Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Reverse (-)

34912709 .. 34920663

Gene Structure 7955 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG290500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1251 bp

ATGAGATATTATATGTCCACCACCCATTCACTCCCCTACTCACACTCTCCTCTCTCATTCCACTCCTGCTCTGTCTCACACCCACACCGCTTCAACGTTCAATCAATGGCGGTCAAAAGGGTCCGCTCTGAGCTCCAAGTAAAAGTCAACGGCTCTCTCTCCGCTGCTGACTCCGACCAACTCTTCCTCGACCGCCAAAAAGCACTGGAGGCGGCGATGAATGATATCAATAGCTCATTCGGCAAGGGAAGTGTTACAAGACTAGGAAGCGCTGGCGGAGCTTTGGTTGAAACTTTCCCCAGTGGTTGCTTGACATTGGACCTTGCCTTAGGTGGCGGCCTCCCAAAAGGGAGAATTGTAGAGATATTTGGACCAGAAAGTAGTGGAAAGACAACTCTAGCACTCCATGCAATCGCAGAGGTGCAGAGGCTTGGAGGAAATGCTATGCTTGTTGATGCAGAACATGCCTTTGATCCAGCATATTCAAAAGCATTGGGAGTAGATGTAGAAAATCTGATTGTCTGCCAGCCTGATCATGGCGAAATGGCACTTGAGATTGCAGATCGTATGTGCAGATCTGGTGCCATTGATCTTATCTGTGTCGATTCTGTCTCGGCTCTCACTCCACGAGCAGAAATTGAAGGTGAGATCGGGATGCAACAAATGGGTTTGCAAGCACGCCTTATGAGCCAAGCTTTGCGCAAAATGTCAGGAAATGCATCTAAAGCTGGATGTACTCTCATATTCTTGAATCAAATAAGATATAAGATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTGGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAGGGAAAATAAAATCTGTAAAAGGAGACGAGGAAATTGGGGTTCGGGTCCGTGTACGAGTGCAAAAGAGTAAGGTTTCGAGGCCATACAAACAAGCTGAATTTGAAATTGTGTTTGGAGAGGGAGTAAGTCAATTGGGTTGCATTTTGGATTGTGCTGAAATGATGGATGTAGTAGTGAAGAAGGGCTCTTGGTATAGCTATGGGGACCACAGGTTGGGACAAGGAAGAGATAAATCATTGCAGTACTTGAGAGAGAACCCTGTTCTTCTTGATGAGATAGAGAAGATAGTTCGCTCCACAATGACAGATGCAACTGGACAGGTAGGCTCATTGCACACAAGGAACTTGCCAGTAACACATCAGGATGAAGATGATTTTGAAGATGTCCAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000150 GO:0000217 GO:0000400 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022607 GO:0033554 GO:0034622 GO:0034641 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0050896 GO:0051716 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140097 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

RecA

Protein Analysis

416

Amino Acids

45.34

Weight (kDa)

6.43

Isoelectric Point (pI)

