Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0002242

Physical Location & Seq

Genomic Coordinates Reverse (-)

43446005 .. 43449550

Gene Structure 3546 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG335000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1308 bp

ATGGTTGAAATTGAAGCCGGATTACATACGGGGGCTGGTTCTGATCTGGATGTTCTTATAATAGGAGGATACTATGGTTCAGGACGTCGTGGAGGGGAAGTAGCTCAGTTCCTGGTGGGTCTTGCTGAACGTCCAGTTGCAAATACATATCCGAGAAGGTTTGTATCATTTTGCAGAGTGGGTACTGGACTTTCTGACGAGGAGTTAGATGCTGTGGCAACCAAATTAAAGCCTTATTTAAGGAAGTATGACTACCCCAAAAAGGCACCACCAAGTTTTTATGAAGTAACAAACCATTCAAAAGAGAGACCAGATGTTTGGGTTGAAAGCCCTGAGAAATCAATAATCCTTTCCATAACAAGTGACATCCGAACCATAAGGTCCGAGGTTTTTGCTGCACCATACAGCCTGAGATTTCCACGTATTGATCGAATTAGATATGATAAACCTTGGCATGAATGCCTTGATGTGCAATCATTTATAGAGCTTGTAGATTCAGGCAATGGTACCACACAAAAGGGGACAGATTATGGTGGCCTGCAGGATGATAAAAAGAAACACAAGAGATCCTCTAGAAAGGAAGAGAAAAGAAATCTATCTCTTGTTCCCTCTCATTTAGTTCAGACTGATGTTTCTGGTGTCAAAGAGGACAGCTTAATATTTTCAAAAATGATGTTCTACTTTGCTAATGTGCCTCCAACTCATTCTCTTGATTCCTTGCACAAAATTGTTGCTGAGAATGGGGGTACTTTTTCGATGAATTTGAATAACTCAGTCACACACTGTGTTGCAGCTGATATCAAAGGGATTAAATATCAGGCAGCAAAACGTCAGGGAGATGTCATTCATTTGTCTTGGGTCTTGGATTGTTGCTCTCAAAAGAAACTCCTTCCTTTACAGCCAAAGTACTACCTCTTCATTTCTGACTCTTCAAAGAAGAAGTTAGAAGAAGAAATAGATGAGTTTTCTGACCCGTACTTCTGGGACCTTGACCTTGCAGACATTAAGCAGCTTCTAAGCAACGTGCCTAGATCAGAGGATACCAAACGTATCAACTATTACAAGAAAAAATACTGTCCTATGGAGAAATGGTCTCGATTTCACGGCTGCTGCATTTACTTTAACTCATCAATTCATTCCTTGAAACCGGATTGGGAAGTCGTGTTAGGAGTTACAGTAAGAAGATTAAAGATTGAAGTTCTCATGGGTGGTGGCAGAGTCAGTGACAATCTTGCTGATGCCACCCATTTGGTACTCTTGTCAATTCAGGGGTGCGATGTGGGATTCGAATCCTTATTGCTAAGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000726 GO:0003674 GO:0003824 GO:0003909 GO:0003910 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005911 GO:0006139 GO:0006259 GO:0006266 GO:0006281 GO:0006289 GO:0006297 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009314 GO:0009506 GO:0009628 GO:0009987 GO:0010165 GO:0010212 GO:0016874 GO:0016886 GO:0030054 GO:0032807 GO:0032991 GO:0033554 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048046 GO:0050896 GO:0051103 GO:0051716 GO:0055044 GO:0071704 GO:0090304 GO:0140097 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03450 map03450

Pfam Domains

Protein Families

BRCT_2 DNA_ligase_A_C DNA_ligase_A_M DNA_ligase_A_N DNA_ligase_IV

Protein Analysis

435

Amino Acids

49.31

Weight (kDa)

8.21

Isoelectric Point (pI)

