Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Forward (+)

14862529 .. 14870619

Gene Structure 8091 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000022906

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1278 bp

ATGGGTTTAGCGCTGAGAAGCAACAGCGCAAGCATGACATATTATATGTCCACCACCCATTCACTCCCCTACTCACACTCTCCTCTCCCATTCCACTCCTGCTCTCTCCCACAGCGTTTCAACTTTCAATCAATGGCGGTCAAAAGGGTCCGCTCTGAGCTCCAAGTAAAAGTCAACGGCTCTCTCTCCGCTGCTGACTCCGACCAACTCTTCCTCGACCGCCAAAAAGCACTGGAGGCGGCCATGAATGATATCAATAGCTCATTCGGCAAGGGAAGTGTTACAAGACTAGGAAGCGCTGGTGGAGCTTTGGTTGAAACTTTCCCCAGTGGTTGCTTGACATTGGACCTTGCCTTAGGTGGTGGCCTCCCAAAAGGGAGAATTGTAGAGATATTTGGACCAGAAAGTAGTGGAAAGACAACTCTAGCACTCCATGCAATCGCAGAGGTGCAGAGGCTTGGAGGAAATGCTATGCTTGTTGATGCAGAACATGCCTTTGATCCAGCATATTCAAAAGCATTGGGAGTAGATGTGGAAAATCTGATTGTCTGCCAGCCTGATCATGGCGAAATGGCACTTGAGATTGCAGATCGTATGTGCAGATCTGGTGCCATTGATCTTATCTGTGTCGATTCTGTCTCGGCTCTCACTCCACGAGCAGAAATTGAAGGTGAGATCGGGATGCAACAAATGGGTTTGCAAGCACGCCTTATGAGCCAAGCTTTGCGCAAAATGTCAGGAAATGCATCTAAAGCTGGATGTACTCTCATATTCTTGAATCAAATAAGATATAAGATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTGGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAGGGAAAATAAAATCTGTAAAAGGAGACGAGGAAATTGGGGTTCGGGTCCGTGTACGAGTGCAAAAGAGTAAGGTTTCGAGGCCATACAAACAAGCTGAATTTGAAATTGTGTTTGGAGAGGGAGTAAGTAAATTGGGTTGCATTTTGGATTGTGCTGAAATGATGGATGTAGTAGTGAAGAAGGGCTCTTGGTATAGCTATGGGGACCACAGGTTGGGACAAGGAAGAGATAAATCGTTGCAGTACTTGAGAGAGAACCCTGTTCTTCTCGATGAGATAGAGAAGATAGTTCGCTCCACAATGACAGATGCAACTGGACAGGTAGGCTCATTGCACACAAGGAACTTGCCAGTAACACATCAGGATGAAGATGATTTTGAAGATGTCCAATGA

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

426

Amino Acids

46.21

Weight (kDa)

6.53

Isoelectric Point (pI)

39.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	76 - 338	7.4e-115	RecA N-terminal domain
Rad51	PF08423	110 - 294	4e-07	Rad51
RecA_C	PF21096	341 - 396	6.4e-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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Publication-ready