37.28

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	67 - 329	7e-115	RecA N-terminal domain
Rad51	PF08423	101 - 285	3.8e-07	Rad51
RecA_C	PF21096	332 - 387	6.2e-22	RecA C-terminal 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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Orthologous Genes (Group: OG0003001)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79050 AT1G79050
fragaria_vesca	FvH4_1g27813
malus_domestica	MD09G1277400.v1.1 MD17G1270800.v1.1
prunus_persica	Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1 Prupe.3G015400_v2.0.a1
pyrus_communis	pycom09g18680 pycom17g26930
rosa_chinensis	RchiOBHm_Chr1g0376401 RchiOBHm_Chr3g0485071 RchiOBHm_Chr3g0485081 RchiOBHm_Chr3g0488901 RchiOBHm_Chr3g0488941 RchiOBHm_Chr3g0488951 RchiOBHm_Chr6g0270261
rosa_laevigata	RLG00000001730 RLG00000022906
rosa_multiflora	Rmu_sc0001208.1_g000006
rosa_roxburghii	Rroxscaffold_5G00371550 Rroxscaffold_6G00393780
rosa_rugosa	Rorug03G0242300
rosa_samantha	Rh2CG293500 Rh3AG266100 Rh3AG290500 Rh3BG327500 Rh3CG324800 Rh3DG323400 Rh3DG323700 Rh3DG329000 Rh5AG166700
rosa_wichuraiana	Rw1G015550 Rw1G026850 Rw3G025730 Rw5G015170 Rw7G021290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	701
AccB1I	GGYRCC	1 cut(s)	581
AccB7I	CCANNNNNTGG	1 cut(s)	1072
AccBSI	CCGCTC	1 cut(s)	126
AciI	CCGC	8 cut(s)	88, 110, 124, 162, 193, 212, 276, 336
AclI	AACGTT	1 cut(s)	96
AclWI	GGATC	1 cut(s)	467
AcsI	RAATTY	1 cut(s)	956
AfaI	GTAC	3 cut(s)	736, 912, 1103
AfeI	AGCGCT	1 cut(s)	271
AfiI	CCNNNNNNNGG	2 cut(s)	536, 1072
AgsI	TTSAA	8 cut(s)	94, 101, 290, 486, 641, 751, 962, 1238
AjnI	CCWGG	1 cut(s)	840
AjuI	GAANNNNNNNTTGG	2 cut(s)	954, 986
AluBI	AGCT	7 cut(s)	133, 234, 281, 695, 728, 953, 1056
AluI	AGCT	7 cut(s)	133, 234, 281, 695, 728, 953, 1056
Alw21I	GWGCWC	1 cut(s)	135
Alw26I	GTCTC	3 cut(s)	79, 616, 876
AlwI	GGATC	1 cut(s)	467
Aor51HI	AGCGCT	1 cut(s)	271
AoxI	GGCC	2 cut(s)	337, 938
ApeKI	GCWGC	1 cut(s)	164
ApoI	RAATTY	1 cut(s)	956
AspLEI	GCGC	2 cut(s)	272, 702
AspS9I	GGNCC	5 cut(s)	121, 319, 371, 904, 1063
AsuHPI	GGTGA	1 cut(s)	656
AvaII	GGWCC	5 cut(s)	121, 319, 371, 904, 1063
AxyI	CCTNAGG	1 cut(s)	328
BanI	GGYRCC	1 cut(s)	581
BanII	GRGCYC	2 cut(s)	135, 1046
BauI	CACGAG	1 cut(s)	627
Bbv12I	GWGCWC	1 cut(s)	135
BbvI	GCAGC	1 cut(s)	151
BccI	CCATC	1 cut(s)	1015
BceAI	ACGGC	1 cut(s)	166
BciT130I	CCWGG	1 cut(s)	842
BclI	TGATCA	1 cut(s)	532
BcoDI	GTCTC	3 cut(s)	79, 616, 876
BfaI	CTAG	2 cut(s)	263, 398
BfmI	CTRYAG	1 cut(s)	855
BfoI	RGCGCY	1 cut(s)	273
BglII	AGATCT	1 cut(s)	575
BisI	GCNGC	3 cut(s)	165, 213, 337
BlsI	GCNGC	3 cut(s)	166, 214, 338
