Rorug03G0263600

DNA ligase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0015031
Physical Location & Seq
Reverse (-)
25537316 .. 25539475
2160 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0263600.1

Sequence Viewer

Length: 726 bp
ATGGAGGGTGTGTGTGATCAAAAGGGTCTGTTGGAATACGTGAGGAAGTCGAGCCCGCCGCCTTTCTTGTTGAAGACGTACATGCTGGTGGAGGATCCGGCAACCGACGACGTCATATCGTGGAACGAGGACGGGTCTGCGTTCGTGGTGTGGCAGCCGGCCGAGTTTGCCCGAGATCTCCTCCCAACTCTCTTCAAGCACAGTAACTTCTCTAGCTTTGTCAGGCAGCTAAATACCTACGGATTTCGAAAAGTTGCAACAAGCCGGTGGGAGTTTTGCAACGATAAGTTTCGAAAGGGTGAAAAGGATCATCTATGTGAAATCCGACGTAGAAAAGCATGGGCGAACAAGCAACAGCCAAATGCGGCGCTAGCTCAAGGCCAAGCAGCAGCAGAAGATGATCAGTCTGATGAAGACCATGAAAGGTCTTCCTCGACTTCTTCTTCGTCCGAGTACAGCTCTCTTATTGATGAAAACAAACGGCTAAAGATGGAAAATGGAGTTTTGAGCTGCGAGCTTACGAGCATGAAAAACAAGTGCAAGGAGCTTCTCGATTTGGTGGCCAAGTATGGCCGGGATTCGGAGAGAGGTAAAGAAGAAGACGACCAAAGGCCAAAGCTGTTTGGGGTGAGATTGGAGGTTGAGGGAGAGAGGGAAAGGAAGAGAAAGAGGGCAGAGATACTTAGTGAGAGCGCAAGCATTTTGCTATCTCAAGCATGCAAATAA
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

241

Amino Acids

27.61

Weight (kDa)

6.06

Isoelectric Point (pI)

