015074 GO:0016070 GO:0016874 GO:0016886 GO:0022414 GO:0022616 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0033554 GO:0034641 GO:0034645 GO:0035510 GO:0042221 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0044728 GO:0046483 GO:0046677 GO:0048316 GO:0048518 GO:0048522 GO:0048583 GO:0048584 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051103 GO:0051704 GO:0051707 GO:0051716 GO:0061458 GO:0065007 GO:0070013 GO:0070988 GO:0071704 GO:0080111 GO:0090304 GO:0090351 GO:0140097 GO:1901360 GO:1901576 GO:1901652 GO:1901698 GO:1901700 GO:1904975 GO:2000683 GO:2000685
KEGG Pathways
Metabolic & Signaling
ko03030 ko03410 ko03420 ko03430 map03030 map03410 map03420 map03430
Pfam Domains
Protein Families
DNA_ligase_A_C DNA_ligase_A_M DNA_ligase_A_N DRMBL

Protein Analysis

286

Amino Acids

31.13

Weight (kDa)

9.37

Isoelectric Point (pI)

64.0

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 687
AccB1I GGYRCC 1 cut(s) 641
AccII CGCG 2 cut(s) 28, 505
AclWI GGATC 1 cut(s) 478
AcoI YGGCCR 2 cut(s) 122, 248
AcsI RAATTY 3 cut(s) 139, 761, 812
AcyI GRCGYC 1 cut(s) 642
AfaI GTAC 2 cut(s) 232, 776
AfiI CCNNNNNNNGG 1 cut(s) 570
AgeI ACCGGT 3 cut(s) 283, 602, 710
AgsI TTSAA 1 cut(s) 661
AjuI GAANNNNNNNTTGG 2 cut(s) 674, 706
AleI CACNNNNGTG 1 cut(s) 711
AluBI AGCT 4 cut(s) 351, 432, 742, 857
AluI AGCT 4 cut(s) 351, 432, 742, 857
Alw26I GTCTC 4 cut(s) 39, 110, 274, 681
AlwI GGATC 1 cut(s) 478
AoxI GGCC 3 cut(s) 122, 134, 248
ApeKI GCWGC 4 cut(s) 23, 370, 380, 429
ApoI RAATTY 3 cut(s) 139, 761, 812
AsiGI ACCGGT 3 cut(s) 283, 602, 710
Asp700I GAANNNNTTC 1 cut(s) 161
AspLEI GCGC 3 cut(s) 28, 507, 644
AspS9I GGNCC 4 cut(s) 286, 396, 573, 586
AsuC2I CCSGG 1 cut(s) 526
AsuHPI GGTGA 2 cut(s) 125, 725
AvaII GGWCC 4 cut(s) 286, 396, 573, 586
BalI TGGCCA 2 cut(s) 124, 250
BanI GGYRCC 1 cut(s) 641
BanII GRGCYC 1 cut(s) 614
BbvI GCAGC 4 cut(s) 10, 367, 382, 441
BccI CCATC 1 cut(s) 195
BceAI ACGGC 2 cut(s) 629, 764
BcgI CGANNNNNNTGC 4 cut(s) 483, 517, 548, 582
BciVI GTATCC 1 cut(s) 784
BcnI CCSGG 1 cut(s) 526
BcoDI GTCTC 4 cut(s) 39, 110, 274, 681
BfaI CTAG 2 cut(s) 743, 854
BfmI CTRYAG 2 cut(s) 264, 346
BfoI RGCGCY 1 cut(s) 645
BfuAI ACCTGC 1 cut(s) 687
BfuI GTATCC 1 cut(s) 784
BisI GCNGC 5 cut(s) 24, 371, 381, 430, 532
BlsI GCNGC 5 cut(s) 25, 372, 382, 431, 533
Bme1390I CCNGG 1 cut(s) 526