BmcAI	AGTACT	1 cut(s)	1103
Bme1390I	CCNGG	1 cut(s)	842
Bme18I	GGWCC	5 cut(s)	121, 319, 371, 904, 1063
BmgT120I	GGNCC	5 cut(s)	121, 319, 371, 904, 1063
BmiI	GGNNCC	4 cut(s)	122, 583, 905, 1064
BmrFI	CCNGG	1 cut(s)	842
BmrI	ACTGGG	1 cut(s)	294
BmsI	GCATC	4 cut(s)	445, 645, 728, 1156
BmuI	ACTGGG	1 cut(s)	294
BpmI	CTGGAG	2 cut(s)	227, 825
BpuEI	CTTGAG	2 cut(s)	572, 1126
BsaXI	ACNNNNNCTCC	6 cut(s)	270, 300, 489, 519, 966, 996
Bsc4I	CCNNNNNNNGG	2 cut(s)	536, 1072
Bse1I	ACTGG	4 cut(s)	210, 300, 1177, 1208
Bse21I	CCTNAGG	1 cut(s)	328
Bse3DI	GCAATG	2 cut(s)	1094, 1187
BseBI	CCWGG	1 cut(s)	842
BseGI	GGATG	4 cut(s)	660, 737, 1030, 1228
BseLI	CCNNNNNNNGG	2 cut(s)	536, 1072
BseMI	GCAATG	2 cut(s)	1094, 1187
BseMII	CTCAG	2 cut(s)	120, 846
BseNI	ACTGG	4 cut(s)	210, 300, 1177, 1208
BseRI	GAGGAG	1 cut(s)	39
BseXI	GCAGC	1 cut(s)	151
BsgI	GTGCAG	2 cut(s)	443, 592
Bsh1285I	CGRYCG	1 cut(s)	193
BshFI	GGCC	2 cut(s)	339, 940
BshNI	GGYRCC	1 cut(s)	581
BsiEI	CGRYCG	1 cut(s)	193
BsiHKAI	GWGCWC	1 cut(s)	135
BslFI	GGGAC	2 cut(s)	1076, 1089
BslI	CCNNNNNNNGG	2 cut(s)	536, 1072
BsmAI	GTCTC	3 cut(s)	79, 616, 876
BsmBI	CGTCTC	1 cut(s)	876
BsmFI	GGGAC	2 cut(s)	1076, 1089
BsnI	GGCC	2 cut(s)	339, 940
Bsp1286I	GDGCHC	2 cut(s)	135, 1046
Bsp143I	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
BspACI	CCGC	8 cut(s)	88, 110, 124, 162, 193, 212, 276, 336
BspANI	GGCC	2 cut(s)	339, 940
BspCNI	CTCAG	2 cut(s)	121, 845
BspLI	GGNNCC	4 cut(s)	122, 583, 905, 1064
BspPI	GGATC	1 cut(s)	467
BspT107I	GGYRCC	1 cut(s)	581
BsrBI	CCGCTC	1 cut(s)	126
BsrDI	GCAATG	2 cut(s)	1094, 1187
BsrI	ACTGG	4 cut(s)	210, 300, 1177, 1208
BssMI	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
BssSI	CACGAG	1 cut(s)	627
Bst2BI	CACGAG	1 cut(s)	627
Bst2UI	CCWGG	1 cut(s)	842
Bst6I	CTCTTC	2 cut(s)	188, 1078
BstAPI	GCANNNNNTGC	2 cut(s)	407, 464
BstC8I	GCNNGC	4 cut(s)	274, 527, 675, 679
BstDEI	CTNAG	3 cut(s)	129, 328, 832
BstF5I	GGATG	4 cut(s)	660, 737, 1030, 1228
BstH2I	RGCGCY	1 cut(s)	273
BstHHI	GCGC	2 cut(s)	272, 702
BstKTI	GATC	6 cut(s)	475, 535, 565, 578, 592, 651
BstMAI	GTCTC	3 cut(s)	79, 616, 876
BstMBI	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
BstMCI	CGRYCG	1 cut(s)	193
BstMWI	GCNNNNNNNGC	7 cut(s)	209, 240, 278, 407, 464, 687, 725
BstNI	CCWGG	1 cut(s)	842
BstNSI	RCATGY	1 cut(s)	467
BstSCI	CCNGG	1 cut(s)	840
BstSFI	CTRYAG	1 cut(s)	855
BstV1I	GCAGC	1 cut(s)	151
BstX2I	RGATCY	1 cut(s)	575
BstYI	RGATCY	1 cut(s)	575
Bsu36I	CCTNAGG	1 cut(s)	328
BsuRI	GGCC	2 cut(s)	339, 940
BtgZI	GCGATG	1 cut(s)	230
BtsCI	GGATG	4 cut(s)	660, 737, 1030, 1228
BtsIMutI	CAGTG	2 cut(s)	203, 307