46.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_ligase_A_C	PF04679	30 - 149	5.1e-12	ATP dependent DNA ligase C terminal region
BRCT	PF00533	218 - 290	4.1e-07	BRCA1 C Terminus (BRCT) domain
BRCT_2	PF16589	220 - 301	3e-12	BRCT domain
PTCB-BRCT	PF12738	235 - 279	6.5e-09	twin BRCT domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002242)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G57160 AT5G57160
fragaria_vesca	FvH4_4g07160
malus_domestica	MD16G1247900.v1.1
prunus_persica	Prupe.1G074600_v2.0.a1 Prupe.1G074600_v2.0.a1
pyrus_communis	pycom12g16110 pycom12g16210 pycom16g20800
rosa_chinensis	RchiOBHm_Chr0c22g0500591 RchiOBHm_Chr4g0399311 RchiOBHm_Chr5g0052491 RchiOBHm_Chr7g0206661
rosa_laevigata	RLG00000009274 RLG00000012027 RLG00000013478 RLG00000013735 RLG00000034678
rosa_multiflora	Rmu_co8101330.1_g000001 Rmu_co8329359.1_g000001 Rmu_sc0000924.1_g000031 Rmu_sc0003135.1_g000008
rosa_roxburghii	Rroxscaffold_4G00283390 Rroxscaffold_4G00329320 Rroxscaffold_5G00344240
rosa_rugosa	Rorug04G0016500
rosa_samantha	Rh2AG218900 Rh2BG192100 Rh2BG230700 Rh2CG361900 Rh2DG225100 Rh3BG254200 Rh3DG357600 Rh4AG094200 Rh4AG102100 Rh4BG091600 Rh4CG102400 Rh4CG110300 Rh4DG086300 Rh7DG237100 Rh7DG335000 Rh7DG335200
rosa_wichuraiana	Rw4G007730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	59
AatII	GACGTC	1 cut(s)	88
Acc65I	GGTACC	1 cut(s)	506
AccB1I	GGYRCC	2 cut(s)	265, 506
AclWI	GGATC	1 cut(s)	561
AcsI	RAATTY	1 cut(s)	760
AcyI	GRCGYC	1 cut(s)	85
AdeI	CACNNNGTG	1 cut(s)	785
AfaI	GTAC	6 cut(s)	184, 508, 748, 908, 977, 1254
AfiI	CCNNNNNNNGG	1 cut(s)	262
AgsI	TTSAA	9 cut(s)	8, 14, 300, 326, 666, 766, 933, 1144, 1196
AjnI	CCWGG	1 cut(s)	111
AluBI	AGCT	5 cut(s)	104, 487, 654, 794, 1012
AluI	AGCT	5 cut(s)	104, 487, 654, 794, 1012
Alw26I	GTCTC	2 cut(s)	301, 1098
AlwI	GGATC	1 cut(s)	561
AlwNI	CAGNNNCTG	1 cut(s)	112
AoxI	GGCC	1 cut(s)	535
ApeKI	GCWGC	6 cut(s)	395, 791, 821, 1009, 1107, 1110
ApoI	RAATTY	1 cut(s)	760
ArsI	GACNNNNNNTTYG	2 cut(s)	300, 332
Asp718I	GGTACC	1 cut(s)	506
AspS9I	GGNCC	2 cut(s)	381, 985
AsuII	TTCGAA	1 cut(s)	1287
AvaII	GGWCC	2 cut(s)	381, 985
BaeI	ACNNNNGTAYC	4 cut(s)	61, 94, 1244, 1277
BanI	GGYRCC	2 cut(s)	265, 506
BarI	GAAGNNNNNNTAC	5 cut(s)	38, 236, 268, 899, 931
BbvI	GCAGC	6 cut(s)	382, 803, 833, 1021, 1094, 1097
BceAI	ACGGC	1 cut(s)	1120
BcgI	CGANNNNNNTGC	2 cut(s)	374, 408
BciT130I	CCWGG	1 cut(s)	113
BciVI	GTATCC	2 cut(s)	62, 1033
BcoDI	GTCTC	2 cut(s)	301, 1098
BfaI	CTAG	2 cut(s)	573, 1029
BfmI	CTRYAG	1 cut(s)	539