Bme18I GGWCC 4 cut(s) 286, 396, 573, 586
BmgT120I GGNCC 4 cut(s) 286, 396, 573, 586
BmiI GGNNCC 2 cut(s) 288, 643
BmrFI CCNGG 1 cut(s) 526
BoxI GACNNNNGTC 1 cut(s) 266
BpuEI CTTGAG 1 cut(s) 258
BpuMI CCSGG 1 cut(s) 526
BsaHI GRCGYC 1 cut(s) 642
BsaJI CCNNGG 2 cut(s) 196, 392
Bsc4I CCNNNNNNNGG 1 cut(s) 570
Bse118I RCCGGY 4 cut(s) 283, 602, 638, 710
Bse1I ACTGG 1 cut(s) 499
BseDI CCNNGG 2 cut(s) 196, 392
BseGI GGATG 2 cut(s) 73, 206
BseLI CCNNNNNNNGG 1 cut(s) 570
BseNI ACTGG 1 cut(s) 499
BseRI GAGGAG 4 cut(s) 172, 175, 325, 328
BseXI GCAGC 4 cut(s) 10, 367, 382, 441
BsgI GTGCAG 1 cut(s) 448
Bsh1236I CGCG 2 cut(s) 28, 505
Bsh1285I CGRYCG 5 cut(s) 466, 491, 543, 568, 639
BshFI GGCC 3 cut(s) 124, 136, 250
BshNI GGYRCC 1 cut(s) 641
BshTI ACCGGT 3 cut(s) 283, 602, 710
BsiEI CGRYCG 5 cut(s) 466, 491, 543, 568, 639
BsiWI CGTACG 1 cut(s) 774
BslFI GGGAC 1 cut(s) 272
BslI CCNNNNNNNGG 1 cut(s) 570
BsmAI GTCTC 4 cut(s) 39, 110, 274, 681
BsmFI GGGAC 1 cut(s) 272
BsnI GGCC 3 cut(s) 124, 136, 250
Bsp1286I GDGCHC 1 cut(s) 614
Bsp1407I TGTACA 1 cut(s) 230
Bsp143I GATC 3 cut(s) 166, 177, 483
Bsp19I CCATGG 1 cut(s) 196
BspANI GGCC 3 cut(s) 124, 136, 250
BspFNI CGCG 2 cut(s) 28, 505
BspLI GGNNCC 2 cut(s) 288, 643
BspMAI CTGCAG 1 cut(s) 268
BspMI ACCTGC 1 cut(s) 687
BspPI GGATC 1 cut(s) 478
BspT107I GGYRCC 1 cut(s) 641
BsrFI RCCGGY 4 cut(s) 283, 602, 638, 710
BsrGI TGTACA 1 cut(s) 230
BsrI ACTGG 1 cut(s) 499
BssAI RCCGGY 4 cut(s) 283, 602, 638, 710
BssECI CCNNGG 2 cut(s) 196, 392
BssMI GATC 3 cut(s) 166, 177, 483
BssNI GRCGYC 1 cut(s) 642
BssT1I CCWWGG 1 cut(s) 196
Bst4CI ACNGT 2 cut(s) 50, 235
Bst6I CTCTTC 1 cut(s) 152
BstACI GRCGYC 1 cut(s) 642
BstAUI TGTACA 1 cut(s) 230
BstDEI CTNAG 1 cut(s) 410
BstDSI CCRYGG 2 cut(s) 196, 392
BstF5I GGATG 2 cut(s) 73, 206
BstFNI CGCG 2 cut(s) 28, 505
BstH2I RGCGCY 1 cut(s) 645
BstHHI GCGC 3 cut(s) 28, 507, 644
BstKTI GATC 3 cut(s) 169, 180, 486
BstMAI GTCTC 4 cut(s) 39, 110, 274, 681
BstMBI GATC 3 cut(s) 166, 177, 483
BstMCI CGRYCG 5 cut(s) 466, 491, 543, 568, 639
BstMWI GCNNNNNNNGC 1 cut(s) 367
BstNSI RCATGY 1 cut(s) 92
BstPAI GACNNNNGTC 1 cut(s) 266
BstSCI CCNGG 1 cut(s) 524
BstSFI CTRYAG 2 cut(s) 264, 346
BstUI CGCG 2 cut(s) 28, 505
BstV1I GCAGC 4 cut(s) 10, 367, 382, 441
BsuI GTATCC 1 cut(s) 784
BsuRI GGCC 3 cut(s) 124, 136, 250
BtgI CCRYGG 2 cut(s) 196, 392