Cac8I	GCNNGC	4 cut(s)	274, 527, 675, 679
CfoI	GCGC	2 cut(s)	272, 702
Cfr13I	GGNCC	5 cut(s)	121, 319, 371, 904, 1063
Csp6I	GTAC	3 cut(s)	735, 911, 1102
CviAII	CATG	3 cut(s)	407, 464, 536
CviQI	GTAC	3 cut(s)	735, 911, 1102
DdeI	CTNAG	3 cut(s)	129, 328, 832
DpnI	GATC	6 cut(s)	474, 534, 564, 577, 591, 650
DpnII	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
Eam1104I	CTCTTC	2 cut(s)	188, 1078
EarI	CTCTTC	2 cut(s)	188, 1078
EciI	GGCGGA	1 cut(s)	291
Ecl136II	GAGCTC	1 cut(s)	133
Eco24I	GRGCYC	2 cut(s)	135, 1046
Eco32I	GATATC	1 cut(s)	226
Eco47I	GGWCC	5 cut(s)	121, 319, 371, 904, 1063
Eco47III	AGCGCT	1 cut(s)	271
Eco53kI	GAGCTC	1 cut(s)	133
Eco81I	CCTNAGG	1 cut(s)	328
EcoICRI	GAGCTC	1 cut(s)	133
EcoRII	CCWGG	1 cut(s)	840
EcoRV	GATATC	1 cut(s)	226
EcoT22I	ATGCAT	1 cut(s)	721
EcoT38I	GRGCYC	2 cut(s)	135, 1046
Esp3I	CGTCTC	1 cut(s)	876
FaeI	CATG	3 cut(s)	410, 467, 539
FalI	AAGNNNNNCTT	2 cut(s)	666, 698
FaqI	GGGAC	2 cut(s)	1076, 1089
FatI	CATG	3 cut(s)	406, 463, 535
FbaI	TGATCA	1 cut(s)	532
Fnu4HI	GCNGC	3 cut(s)	165, 213, 337
FokI	GGATG	4 cut(s)	667, 744, 1037, 1235
FriOI	GRGCYC	2 cut(s)	135, 1046
Fsp4HI	GCNGC	3 cut(s)	165, 213, 337
FspBI	CTAG	2 cut(s)	263, 398
FspI	TGCGCA	1 cut(s)	701
GlaI	GCGC	2 cut(s)	271, 701
GluI	GCNGC	3 cut(s)	165, 213, 337
GsuI	CTGGAG	2 cut(s)	227, 825
HaeII	RGCGCY	1 cut(s)	273
HaeIII	GGCC	2 cut(s)	339, 940
HhaI	GCGC	2 cut(s)	272, 702
Hin1II	CATG	3 cut(s)	410, 467, 539
Hin6I	GCGC	2 cut(s)	270, 700
HinP1I	GCGC	2 cut(s)	270, 700
HincII	GTYRAC	1 cut(s)	148
HindII	GTYRAC	1 cut(s)	148
HindIII	AAGCTT	1 cut(s)	693
HinfI	GANTC	4 cut(s)	170, 605, 751, 787
HphI	GGTGA	1 cut(s)	656
Hpy166II	GTNNAC	3 cut(s)	18, 148, 911
Hpy188I	TCNGA	3 cut(s)	130, 175, 516
Hpy188III	TCNNGA	7 cut(s)	652, 711, 748, 791, 804, 1127, 1220
Hpy8I	GTNNAC	3 cut(s)	18, 148, 911
HpyAV	CCTTC	2 cut(s)	635, 1033
HpyCH4IV	ACGT	2 cut(s)	96, 850
HpyF10VI	GCNNNNNNNGC	7 cut(s)	209, 240, 278, 407, 464, 687, 725
HpyF3I	CTNAG	3 cut(s)	129, 328, 832
HpySE526I	ACGT	2 cut(s)	96, 850
Hsp92II	CATG	3 cut(s)	410, 467, 539
HspAI	GCGC	2 cut(s)	270, 700
Ksp22I	TGATCA	1 cut(s)	532
Kzo9I	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
LmnI	GCTCC	3 cut(s)	138, 278, 1157
Lsp1109I	GCAGC	1 cut(s)	151
LweI	GCATC	4 cut(s)	445, 645, 728, 1156
MaeI	CTAG	2 cut(s)	263, 398
MaeII	ACGT	2 cut(s)	96, 850
MaeIII	GTNAC	3 cut(s)	253, 796, 1210
MalI	GATC	6 cut(s)	474, 534, 564, 577, 591, 650
MbiI	CCGCTC	1 cut(s)	126
MboI	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
MboII	GAAGA	7 cut(s)	175, 1048, 1095, 1115, 1153, 1238, 1250
MfeI	CAATTG	1 cut(s)	989