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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)	728
AccB1I	GGYRCC	1 cut(s)	608
AccB7I	CCANNNNNTGG	1 cut(s)	1099
AccBSI	CCGCTC	1 cut(s)	153
AciI	CCGC	5 cut(s)	137, 151, 189, 220, 239
AclWI	GGATC	1 cut(s)	494
AcoI	YGGCCR	1 cut(s)	240
AcsI	RAATTY	1 cut(s)	983
AfaI	GTAC	3 cut(s)	763, 939, 1130
AfeI	AGCGCT	2 cut(s)	12, 298
AfiI	CCNNNNNNNGG	2 cut(s)	563, 1099
AgsI	TTSAA	8 cut(s)	121, 128, 317, 513, 668, 778, 989, 1265
AjnI	CCWGG	1 cut(s)	867
AjuI	GAANNNNNNNTTGG	2 cut(s)	981, 1013
AluBI	AGCT	7 cut(s)	160, 261, 308, 722, 755, 980, 1083
AluI	AGCT	7 cut(s)	160, 261, 308, 722, 755, 980, 1083
Alw21I	GWGCWC	1 cut(s)	162
Alw26I	GTCTC	2 cut(s)	643, 903
AlwI	GGATC	1 cut(s)	494
Aor51HI	AGCGCT	2 cut(s)	12, 298
AoxI	GGCC	3 cut(s)	240, 364, 965
ApeKI	GCWGC	1 cut(s)	191
ApoI	RAATTY	1 cut(s)	983
AspLEI	GCGC	4 cut(s)	13, 29, 299, 729
AspS9I	GGNCC	5 cut(s)	148, 346, 398, 931, 1090
AsuHPI	GGTGA	1 cut(s)	683
AvaII	GGWCC	5 cut(s)	148, 346, 398, 931, 1090
AxyI	CCTNAGG	1 cut(s)	355
BanI	GGYRCC	1 cut(s)	608
BanII	GRGCYC	2 cut(s)	162, 1073
BauI	CACGAG	1 cut(s)	654
Bbv12I	GWGCWC	1 cut(s)	162
BbvI	GCAGC	1 cut(s)	178
BccI	CCATC	1 cut(s)	1042
BceAI	ACGGC	1 cut(s)	193
BciT130I	CCWGG	1 cut(s)	869
BclI	TGATCA	1 cut(s)	559
BcoDI	GTCTC	2 cut(s)	643, 903
BfaI	CTAG	2 cut(s)	290, 425
BfmI	CTRYAG	1 cut(s)	882
BfoI	RGCGCY	2 cut(s)	14, 300
BglII	AGATCT	1 cut(s)	602
BisI	GCNGC	2 cut(s)	192, 240
BlsI	GCNGC	2 cut(s)	193, 241
BmcAI	AGTACT	1 cut(s)	1130
Bme1390I	CCNGG	1 cut(s)	869
Bme18I	GGWCC	5 cut(s)	148, 346, 398, 931, 1090
BmgT120I	GGNCC	5 cut(s)	148, 346, 398, 931, 1090
BmiI	GGNNCC	4 cut(s)	149, 610, 932, 1091
BmrFI	CCNGG	1 cut(s)	869
BmrI	ACTGGG	1 cut(s)	321
BmsI	GCATC	4 cut(s)	472, 672, 755, 1183
BmuI	ACTGGG	1 cut(s)	321
BpmI	CTGGAG	2 cut(s)	254, 852
BpuEI	CTTGAG	2 cut(s)	599, 1153
BsaXI	ACNNNNNCTCC	6 cut(s)	297, 327, 516, 546, 993, 1023
Bsc4I	CCNNNNNNNGG	2 cut(s)	563, 1099
Bse1I	ACTGG	4 cut(s)	237, 327, 1204, 1235
Bse21I	CCTNAGG	1 cut(s)	355
Bse3DI	GCAATG	1 cut(s)	1214
BseBI	CCWGG	1 cut(s)	869
BseGI	GGATG	4 cut(s)	687, 764, 1057, 1255
BseLI	CCNNNNNNNGG	2 cut(s)	563, 1099
BseMI	GCAATG	1 cut(s)	1214
BseMII	CTCAG	3 cut(s)	5, 147, 873
BseNI	ACTGG	4 cut(s)	237, 327, 1204, 1235
BseRI	GAGGAG	1 cut(s)	72
BseXI	GCAGC	1 cut(s)	178
BsgI	GTGCAG	2 cut(s)	470, 619
Bsh1285I	CGRYCG	1 cut(s)	220
BshFI	GGCC	3 cut(s)	242, 366, 967
BshNI	GGYRCC	1 cut(s)	608
BsiEI	CGRYCG	1 cut(s)	220
BsiHKAI	GWGCWC	1 cut(s)	162
BslFI	GGGAC	2 cut(s)	1103, 1116
BslI	CCNNNNNNNGG	2 cut(s)	563, 1099
BsmAI	GTCTC	2 cut(s)	643, 903
BsmBI	CGTCTC	1 cut(s)	903
BsmFI	GGGAC	2 cut(s)	1103, 1116
BsnI	GGCC	3 cut(s)	242, 366, 967
Bsp1286I	GDGCHC	2 cut(s)	162, 1073