60.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HSF_DNA-bind PF00447 22 - 111 5.5e-30 HSF-type DNA-binding
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: OG0015031)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G66730
fragaria_vesca FvH4_1g29000 FvH4_1g29000 FvH4_1g29000
malus_domestica MD00G1054100.v1.1
prunus_persica Prupe.3G150300_v2.0.a1
pyrus_communis pycom17g25560
rosa_chinensis RchiOBHm_Chr3g0493691 RchiOBHm_Chr3g0493951
rosa_laevigata RLG00000022694
rosa_roxburghii Rroxscaffold_6G00391370
rosa_rugosa Rorug03G0263400 Rorug03G0263500 Rorug03G0263600
rosa_samantha Rh3AG312500 Rh3AG313200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 114
AciI CCGC 3 cut(s) 56, 59, 365
AclWI GGATC 3 cut(s) 89, 102, 315
AcoI YGGCCR 3 cut(s) 159, 561, 571
AcyI GRCGYC 1 cut(s) 111
AfaI GTAC 2 cut(s) 80, 455
AfiI CCNNNNNNNGG 1 cut(s) 580
AgsI TTSAA 2 cut(s) 73, 196
AluBI AGCT 8 cut(s) 216, 229, 374, 459, 510, 517, 547, 619
AluI AGCT 8 cut(s) 216, 229, 374, 459, 510, 517, 547, 619
AlwI GGATC 3 cut(s) 89, 102, 315
Ama87I CYCGRG 1 cut(s) 171
AoxI GGCC 5 cut(s) 159, 379, 561, 571, 611
ApeKI GCWGC 5 cut(s) 154, 226, 386, 389, 510
ArsI GACNNNNNNTTYG 2 cut(s) 427, 459
AspLEI GCGC 2 cut(s) 370, 695
AsuC2I CCSGG 1 cut(s) 575
AsuHPI GGTGA 2 cut(s) 311, 640
AsuII TTCGAA 2 cut(s) 247, 292
AsuNHI GCTAGC 1 cut(s) 370
AvaI CYCGRG 1 cut(s) 171
BalI TGGCCA 1 cut(s) 563
BamHI GGATCC 1 cut(s) 94
BanII GRGCYC 1 cut(s) 56
BbsI GAAGAC 4 cut(s) 80, 420, 420, 606
BbvI GCAGC 5 cut(s) 166, 238, 398, 401, 497
BccI CCATC 1 cut(s) 484
BceAI ACGGC 1 cut(s) 497
BclI TGATCA 2 cut(s) 16, 400
BcnI CCSGG 1 cut(s) 575
BfaI CTAG 2 cut(s) 213, 371
BfoI RGCGCY 1 cut(s) 371
BglII AGATCT 1 cut(s) 175
BisI GCNGC 7 cut(s) 59, 155, 227, 366, 387, 390, 511
BlsI GCNGC 7 cut(s) 60, 156, 228, 367, 388, 391, 512
Bme1390I CCNGG 1 cut(s) 575
BmeT110I CYCGRG 1 cut(s) 171
BmiI GGNNCC 1 cut(s) 96
BmrFI CCNGG 1 cut(s) 575
BmtI GCTAGC 1 cut(s) 374
BpiI GAAGAC 4 cut(s) 80, 420, 420, 606
BplI GAGNNNNNCTC 4 cut(s) 165, 197, 443, 475
Bpu14I TTCGAA 2 cut(s) 247, 292
BpuEI CTTGAG 2 cut(s) 360, 696
BpuMI CCSGG 1 cut(s) 575
BsaAI YACGTR 1 cut(s) 40
BsaHI GRCGYC 1 cut(s) 111
BsaXI ACNNNNNCTCC 1 cut(s) 26
Bsc4I CCNNNNNNNGG 1 cut(s) 580
Bse118I RCCGGY 2 cut(s) 157, 264
BseLI CCNNNNNNNGG 1 cut(s) 580
BseRI GAGGAG 1 cut(s) 170
BseX3I CGGCCG 1 cut(s) 159
BseXI GCAGC 5 cut(s) 166, 238, 398, 401, 497
Bsh1285I CGRYCG 1 cut(s) 162
BshFI GGCC 5 cut(s) 161, 381, 563, 573, 613
BsiEI CGRYCG 1 cut(s) 162
BsiHKCI CYCGRG 1 cut(s) 171
BsiSI CCGG 4 cut(s) 98, 158, 265, 574
BslI CCNNNNNNNGG 1 cut(s) 580
BsnI GGCC 5 cut(s) 161, 381, 563, 573, 613