BfuI	GTATCC	2 cut(s)	62, 1033
BisI	GCNGC	6 cut(s)	396, 792, 822, 1010, 1108, 1111
BlsI	GCNGC	6 cut(s)	397, 793, 823, 1011, 1109, 1112
BmcAI	AGTACT	1 cut(s)	908
Bme1390I	CCNGG	1 cut(s)	113
Bme18I	GGWCC	2 cut(s)	381, 985
BmgT120I	GGNCC	2 cut(s)	381, 985
BmiI	GGNNCC	3 cut(s)	267, 508, 986
BmrFI	CCNGG	1 cut(s)	113
BmsI	GCATC	2 cut(s)	199, 1228
Bpu10I	CCTNAGC	1 cut(s)	1301
Bpu14I	TTCGAA	1 cut(s)	1287
BsaAI	YACGTR	1 cut(s)	422
BsaBI	GATNNNNATC	1 cut(s)	1288
BsaHI	GRCGYC	1 cut(s)	85
BsaI	GGTCTC	2 cut(s)	301, 1098
BsaJI	CCNNGG	2 cut(s)	384, 449
BsaWI	WCCGGW	1 cut(s)	1147
BsaXI	ACNNNNNCTCC	6 cut(s)	84, 114, 1076, 1106, 1161, 1191
Bsc4I	CCNNNNNNNGG	1 cut(s)	262
Bse1I	ACTGG	2 cut(s)	134, 190
Bse3DI	GCAATG	1 cut(s)	508
Bse8I	GATNNNNATC	1 cut(s)	1288
BseBI	CCWGG	1 cut(s)	113
BseDI	CCNNGG	2 cut(s)	384, 449
BseGI	GGATG	3 cut(s)	55, 366, 550
BseJI	GATNNNNATC	1 cut(s)	1288
BseLI	CCNNNNNNNGG	1 cut(s)	262
BseMI	GCAATG	1 cut(s)	508
BseMII	CTCAG	5 cut(s)	119, 324, 401, 726, 786
BseNI	ACTGG	2 cut(s)	134, 190
BseRI	GAGGAG	1 cut(s)	215
BseXI	GCAGC	6 cut(s)	382, 803, 833, 1021, 1094, 1097
BsgI	GTGCAG	1 cut(s)	381
BshFI	GGCC	1 cut(s)	537
BshNI	GGYRCC	2 cut(s)	265, 506
BsiSI	CCGG	2 cut(s)	18, 1148
BslFI	GGGAC	2 cut(s)	535, 998
BslI	CCNNNNNNNGG	1 cut(s)	262
BsmAI	GTCTC	2 cut(s)	301, 1098
BsmFI	GGGAC	2 cut(s)	535, 998
BsmI	GAATGC	1 cut(s)	464
BsnI	GGCC	1 cut(s)	537
Bso31I	GGTCTC	2 cut(s)	301, 1098
Bsp119I	TTCGAA	1 cut(s)	1287
Bsp143I	GATC	4 cut(s)	43, 427, 566, 1031
BspANI	GGCC	1 cut(s)	537
BspCNI	CTCAG	5 cut(s)	118, 325, 402, 727, 785
BspLI	GGNNCC	3 cut(s)	267, 508, 986
BspMAI	CTGCAG	1 cut(s)	543
BspPI	GGATC	1 cut(s)	561
BspT104I	TTCGAA	1 cut(s)	1287
BspT107I	GGYRCC	2 cut(s)	265, 506
BspTNI	GGTCTC	2 cut(s)	301, 1098
BsrDI	GCAATG	1 cut(s)	508
BsrI	ACTGG	2 cut(s)	134, 190
BssECI	CCNNGG	2 cut(s)	384, 449
BssMI	GATC	4 cut(s)	43, 427, 566, 1031
BssNI	GRCGYC	1 cut(s)	85
BssT1I	CCWWGG	1 cut(s)	449
Bst2UI	CCWGG	1 cut(s)	113
Bst4CI	ACNGT	3 cut(s)	785, 1076, 1177
Bst6I	CTCTTC	3 cut(s)	576, 920, 934
BstACI	GRCGYC	1 cut(s)	85
BstBAI	YACGTR	1 cut(s)	422
BstBI	TTCGAA	1 cut(s)	1287
BstC8I	GCNNGC	1 cut(s)	539
BstDEI	CTNAG	7 cut(s)	105, 333, 410, 735, 772, 1016, 1301
BstF5I	GGATG	3 cut(s)	55, 366, 550
BstKTI	GATC	4 cut(s)	46, 430, 569, 1034
BstMAI	GTCTC	2 cut(s)	301, 1098
BstMBI	GATC	4 cut(s)	43, 427, 566, 1031
BstNI	CCWGG	1 cut(s)	113
BstSCI	CCNGG	1 cut(s)	111
BstSFI	CTRYAG	1 cut(s)	539
BstV1I	GCAGC	6 cut(s)	382, 803, 833, 1021, 1094, 1097
BstX2I	RGATCY	1 cut(s)	566