BtsCI GGATG 2 cut(s) 73, 206
BtsIMutI CAGTG 2 cut(s) 55, 240
BveI ACCTGC 1 cut(s) 687
CfoI GCGC 3 cut(s) 28, 507, 644
Cfr10I RCCGGY 4 cut(s) 283, 602, 638, 710
Cfr13I GGNCC 4 cut(s) 286, 396, 573, 586
CpoI CGGWCCG 2 cut(s) 573, 586
Csp6I GTAC 2 cut(s) 231, 775
CspAI ACCGGT 3 cut(s) 283, 602, 710
CspI CGGWCCG 2 cut(s) 573, 586
CviAII CATG 2 cut(s) 89, 197
CviJI RGCY 9 cut(s) 124, 136, 250, 351, 432, 534, 612, 742, 857
CviKI_1 RGCY 9 cut(s) 124, 136, 250, 351, 432, 534, 612, 742, 857
CviQI GTAC 2 cut(s) 231, 775
DdeI CTNAG 1 cut(s) 410
DinI GGCGCC 1 cut(s) 643
DpnI GATC 3 cut(s) 168, 179, 485
DpnII GATC 3 cut(s) 166, 177, 483
EaeI YGGCCR 2 cut(s) 122, 248
Eam1104I CTCTTC 1 cut(s) 152
EarI CTCTTC 1 cut(s) 152
Eco130I CCWWGG 1 cut(s) 196
Eco24I GRGCYC 1 cut(s) 614
Eco47I GGWCC 4 cut(s) 286, 396, 573, 586
EcoT14I CCWWGG 1 cut(s) 196
EcoT38I GRGCYC 1 cut(s) 614
EgeI GGCGCC 1 cut(s) 643
EheI GGCGCC 1 cut(s) 643
ErhI CCWWGG 1 cut(s) 196
FaeI CATG 2 cut(s) 92, 200
FaiI YATR 6 cut(s) 42, 90, 127, 198, 348, 702
FaqI GGGAC 1 cut(s) 272
FatI CATG 2 cut(s) 88, 196
FauI CCCGC 4 cut(s) 180, 297, 627, 682
Fnu4HI GCNGC 5 cut(s) 24, 371, 381, 430, 532
FokI GGATG 2 cut(s) 80, 213
FriOI GRGCYC 1 cut(s) 614
Fsp4HI GCNGC 5 cut(s) 24, 371, 381, 430, 532
FspBI CTAG 2 cut(s) 743, 854
GlaI GCGC 3 cut(s) 27, 506, 643
GluI GCNGC 5 cut(s) 24, 371, 381, 430, 532
HaeII RGCGCY 1 cut(s) 645
HaeIII GGCC 3 cut(s) 124, 136, 250
HhaI GCGC 3 cut(s) 28, 507, 644
Hin1I GRCGYC 1 cut(s) 642
Hin1II CATG 2 cut(s) 92, 200
Hin6I GCGC 3 cut(s) 26, 505, 642
HinP1I GCGC 3 cut(s) 26, 505, 642
HincII GTYRAC 1 cut(s) 207
HindII GTYRAC 1 cut(s) 207
HinfI GANTC 2 cut(s) 514, 836
HphI GGTGA 2 cut(s) 125, 725
Hpy166II GTNNAC 4 cut(s) 60, 207, 231, 706
Hpy188I TCNGA 1 cut(s) 513
Hpy188III TCNNGA 1 cut(s) 634
Hpy8I GTNNAC 4 cut(s) 60, 207, 231, 706
HpyAV CCTTC 1 cut(s) 834
HpyCH4III ACNGT 2 cut(s) 50, 235
HpyCH4V TGCA 4 cut(s) 88, 266, 429, 804
HpyF10VI GCNNNNNNNGC 1 cut(s) 367
HpyF3I CTNAG 1 cut(s) 410
Hsp92I GRCGYC 1 cut(s) 642
Hsp92II CATG 2 cut(s) 92, 200
HspAI GCGC 3 cut(s) 26, 505, 642
KasI GGCGCC 1 cut(s) 641
Kzo9I GATC 3 cut(s) 166, 177, 483
Lsp1109I GCAGC 4 cut(s) 10, 367, 382, 441
MaeI CTAG 2 cut(s) 743, 854
MaeIII GTNAC 1 cut(s) 385
MalI GATC 3 cut(s) 168, 179, 485
MboI GATC 3 cut(s) 166, 177, 483