BsoBI CYCGRG 1 cut(s) 171
Bsp119I TTCGAA 2 cut(s) 247, 292
Bsp1286I GDGCHC 1 cut(s) 56
Bsp143I GATC 5 cut(s) 16, 94, 175, 307, 400
BspACI CCGC 3 cut(s) 56, 59, 365
BspANI GGCC 5 cut(s) 161, 381, 563, 573, 613
BspLI GGNNCC 1 cut(s) 96
BspOI GCTAGC 1 cut(s) 374
BspPI GGATC 3 cut(s) 89, 102, 315
BspT104I TTCGAA 2 cut(s) 247, 292
BsrFI RCCGGY 2 cut(s) 157, 264
BssAI RCCGGY 2 cut(s) 157, 264
BssMI GATC 5 cut(s) 16, 94, 175, 307, 400
BssNI GRCGYC 1 cut(s) 111
Bst4CI ACNGT 1 cut(s) 203
Bst6I CTCTTC 2 cut(s) 197, 656
BstACI GRCGYC 1 cut(s) 111
BstBAI YACGTR 1 cut(s) 40
BstBI TTCGAA 2 cut(s) 247, 292
BstC8I GCNNGC 6 cut(s) 56, 159, 372, 515, 697, 718
BstDEI CTNAG 1 cut(s) 683
BstH2I RGCGCY 1 cut(s) 371
BstHHI GCGC 2 cut(s) 370, 695
BstKTI GATC 5 cut(s) 19, 97, 178, 310, 403
BstMBI GATC 5 cut(s) 16, 94, 175, 307, 400
BstMCI CGRYCG 1 cut(s) 162
BstMWI GCNNNNNNNGC 2 cut(s) 167, 371
BstNSI RCATGY 2 cut(s) 85, 720
BstSCI CCNGG 1 cut(s) 573
BstV1I GCAGC 5 cut(s) 166, 238, 398, 401, 497
BstV2I GAAGAC 4 cut(s) 80, 420, 420, 606
BstX2I RGATCY 2 cut(s) 94, 175
BstYI RGATCY 2 cut(s) 94, 175
BstZI CGGCCG 1 cut(s) 159
BsuRI GGCC 5 cut(s) 161, 381, 563, 573, 613
Cac8I GCNNGC 6 cut(s) 56, 159, 372, 515, 697, 718
CfoI GCGC 2 cut(s) 370, 695
Cfr10I RCCGGY 2 cut(s) 157, 264
Csp6I GTAC 2 cut(s) 79, 454
CviAII CATG 5 cut(s) 82, 339, 419, 526, 717
CviQI GTAC 2 cut(s) 79, 454
DdeI CTNAG 1 cut(s) 683
DpnI GATC 5 cut(s) 18, 96, 177, 309, 402
DpnII GATC 5 cut(s) 16, 94, 175, 307, 400
EaeI YGGCCR 3 cut(s) 159, 561, 571
EagI CGGCCG 1 cut(s) 159
Eam1104I CTCTTC 2 cut(s) 197, 656
EarI CTCTTC 2 cut(s) 197, 656
EclXI CGGCCG 1 cut(s) 159
Eco24I GRGCYC 1 cut(s) 56
Eco52I CGGCCG 1 cut(s) 159
Eco88I CYCGRG 1 cut(s) 171
EcoT38I GRGCYC 1 cut(s) 56
FaeI CATG 5 cut(s) 85, 342, 422, 529, 720
FaiI YATR 8 cut(s) 83, 116, 316, 340, 420, 527, 570, 718
FatI CATG 5 cut(s) 81, 338, 418, 525, 716
FauI CCCGC 1 cut(s) 63
FbaI TGATCA 2 cut(s) 16, 400
Fnu4HI GCNGC 7 cut(s) 59, 155, 227, 366, 387, 390, 511
FriOI GRGCYC 1 cut(s) 56
Fsp4HI GCNGC 7 cut(s) 59, 155, 227, 366, 387, 390, 511
FspBI CTAG 2 cut(s) 213, 371
GlaI GCGC 2 cut(s) 369, 694
GluI GCNGC 7 cut(s) 59, 155, 227, 366, 387, 390, 511
HaeII RGCGCY 1 cut(s) 371
HaeIII GGCC 5 cut(s) 161, 381, 563, 573, 613
HapII CCGG 4 cut(s) 98, 158, 265, 574
HhaI GCGC 2 cut(s) 370, 695
Hin1I GRCGYC 1 cut(s) 111
Hin1II CATG 5 cut(s) 85, 342, 422, 529, 720
Hin6I GCGC 2 cut(s) 368, 693
HinP1I GCGC 2 cut(s) 368, 693
HinfI GANTC 1 cut(s) 578
HpaII CCGG 4 cut(s) 98, 158, 265, 574
HphI GGTGA 2 cut(s) 311, 640
Hpy188I TCNGA 4 cut(s) 326, 409, 451, 583
Hpy188III TCNNGA 1 cut(s) 551
