Rroxscaffold_3G00218560

DNA ligase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0014814
Physical Location & Seq
Forward (+)
827743 .. 843604
15862 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00218560.1

Sequence Viewer

Length: 456 bp
ATGGCGGTGCTGCGTGTTTTGGGTTACGGAGACAGTGGGGTGTTTACAGAGGATGAATGTGAGAGTGATGTGCATGTTGTTGGGTGGAATGTGTTGGGTGAGACTTGGCCATATTTCAGGCCAAATTTTGTAAAAATGGAAATTCGTTGGATTGAAGAAGTTGATAATTCGTTTTGTGGTTGTTTGGAGAAAAGAAAAATGAAAGATTCTGATCGTTCACCTGACATATGTCAAGGGGTGAAGGAGGTTTTGTCTTTGAGTGACAAGTGGCACATTGTTTGGTGCTTGTTGACACGTGGCACCAAATTTACAATCAACCAAAACCAACTTGCCCTACTATTGCCGAACCTACTCGAACCTTTTGATAGGCGGCTACTCTATGAGCAATCTCTCGCATCCCGATATGCCGTGATATGGATCAACACAAAAGGAAGCTTTGCTGCGAGAGCCGATTGA
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

151

Amino Acids

17.45

Weight (kDa)

5.45

Isoelectric Point (pI)