MboII GAAGA 6 cut(s) 169, 309, 312, 315, 318, 845
MhlI GDGCHC 1 cut(s) 614
MlsI TGGCCA 2 cut(s) 124, 250
MluCI AATT 3 cut(s) 139, 761, 812
MluNI TGGCCA 2 cut(s) 124, 250
Mly113I GGCGCC 1 cut(s) 642
Mox20I TGGCCA 2 cut(s) 124, 250
MroXI GAANNNNTTC 1 cut(s) 161
MscI TGGCCA 2 cut(s) 124, 250
MslI CAYNNNNRTG 1 cut(s) 711
Msp20I TGGCCA 2 cut(s) 124, 250
MspA1I CMGCKG 1 cut(s) 584
MspR9I CCNGG 1 cut(s) 526
MvnI CGCG 2 cut(s) 28, 505
MwoI GCNNNNNNNGC 1 cut(s) 367
NarI GGCGCC 1 cut(s) 642
NciI CCSGG 1 cut(s) 526
NcoI CCATGG 1 cut(s) 196
NdeII GATC 3 cut(s) 166, 177, 483
NlaIII CATG 2 cut(s) 92, 200
NlaIV GGNNCC 2 cut(s) 288, 643
NspI RCATGY 1 cut(s) 92
OliI CACNNNNGTG 1 cut(s) 711
PcsI WCGNNNNNNNCGW 1 cut(s) 509
PdmI GAANNNNTTC 1 cut(s) 161
PfeI GAWTC 2 cut(s) 514, 836
Pfl23II CGTACG 1 cut(s) 774
PinAI ACCGGT 3 cut(s) 283, 602, 710
PkrI GCNGC 5 cut(s) 25, 372, 382, 431, 533
PluTI GGCGCC 1 cut(s) 645
PshAI GACNNNNGTC 1 cut(s) 266
PspLI CGTACG 1 cut(s) 774
PspN4I GGNNCC 2 cut(s) 288, 643
PspPI GGNCC 4 cut(s) 286, 396, 573, 586
PstI CTGCAG 1 cut(s) 268
RsaI GTAC 2 cut(s) 232, 776
RsaNI GTAC 2 cut(s) 231, 775
RseI CAYNNNNRTG 1 cut(s) 711
Rsr2I CGGWCCG 2 cut(s) 573, 586
RsrII CGGWCCG 2 cut(s) 573, 586
SatI GCNGC 5 cut(s) 24, 371, 381, 430, 532
Sau3AI GATC 3 cut(s) 166, 177, 483
Sau96I GGNCC 4 cut(s) 286, 396, 573, 586
ScrFI CCNGG 1 cut(s) 526
SduI GDGCHC 1 cut(s) 614
SetI ASST 7 cut(s) 212, 353, 401, 434, 701, 744, 859
SfcI CTRYAG 2 cut(s) 264, 346
SfoI GGCGCC 1 cut(s) 643
SgrAI CRCCGGYG 1 cut(s) 710
SinI GGWCC 4 cut(s) 286, 396, 573, 586
SmiMI CAYNNNNRTG 1 cut(s) 711
SmlI CTYRAG 1 cut(s) 273
SmoI CTYRAG 1 cut(s) 273
Sse9I AATT 3 cut(s) 139, 761, 812
SspDI GGCGCC 1 cut(s) 641
SspMI CTAG 2 cut(s) 743, 854
StyD4I CCNGG 1 cut(s) 524
StyI CCWWGG 1 cut(s) 196
TaaI ACNGT 2 cut(s) 50, 235
TaqI TCGA 4 cut(s) 6, 165, 608, 734
TasI AATT 3 cut(s) 139, 761, 812
TatI WGTACW 1 cut(s) 230
TauI GCSGC 1 cut(s) 534
TfiI GAWTC 2 cut(s) 514, 836
TscAI CASTG 2 cut(s) 55, 240
TseI GCWGC 4 cut(s) 23, 370, 380, 429
TspDTI ATGAA 2 cut(s) 84, 752
TspGWI ACGGA 3 cut(s) 202, 409, 658
TspRI CASTG 2 cut(s) 55, 240
VpaK11BI GGWCC 4 cut(s) 286, 396, 573, 586
XapI RAATTY 3 cut(s) 139, 761, 812
XceI RCATGY 1 cut(s) 92
XmnI GAANNNNTTC 1 cut(s) 161
XspI CTAG 2 cut(s) 743, 854
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.