Rh4DG322500

DNA ligase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0018954
Physical Location & Seq
Reverse (-)
54704121 .. 54706096
1976 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG322500.1

Sequence Viewer

Length: 384 bp
ATGCGGACGTTTAGCTGGAGAATAGATCTGGGTCTCGAACTAACCCGTCATGTGCAAGCCAAAGGTTTGTTTAAATCGTTCTTTCTGCGTGGTACTCATAGCTGCATTGGTGGTACTCAAGTCTCAAAATGGAAGATTGATAGTATCATGTCAACAAGGCAGGTAAACGAAAATGATGCAAGTAGAAGATTGAAGTCAGAGTTTCTAATTCAGTTTGATGGAGTGACATCTAATCCTAATGATCGAGTAATTGTGAATTGGTTTTATTCTGGGGACAAGATCTTGGCCAAGAAACCACCTTATTATAGAACAGCTGAGGTGCCCGATATGTGGTTTTCTCCGGAGCTTTTATGGGAAATAAGAGGTGCAGACTTTACGGTTTGA
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

127

Amino Acids

14.79

Weight (kDa)

9.41

Isoelectric Point (pI)

31.18

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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Orthologous Genes (Group: OG0018954)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr1g0342911 RchiOBHm_Chr4g0433091
rosa_multiflora Rmu_sc0000361.1_g000021 Rmu_sc0001291.1_g000003
rosa_rugosa Rorug01G0181500 Rorug01G0181600
rosa_samantha Rh4AG319100 Rh4DG322500
rosa_wichuraiana Rw5G048190