55.67

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)
AccB1I GGYRCC 1 cut(s) 299
AciI CCGC 2 cut(s) 5, 370
AclWI GGATC 1 cut(s) 425
AcoI YGGCCR 1 cut(s) 107
AcsI RAATTY 3 cut(s) 124, 141, 305
AcvI CACGTG 1 cut(s) 296
AfiI CCNNNNNNNGG 1 cut(s) 414
AflIII ACRYGT 1 cut(s) 293
AgsI TTSAA 1 cut(s) 155
AluBI AGCT 1 cut(s) 435
AluI AGCT 1 cut(s) 435
Alw26I GTCTC 2 cut(s) 24, 95
AlwI GGATC 1 cut(s) 425
AoxI GGCC 2 cut(s) 107, 119
ApeKI GCWGC 2 cut(s) 10, 440
ApoI RAATTY 3 cut(s) 124, 141, 305
AsuHPI GGTGA 3 cut(s) 110, 210, 250
BalI TGGCCA 1 cut(s) 109
BanI GGYRCC 1 cut(s) 299
BbrPI CACGTG 1 cut(s) 296
BbvI GCAGC 1 cut(s) 427
BceAI ACGGC 1 cut(s) 392
BcoDI GTCTC 2 cut(s) 24, 95
BisI GCNGC 3 cut(s) 11, 371, 441
BlsI GCNGC 3 cut(s) 12, 372, 442
BmiI GGNNCC 1 cut(s) 301
BmsI GCATC 1 cut(s) 404
BoxI GACNNNNGTC 1 cut(s) 228
BsaAI YACGTR 1 cut(s) 296
BsaBI GATNNNNATC 2 cut(s) 210, 416
BsaXI ACNNNNNCTCC 2 cut(s) 236, 266
Bsc4I CCNNNNNNNGG 1 cut(s) 414
Bse8I GATNNNNATC 2 cut(s) 210, 416
BseGI GGATG 2 cut(s) 58, 395
BseJI GATNNNNATC 2 cut(s) 210, 416
BseLI CCNNNNNNNGG 1 cut(s) 414
BseXI GCAGC 1 cut(s) 427
BshFI GGCC 2 cut(s) 109, 121
BshNI GGYRCC 1 cut(s) 299
BslI CCNNNNNNNGG 1 cut(s) 414
BsmAI GTCTC 2 cut(s) 24, 95
BsnI GGCC 2 cut(s) 109, 121
Bsp143I GATC 2 cut(s) 211, 417
BspACI CCGC 2 cut(s) 5, 370
BspANI GGCC 2 cut(s) 109, 121
BspLI GGNNCC 1 cut(s) 301
BspPI GGATC 1 cut(s) 425
BspT107I GGYRCC 1 cut(s) 299
BssMI GATC 2 cut(s) 211, 417
Bst4CI ACNGT 1 cut(s) 35
BstBAI YACGTR 1 cut(s) 296
BstF5I GGATG 2 cut(s) 58, 395
BstKTI GATC 2 cut(s) 214, 420
BstMAI GTCTC 2 cut(s) 24, 95
BstMBI GATC 2 cut(s) 211, 417
BstMWI GCNNNNNNNGC 1 cut(s) 446
BstNSI RCATGY 1 cut(s) 77
BstPAI GACNNNNGTC 1 cut(s) 228
BstV1I GCAGC 1 cut(s) 427
BsuRI GGCC 2 cut(s) 109, 121
BtsCI GGATG 2 cut(s) 58, 395
BtsIMutI CAGTG 1 cut(s) 40
CviAII CATG 1 cut(s) 74
CviJI RGCY 5 cut(s) 109, 121, 373, 435, 449
CviKI_1 RGCY 5 cut(s) 109, 121, 373, 435, 449
DpnI GATC 2 cut(s) 213, 419
DpnII GATC 2 cut(s) 211, 417
EaeI YGGCCR 1 cut(s) 107
Eco72I CACGTG 1 cut(s) 296
FaeI CATG 1 cut(s) 77
FaiI YATR 7 cut(s) 75, 112, 227, 229, 381, 405, 415
FatI CATG 1 cut(s) 73
FauNDI CATATG 1 cut(s) 227
Fnu4HI GCNGC 3 cut(s) 11, 371, 441
FokI GGATG 2 cut(s) 65, 382
Fsp4HI GCNGC 3 cut(s) 11, 371, 441
GluI GCNGC 3 cut(s) 11, 371, 441
HaeIII GGCC 2 cut(s) 109, 121
Hin1II CATG 1 cut(s) 77
HincII GTYRAC 1 cut(s) 291
HindII GTYRAC 1 cut(s) 291
HindIII AAGCTT 1 cut(s) 433
HinfI GANTC 1 cut(s) 206
HphI GGTGA 3 cut(s) 110, 210, 250
Hpy166II GTNNAC 3 cut(s) 45, 218, 291
Hpy188I TCNGA 1 cut(s) 211
Hpy188III TCNNGA 1 cut(s) 399
Hpy8I GTNNAC 3 cut(s) 45, 218, 291
HpyAV CCTTC 1 cut(s) 235
HpyCH4III ACNGT 1 cut(s) 35
HpyCH4IV ACGT 1 cut(s) 295
HpyCH4V TGCA 1 cut(s) 73
HpyF10VI GCNNNNNNNGC 1 cut(s) 446
HpySE526I ACGT 1 cut(s) 295
Hsp92II CATG 1 cut(s) 77
Kzo9I GATC 2 cut(s) 211, 417
LpnPI CCDG 2 cut(s) 103, 234
Lsp1109I GCAGC 1 cut(s) 427
LweI GCATC 1 cut(s) 404
MaeII ACGT 1 cut(s) 295
MaeIII GTNAC 2 cut(s) 23, 260
MalI GATC 2 cut(s) 213, 419
MboI GATC 2 cut(s) 211, 417
MboII GAAGA 1 cut(s) 167
MlsI TGGCCA 1 cut(s) 109
MluCI AATT 4 cut(s) 124, 141, 166, 305
MluNI TGGCCA 1 cut(s) 109
MmeI TCCRAC 1 cut(s) 128
MnlI CCTC 2 cut(s) 43, 238
Mox20I TGGCCA 1 cut(s) 109
MscI TGGCCA 1 cut(s) 109
Msp20I TGGCCA 1 cut(s) 109
MwoI GCNNNNNNNGC 1 cut(s) 446
NdeI CATATG 1 cut(s) 227
NdeII GATC 2 cut(s) 211, 417
NlaIII CATG 1 cut(s) 77
NlaIV GGNNCC 1 cut(s) 301
NmuCI GTSAC 1 cut(s) 260
NspI RCATGY 1 cut(s) 77
PfeI GAWTC 1 cut(s) 206
PkrI GCNGC 3 cut(s) 12, 372, 442
PmaCI CACGTG 1 cut(s) 296
PmlI CACGTG 1 cut(s) 296
Ppu21I YACGTR 1 cut(s) 296
PshAI GACNNNNGTC 1 cut(s) 228
PspCI CACGTG 1 cut(s) 296
PspN4I GGNNCC 1 cut(s) 301
SatI GCNGC 3 cut(s) 11, 371, 441
Sau3AI GATC 2 cut(s) 211, 417
SetI ASST 6 cut(s) 223, 249, 298, 351, 361, 437
SfaNI GCATC 1 cut(s) 404
Sse9I AATT 4 cut(s) 124, 141, 166, 305
SsiI CCGC 2 cut(s) 5, 370
TaaI ACNGT 1 cut(s) 35
TaiI ACGT 1 cut(s) 298
TaqI TCGA 1 cut(s) 354
TasI AATT 4 cut(s) 124, 141, 166, 305
TauI GCSGC 1 cut(s) 373
TfiI GAWTC 1 cut(s) 206
TscAI CASTG 1 cut(s) 40
TseFI GTSAC 1 cut(s) 260
TseI GCWGC 2 cut(s) 10, 440
Tsp45I GTSAC 1 cut(s) 260
TspDTI ATGAA 2 cut(s) 69, 215
TspGWI ACGGA 1 cut(s) 42
TspRI CASTG 1 cut(s) 40
XapI RAATTY 3 cut(s) 124, 141, 305
XceI RCATGY 1 cut(s) 77
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.