MflI	RGATCY	1 cut(s)	575
MhlI	GDGCHC	2 cut(s)	135, 1046
MluCI	AATT	7 cut(s)	354, 636, 810, 891, 956, 963, 989
MlyI	GAGTC	1 cut(s)	164
MmeI	TCCRAC	1 cut(s)	198
Mph1103I	ATGCAT	1 cut(s)	721
MseI	TTAA	1 cut(s)	818
MslI	CAYNNNNRTG	1 cut(s)	1221
MspA1I	CMGCKG	1 cut(s)	164
MspR9I	CCNGG	1 cut(s)	842
MunI	CAATTG	1 cut(s)	989
MvaI	CCWGG	1 cut(s)	842
MwoI	GCNNNNNNNGC	7 cut(s)	209, 240, 278, 407, 464, 687, 725
NdeII	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
NlaIII	CATG	3 cut(s)	410, 467, 539
NlaIV	GGNNCC	4 cut(s)	122, 583, 905, 1064
NmeAIII	GCCGAG	1 cut(s)	593
NmuCI	GTSAC	1 cut(s)	796
NsbI	TGCGCA	1 cut(s)	701
NsiI	ATGCAT	1 cut(s)	721
NspI	RCATGY	1 cut(s)	467
PfeI	GAWTC	3 cut(s)	605, 751, 787
PflMI	CCANNNNNTGG	1 cut(s)	1072
PkrI	GCNGC	3 cut(s)	166, 214, 338
PleI	GAGTC	1 cut(s)	164
PpsI	GAGTC	1 cut(s)	164
Psp124BI	GAGCTC	1 cut(s)	135
Psp1406I	AACGTT	1 cut(s)	96
Psp6I	CCWGG	1 cut(s)	840
PspGI	CCWGG	1 cut(s)	840
PspN4I	GGNNCC	4 cut(s)	122, 583, 905, 1064
PspPI	GGNCC	5 cut(s)	121, 319, 371, 904, 1063
PsuI	RGATCY	1 cut(s)	575
RsaI	GTAC	3 cut(s)	736, 912, 1103
RsaNI	GTAC	3 cut(s)	735, 911, 1102
RseI	CAYNNNNRTG	1 cut(s)	1221
SacI	GAGCTC	1 cut(s)	135
SaqAI	TTAA	1 cut(s)	818
SatI	GCNGC	3 cut(s)	165, 213, 337
Sau3AI	GATC	6 cut(s)	472, 532, 562, 575, 589, 648
Sau96I	GGNCC	5 cut(s)	121, 319, 371, 904, 1063
ScaI	AGTACT	1 cut(s)	1103
SchI	GAGTC	1 cut(s)	164
ScrFI	CCNGG	1 cut(s)	842
SduI	GDGCHC	2 cut(s)	135, 1046
SfaNI	GCATC	4 cut(s)	445, 645, 728, 1156
SfcI	CTRYAG	1 cut(s)	855
SinI	GGWCC	5 cut(s)	121, 319, 371, 904, 1063
SmiMI	CAYNNNNRTG	1 cut(s)	1221
SmlI	CTYRAG	2 cut(s)	551, 1105
SmoI	CTYRAG	2 cut(s)	551, 1105
Sse9I	AATT	7 cut(s)	354, 636, 810, 891, 956, 963, 989
SsiI	CCGC	8 cut(s)	88, 110, 124, 162, 193, 212, 276, 336
SspMI	CTAG	2 cut(s)	263, 398
SstI	GAGCTC	1 cut(s)	135
StyD4I	CCNGG	1 cut(s)	840
TaiI	ACGT	2 cut(s)	99, 853
TaqI	TCGA	3 cut(s)	189, 603, 935
TasI	AATT	7 cut(s)	354, 636, 810, 891, 956, 963, 989
TatI	WGTACW	2 cut(s)	734, 1101
TauI	GCSGC	2 cut(s)	215, 339
TfiI	GAWTC	3 cut(s)	605, 751, 787
Tru1I	TTAA	1 cut(s)	818
Tru9I	TTAA	1 cut(s)	818
TscAI	CASTG	2 cut(s)	210, 307
TseFI	GTSAC	1 cut(s)	796
TseI	GCWGC	1 cut(s)	164
Tsp45I	GTSAC	1 cut(s)	796
TspDTI	ATGAA	2 cut(s)	233, 1239
TspGWI	ACGGA	1 cut(s)	896
TspRI	CASTG	2 cut(s)	210, 307
Van91I	CCANNNNNTGG	1 cut(s)	1072
VpaK11BI	GGWCC	5 cut(s)	121, 319, 371, 904, 1063
XapI	RAATTY	1 cut(s)	956
XceI	RCATGY	1 cut(s)	467
XcmI	CCANNNNNNNNNTGG	1 cut(s)	533
XspI	CTAG	2 cut(s)	263, 398
ZrmI	AGTACT	1 cut(s)	1103
Zsp2I	ATGCAT	1 cut(s)	721

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