Hpy99I CGWCG 3 cut(s) 110, 113, 330
HpyCH4III ACNGT 1 cut(s) 203
HpyCH4IV ACGT 4 cut(s) 39, 77, 111, 328
HpyCH4V TGCA 4 cut(s) 257, 279, 540, 720
HpyF10VI GCNNNNNNNGC 2 cut(s) 167, 371
HpyF3I CTNAG 1 cut(s) 683
HpySE526I ACGT 4 cut(s) 39, 77, 111, 328
Hsp92I GRCGYC 1 cut(s) 111
Hsp92II CATG 5 cut(s) 85, 342, 422, 529, 720
HspAI GCGC 2 cut(s) 368, 693
KroI GCCGGC 1 cut(s) 157
KroNI GCCGGC 1 cut(s) 159
Ksp22I TGATCA 2 cut(s) 16, 400
Kzo9I GATC 5 cut(s) 16, 94, 175, 307, 400
LmnI GCTCC 1 cut(s) 544
LpnPI CCDG 6 cut(s) 71, 111, 171, 208, 278, 587
Lsp1109I GCAGC 5 cut(s) 166, 238, 398, 401, 497
MaeI CTAG 2 cut(s) 213, 371
MaeII ACGT 4 cut(s) 39, 77, 111, 328
MaeIII GTNAC 1 cut(s) 203
MalI GATC 5 cut(s) 18, 96, 177, 309, 402
MboI GATC 5 cut(s) 16, 94, 175, 307, 400
MflI RGATCY 2 cut(s) 94, 175
MhlI GDGCHC 1 cut(s) 56
MlsI TGGCCA 1 cut(s) 563
MluNI TGGCCA 1 cut(s) 563
MmeI TCCRAC 2 cut(s) 12, 349
Mox20I TGGCCA 1 cut(s) 563
MroNI GCCGGC 1 cut(s) 157
MscI TGGCCA 1 cut(s) 563
MslI CAYNNNNRTG 2 cut(s) 86, 315
Msp20I TGGCCA 1 cut(s) 563
MspI CCGG 4 cut(s) 98, 158, 265, 574
MspR9I CCNGG 1 cut(s) 575
MwoI GCNNNNNNNGC 2 cut(s) 167, 371
NaeI GCCGGC 1 cut(s) 159
NciI CCSGG 1 cut(s) 575
NdeII GATC 5 cut(s) 16, 94, 175, 307, 400
NgoMIV GCCGGC 1 cut(s) 157
NheI GCTAGC 1 cut(s) 370
NlaIII CATG 5 cut(s) 85, 342, 422, 529, 720
NlaIV GGNNCC 1 cut(s) 96
NmeAIII GCCGAG 1 cut(s) 187
NspI RCATGY 2 cut(s) 85, 720
NspV TTCGAA 2 cut(s) 247, 292
PaeI GCATGC 1 cut(s) 720
PdiI GCCGGC 1 cut(s) 159
PfeI GAWTC 1 cut(s) 578
PflFI GACNNNGTC 1 cut(s) 110
PkrI GCNGC 7 cut(s) 60, 156, 228, 367, 388, 391, 512
Ppu21I YACGTR 1 cut(s) 40
PspN4I GGNNCC 1 cut(s) 96
PsuI RGATCY 2 cut(s) 94, 175
PsyI GACNNNGTC 1 cut(s) 110
RsaI GTAC 2 cut(s) 80, 455
RsaNI GTAC 2 cut(s) 79, 454
RseI CAYNNNNRTG 2 cut(s) 86, 315
SatI GCNGC 7 cut(s) 59, 155, 227, 366, 387, 390, 511
Sau3AI GATC 5 cut(s) 16, 94, 175, 307, 400
ScrFI CCNGG 1 cut(s) 575
SduI GDGCHC 1 cut(s) 56
SfuI TTCGAA 2 cut(s) 247, 292
SmiMI CAYNNNNRTG 2 cut(s) 86, 315
SmlI CTYRAG 2 cut(s) 375, 711
SmoI CTYRAG 2 cut(s) 375, 711
SphI GCATGC 1 cut(s) 720
SsiI CCGC 3 cut(s) 56, 59, 365
SspMI CTAG 2 cut(s) 213, 371
StyD4I CCNGG 1 cut(s) 573
TaaI ACNGT 1 cut(s) 203
TaiI ACGT 4 cut(s) 42, 80, 114, 331
TaqI TCGA 5 cut(s) 50, 247, 292, 434, 552
TatI WGTACW 1 cut(s) 453
TauI GCSGC 2 cut(s) 61, 368
TfiI GAWTC 1 cut(s) 578
TseI GCWGC 5 cut(s) 154, 226, 386, 389, 510
TspDTI ATGAA 4 cut(s) 426, 435, 486, 542
TspGWI ACGGA 1 cut(s) 255
Tth111I GACNNNGTC 1 cut(s) 110
XceI RCATGY 2 cut(s) 85, 720
XspI CTAG 2 cut(s) 213, 371
ZraI GACGTC 1 cut(s) 112
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.