BstXI	CCANNNNNNTGG	2 cut(s)	318, 1249
BstYI	RGATCY	1 cut(s)	566
BsuI	GTATCC	2 cut(s)	62, 1033
BsuRI	GGCC	1 cut(s)	537
BtgZI	GCGATG	1 cut(s)	1290
BtsCI	GGATG	3 cut(s)	55, 366, 550
BtsIMutI	CAGTG	2 cut(s)	781, 1228
Cac8I	GCNNGC	1 cut(s)	539
CaiI	CAGNNNCTG	1 cut(s)	112
Cfr13I	GGNCC	2 cut(s)	381, 985
Csp6I	GTAC	6 cut(s)	183, 507, 747, 907, 976, 1253
CviAII	CATG	2 cut(s)	455, 1204
CviQI	GTAC	6 cut(s)	183, 507, 747, 907, 976, 1253
DdeI	CTNAG	7 cut(s)	105, 333, 410, 735, 772, 1016, 1301
DpnI	GATC	4 cut(s)	45, 429, 568, 1033
DpnII	GATC	4 cut(s)	43, 427, 566, 1031
DraIII	CACNNNGTG	1 cut(s)	785
Eam1104I	CTCTTC	3 cut(s)	576, 920, 934
EarI	CTCTTC	3 cut(s)	576, 920, 934
Eco130I	CCWWGG	1 cut(s)	449
Eco31I	GGTCTC	2 cut(s)	301, 1098
Eco32I	GATATC	1 cut(s)	799
Eco47I	GGWCC	2 cut(s)	381, 985
EcoO109I	RGGNCCY	1 cut(s)	985
EcoRII	CCWGG	1 cut(s)	111
EcoRV	GATATC	1 cut(s)	799
EcoT14I	CCWWGG	1 cut(s)	449
ErhI	CCWWGG	1 cut(s)	449
FaeI	CATG	2 cut(s)	458, 1207
FaqI	GGGAC	2 cut(s)	535, 998
FatI	CATG	2 cut(s)	454, 1203
Fnu4HI	GCNGC	6 cut(s)	396, 792, 822, 1010, 1108, 1111
FokI	GGATG	3 cut(s)	62, 353, 557
Fsp4HI	GCNGC	6 cut(s)	396, 792, 822, 1010, 1108, 1111
FspBI	CTAG	2 cut(s)	573, 1029
GluI	GCNGC	6 cut(s)	396, 792, 822, 1010, 1108, 1111
HaeIII	GGCC	1 cut(s)	537
HapII	CCGG	2 cut(s)	18, 1148
Hin1I	GRCGYC	1 cut(s)	85
Hin1II	CATG	2 cut(s)	458, 1207
HinfI	GANTC	6 cut(s)	494, 713, 926, 1218, 1284, 1289
HpaII	CCGG	2 cut(s)	18, 1148
Hpy188I	TCNGA	9 cut(s)	43, 153, 196, 371, 385, 624, 925, 970, 1036
Hpy188III	TCNNGA	5 cut(s)	47, 81, 573, 710, 1095
Hpy99I	CGWCG	1 cut(s)	90
HpyAV	CCTTC	2 cut(s)	150, 899
HpyCH4III	ACNGT	3 cut(s)	785, 1076, 1177
HpyCH4IV	ACGT	6 cut(s)	85, 130, 421, 829, 1023, 1048
HpyCH4V	TGCA	9 cut(s)	140, 174, 398, 472, 541, 721, 791, 998, 1113
HpyF3I	CTNAG	7 cut(s)	105, 333, 410, 735, 772, 1016, 1301
HpySE526I	ACGT	6 cut(s)	85, 130, 421, 829, 1023, 1048
Hsp92I	GRCGYC	1 cut(s)	85
Hsp92II	CATG	2 cut(s)	458, 1207
KpnI	GGTACC	1 cut(s)	510
Kzo9I	GATC	4 cut(s)	43, 427, 566, 1031
Lsp1109I	GCAGC	6 cut(s)	382, 803, 833, 1021, 1094, 1097
LweI	GCATC	2 cut(s)	199, 1228
MaeI	CTAG	2 cut(s)	573, 1029
MaeII	ACGT	6 cut(s)	85, 130, 421, 829, 1023, 1048
MaeIII	GTNAC	5 cut(s)	286, 362, 775, 1171, 1223
MalI	GATC	4 cut(s)	45, 429, 568, 1033
MboI	GATC	4 cut(s)	43, 427, 566, 1031
MboII	GAAGA	7 cut(s)	593, 907, 921, 949, 959, 962, 1194
MflI	RGATCY	1 cut(s)	566
MluCI	AATT	7 cut(s)	9, 224, 432, 726, 760, 1131, 1263
MlyI	GAGTC	2 cut(s)	920, 1227