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 151
AccB1I GGYRCC 1 cut(s) 319
AccIII TCCGGA 1 cut(s) 340
AciI CCGC 1 cut(s) 4
AcoI YGGCCR 1 cut(s) 285
AfaI GTAC 2 cut(s) 94, 115
AfiI CCNNNNNNNGG 1 cut(s) 330
AgsI TTSAA 1 cut(s) 193
AluBI AGCT 4 cut(s) 15, 102, 314, 346
AluI AGCT 4 cut(s) 15, 102, 314, 346
Alw26I GTCTC 2 cut(s) 38, 127
Aor13HI TCCGGA 1 cut(s) 340
AoxI GGCC 1 cut(s) 285
ApeKI GCWGC 1 cut(s) 102
BaeGI GKGCMC 1 cut(s) 324
BaeI ACNNNNGTAYC 2 cut(s) 105, 138
BalI TGGCCA 1 cut(s) 287
BanI GGYRCC 1 cut(s) 319
BbvCI CCTCAGC 1 cut(s) 315
BbvI GCAGC 1 cut(s) 89
BccI CCATC 1 cut(s) 212
BcgI CGANNNNNNTGC 2 cut(s) 158, 192
BcoDI GTCTC 2 cut(s) 38, 127
BfuAI ACCTGC 1 cut(s) 151
BglII AGATCT 2 cut(s) 25, 279
BisI GCNGC 1 cut(s) 103
BlsI GCNGC 1 cut(s) 104
BmiI GGNNCC 1 cut(s) 321
BmsI GCATC 1 cut(s) 166
BpmI CTGGAG 1 cut(s) 37
Bpu10I CCTNAGC 1 cut(s) 315
BpuEI CTTGAG 1 cut(s) 102
BsaI GGTCTC 1 cut(s) 38
BsaWI WCCGGW 1 cut(s) 340
Bsc4I CCNNNNNNNGG 1 cut(s) 330
BseAI TCCGGA 1 cut(s) 340
BseLI CCNNNNNNNGG 1 cut(s) 330
BseMII CTCAG 1 cut(s) 306
BseSI GKGCMC 1 cut(s) 324
BseXI GCAGC 1 cut(s) 89
BshFI GGCC 1 cut(s) 287
BshNI GGYRCC 1 cut(s) 319
BsiSI CCGG 1 cut(s) 341
BslFI GGGAC 1 cut(s) 287
BslI CCNNNNNNNGG 1 cut(s) 330
BsmAI GTCTC 2 cut(s) 38, 127
BsmFI GGGAC 1 cut(s) 287
BsnI GGCC 1 cut(s) 287
Bso31I GGTCTC 1 cut(s) 38
Bsp1286I GDGCHC 1 cut(s) 324
Bsp13I TCCGGA 1 cut(s) 340
Bsp143I GATC 3 cut(s) 25, 241, 279
BspACI CCGC 1 cut(s) 4
BspANI GGCC 1 cut(s) 287
BspCNI CTCAG 1 cut(s) 307
BspEI TCCGGA 1 cut(s) 340
BspLI GGNNCC 1 cut(s) 321
BspMI ACCTGC 1 cut(s) 151
BspT107I GGYRCC 1 cut(s) 319
BspTNI GGTCTC 1 cut(s) 38
BssMI GATC 3 cut(s) 25, 241, 279
Bst4CI ACNGT 1 cut(s) 379
BstC8I GCNNGC 1 cut(s) 57
BstDEI CTNAG 1 cut(s) 315
BstKTI GATC 3 cut(s) 28, 244, 282
BstMAI GTCTC 2 cut(s) 38, 127
BstMBI GATC 3 cut(s) 25, 241, 279
BstSLI GKGCMC 1 cut(s) 324
BstV1I GCAGC 1 cut(s) 89
BstX2I RGATCY 2 cut(s) 25, 279
BstYI RGATCY 2 cut(s) 25, 279
BsuRI GGCC 1 cut(s) 287
BveI ACCTGC 1 cut(s) 151
Cac8I GCNNGC 1 cut(s) 57
Csp6I GTAC 2 cut(s) 93, 114
CviAII CATG 2 cut(s) 50, 148
CviJI RGCY 6 cut(s) 15, 59, 102, 287, 314, 346
CviKI_1 RGCY 6 cut(s) 15, 59, 102, 287, 314, 346
CviQI GTAC 2 cut(s) 93, 114
DdeI CTNAG 1 cut(s) 315
DpnI GATC 3 cut(s) 27, 243, 281
DpnII GATC 3 cut(s) 25, 241, 279
DraI TTTAAA 1 cut(s) 73
EaeI YGGCCR 1 cut(s) 285
Eco31I GGTCTC 1 cut(s) 38
FaeI CATG 2 cut(s) 53, 151
FaiI YATR 6 cut(s) 51, 99, 149, 306, 329, 352
FaqI GGGAC 1 cut(s) 287
FatI CATG 2 cut(s) 49, 147
Fnu4HI GCNGC 1 cut(s) 103
Fsp4HI GCNGC 1 cut(s) 103
GluI GCNGC 1 cut(s) 103
GsuI CTGGAG 1 cut(s) 37
HaeIII GGCC 1 cut(s) 287
HapII CCGG 1 cut(s) 341
Hin1II CATG 2 cut(s) 53, 151
HincII GTYRAC 1 cut(s) 153
HindII GTYRAC 1 cut(s) 153
HpaII CCGG 1 cut(s) 341
Hpy166II GTNNAC 2 cut(s) 153, 166
Hpy188I TCNGA 1 cut(s) 199
Hpy188III TCNNGA 2 cut(s) 35, 341
Hpy8I GTNNAC 2 cut(s) 153, 166
HpyCH4III ACNGT 1 cut(s) 379
HpyCH4IV ACGT 1 cut(s) 8
HpyCH4V TGCA 4 cut(s) 55, 105, 179, 368
HpyF3I CTNAG 1 cut(s) 315
HpySE526I ACGT 1 cut(s) 8
Hsp92II CATG 2 cut(s) 53, 151
Kpn2I TCCGGA 1 cut(s) 340
Kzo9I GATC 3 cut(s) 25, 241, 279
LmnI GCTCC 1 cut(s) 343
LpnPI CCDG 4 cut(s) 14, 146, 255, 354
Lsp1109I GCAGC 1 cut(s) 89
LweI GCATC 1 cut(s) 166
MaeII ACGT 1 cut(s) 8
MaeIII GTNAC 1 cut(s) 223
MalI GATC 3 cut(s) 27, 243, 281
MboI GATC 3 cut(s) 25, 241, 279
MboII GAAGA 2 cut(s) 145, 198
MflI RGATCY 2 cut(s) 25, 279
MhlI GDGCHC 1 cut(s) 324
MlsI TGGCCA 1 cut(s) 287
MluCI AATT 3 cut(s) 207, 249, 256
MluNI TGGCCA 1 cut(s) 287
MnlI CCTC 2 cut(s) 310, 356
Mox20I TGGCCA 1 cut(s) 287
MroI TCCGGA 1 cut(s) 340
MscI TGGCCA 1 cut(s) 287
MseI TTAA 1 cut(s) 72
Msp20I TGGCCA 1 cut(s) 287
MspA1I CMGCKG 1 cut(s) 314
MspI CCGG 1 cut(s) 341
NdeII GATC 3 cut(s) 25, 241, 279
NlaIII CATG 2 cut(s) 53, 151
NlaIV GGNNCC 1 cut(s) 321
NmuCI GTSAC 1 cut(s) 223
PkrI GCNGC 1 cut(s) 104
PspN4I GGNNCC 1 cut(s) 321
PsuI RGATCY 2 cut(s) 25, 279
PvuII CAGCTG 1 cut(s) 314
RsaI GTAC 2 cut(s) 94, 115
RsaNI GTAC 2 cut(s) 93, 114
SaqAI TTAA 1 cut(s) 72
SatI GCNGC 1 cut(s) 103
Sau3AI GATC 3 cut(s) 25, 241, 279
SduI GDGCHC 1 cut(s) 324
SfaNI GCATC 1 cut(s) 166
SmlI CTYRAG 1 cut(s) 117
SmoI CTYRAG 1 cut(s) 117
Sse9I AATT 3 cut(s) 207, 249, 256
SsiI CCGC 1 cut(s) 4
TaaI ACNGT 1 cut(s) 379
TaiI ACGT 1 cut(s) 11
TaqI TCGA 2 cut(s) 36, 244
TasI AATT 3 cut(s) 207, 249, 256
Tru1I TTAA 1 cut(s) 72
Tru9I TTAA 1 cut(s) 72
TseFI GTSAC 1 cut(s) 223
TseI GCWGC 1 cut(s) 102
Tsp45I GTSAC 1 cut(s) 223
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.