MmeI	TCCRAC	1 cut(s)	722
MseI	TTAA	7 cut(s)	227, 239, 656, 810, 1005, 1122, 1187
MspA1I	CMGCKG	1 cut(s)	794
MspI	CCGG	2 cut(s)	18, 1148
MspR9I	CCNGG	1 cut(s)	113
Mva1269I	GAATGC	1 cut(s)	464
MvaI	CCWGG	1 cut(s)	113
NdeII	GATC	4 cut(s)	43, 427, 566, 1031
NlaIII	CATG	2 cut(s)	458, 1207
NlaIV	GGNNCC	3 cut(s)	267, 508, 986
NmuCI	GTSAC	3 cut(s)	362, 775, 1223
NspV	TTCGAA	1 cut(s)	1287
PcsI	WCGNNNNNNNCGW	1 cut(s)	427
PctI	GAATGC	1 cut(s)	464
PfeI	GAWTC	4 cut(s)	494, 713, 1284, 1289
PkrI	GCNGC	6 cut(s)	397, 793, 823, 1011, 1109, 1112
PleI	GAGTC	2 cut(s)	920, 1226
PpsI	GAGTC	2 cut(s)	920, 1226
Ppu21I	YACGTR	1 cut(s)	422
PpuMI	RGGWCCY	1 cut(s)	985
PsiI	TTATAA	1 cut(s)	59
Psp5II	RGGWCCY	1 cut(s)	985
Psp6I	CCWGG	1 cut(s)	111
PspGI	CCWGG	1 cut(s)	111
PspN4I	GGNNCC	3 cut(s)	267, 508, 986
PspPI	GGNCC	2 cut(s)	381, 985
PspPPI	RGGWCCY	1 cut(s)	985
PstI	CTGCAG	1 cut(s)	543
PstNI	CAGNNNCTG	1 cut(s)	112
PsuI	RGATCY	1 cut(s)	566
PvuII	CAGCTG	1 cut(s)	794
RsaI	GTAC	6 cut(s)	184, 508, 748, 908, 977, 1254
RsaNI	GTAC	6 cut(s)	183, 507, 747, 907, 976, 1253
SaqAI	TTAA	7 cut(s)	227, 239, 656, 810, 1005, 1122, 1187
SatI	GCNGC	6 cut(s)	396, 792, 822, 1010, 1108, 1111
Sau3AI	GATC	4 cut(s)	43, 427, 566, 1031
Sau96I	GGNCC	2 cut(s)	381, 985
SbfI	CCTGCAGG	1 cut(s)	543
ScaI	AGTACT	1 cut(s)	908
SchI	GAGTC	2 cut(s)	920, 1227
ScrFI	CCNGG	1 cut(s)	113
SdaI	CCTGCAGG	1 cut(s)	543
SfaNI	GCATC	2 cut(s)	199, 1228
SfcI	CTRYAG	1 cut(s)	539
SfuI	TTCGAA	1 cut(s)	1287
SinI	GGWCC	2 cut(s)	381, 985
Sse8387I	CCTGCAGG	1 cut(s)	543
Sse9I	AATT	7 cut(s)	9, 224, 432, 726, 760, 1131, 1263
SspI	AATATT	1 cut(s)	660
SspMI	CTAG	2 cut(s)	573, 1029
StyD4I	CCNGG	1 cut(s)	111
StyI	CCWWGG	1 cut(s)	449
TaaI	ACNGT	3 cut(s)	785, 1076, 1177
TaiI	ACGT	6 cut(s)	88, 133, 424, 832, 1026, 1051
TaqI	TCGA	4 cut(s)	430, 755, 1096, 1287
TasI	AATT	7 cut(s)	9, 224, 432, 726, 760, 1131, 1263
TatI	WGTACW	1 cut(s)	906
TfiI	GAWTC	4 cut(s)	494, 713, 1284, 1289
Tru1I	TTAA	7 cut(s)	227, 239, 656, 810, 1005, 1122, 1187
Tru9I	TTAA	7 cut(s)	227, 239, 656, 810, 1005, 1122, 1187
TscAI	CASTG	2 cut(s)	788, 1228
TseFI	GTSAC	3 cut(s)	362, 775, 1223
TseI	GCWGC	6 cut(s)	395, 791, 821, 1009, 1107, 1110
Tsp45I	GTSAC	3 cut(s)	362, 775, 1223
TspDTI	ATGAA	6 cut(s)	297, 471, 773, 836, 907, 1124
TspRI	CASTG	2 cut(s)	788, 1228
VpaK11BI	GGWCC	2 cut(s)	381, 985
XapI	RAATTY	1 cut(s)	760
XbaI	TCTAGA	1 cut(s)	572
XspI	CTAG	2 cut(s)	573, 1029
ZraI	GACGTC	1 cut(s)	86
ZrmI	AGTACT	1 cut(s)	908

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.