Bsp143I	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
BspACI	CCGC	5 cut(s)	137, 151, 189, 220, 239
BspANI	GGCC	3 cut(s)	242, 366, 967
BspCNI	CTCAG	3 cut(s)	6, 148, 872
BspLI	GGNNCC	4 cut(s)	149, 610, 932, 1091
BspPI	GGATC	1 cut(s)	494
BspT107I	GGYRCC	1 cut(s)	608
BsrBI	CCGCTC	1 cut(s)	153
BsrDI	GCAATG	1 cut(s)	1214
BsrI	ACTGG	4 cut(s)	237, 327, 1204, 1235
BssMI	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
BssSI	CACGAG	1 cut(s)	654
Bst2BI	CACGAG	1 cut(s)	654
Bst2UI	CCWGG	1 cut(s)	869
Bst6I	CTCTTC	2 cut(s)	215, 1105
BstAPI	GCANNNNNTGC	2 cut(s)	434, 491
BstC8I	GCNNGC	4 cut(s)	31, 554, 702, 706
BstDEI	CTNAG	4 cut(s)	14, 156, 355, 859
BstF5I	GGATG	4 cut(s)	687, 764, 1057, 1255
BstH2I	RGCGCY	2 cut(s)	14, 300
BstHHI	GCGC	4 cut(s)	13, 29, 299, 729
BstKTI	GATC	6 cut(s)	502, 562, 592, 605, 619, 678
BstMAI	GTCTC	2 cut(s)	643, 903
BstMBI	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
BstMCI	CGRYCG	1 cut(s)	220
BstMWI	GCNNNNNNNGC	7 cut(s)	236, 267, 305, 434, 491, 714, 752
BstNI	CCWGG	1 cut(s)	869
BstNSI	RCATGY	1 cut(s)	494
BstSCI	CCNGG	1 cut(s)	867
BstSFI	CTRYAG	1 cut(s)	882
BstV1I	GCAGC	1 cut(s)	178
BstX2I	RGATCY	1 cut(s)	602
BstYI	RGATCY	1 cut(s)	602
Bsu36I	CCTNAGG	1 cut(s)	355
BsuRI	GGCC	3 cut(s)	242, 366, 967
BtsCI	GGATG	4 cut(s)	687, 764, 1057, 1255
BtsIMutI	CAGTG	2 cut(s)	230, 334
Cac8I	GCNNGC	4 cut(s)	31, 554, 702, 706
CfoI	GCGC	4 cut(s)	13, 29, 299, 729
Cfr13I	GGNCC	5 cut(s)	148, 346, 398, 931, 1090
Csp6I	GTAC	3 cut(s)	762, 938, 1129
CviAII	CATG	5 cut(s)	34, 244, 434, 491, 563
CviQI	GTAC	3 cut(s)	762, 938, 1129
DdeI	CTNAG	4 cut(s)	14, 156, 355, 859
DpnI	GATC	6 cut(s)	501, 561, 591, 604, 618, 677
DpnII	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
EaeI	YGGCCR	1 cut(s)	240
Eam1104I	CTCTTC	2 cut(s)	215, 1105
EarI	CTCTTC	2 cut(s)	215, 1105
Ecl136II	GAGCTC	1 cut(s)	160
Eco24I	GRGCYC	2 cut(s)	162, 1073
Eco32I	GATATC	1 cut(s)	253
Eco47I	GGWCC	5 cut(s)	148, 346, 398, 931, 1090
Eco47III	AGCGCT	2 cut(s)	12, 298
Eco53kI	GAGCTC	1 cut(s)	160
Eco81I	CCTNAGG	1 cut(s)	355
EcoICRI	GAGCTC	1 cut(s)	160
EcoRII	CCWGG	1 cut(s)	867
EcoRV	GATATC	1 cut(s)	253
EcoT22I	ATGCAT	1 cut(s)	748
EcoT38I	GRGCYC	2 cut(s)	162, 1073
Esp3I	CGTCTC	1 cut(s)	903
FaeI	CATG	5 cut(s)	37, 247, 437, 494, 566
FalI	AAGNNNNNCTT	2 cut(s)	693, 725
FaqI	GGGAC	2 cut(s)	1103, 1116
FatI	CATG	5 cut(s)	33, 243, 433, 490, 562
FbaI	TGATCA	1 cut(s)	559
Fnu4HI	GCNGC	2 cut(s)	192, 240
FokI	GGATG	4 cut(s)	694, 771, 1064, 1262
FriOI	GRGCYC	2 cut(s)	162, 1073
Fsp4HI	GCNGC	2 cut(s)	192, 240
FspBI	CTAG	2 cut(s)	290, 425
FspI	TGCGCA	1 cut(s)	728
GlaI	GCGC	4 cut(s)	12, 28, 298, 728
GluI	GCNGC	2 cut(s)	192, 240
GsuI	CTGGAG	2 cut(s)	254, 852
HaeII	RGCGCY	2 cut(s)	14, 300
HaeIII	GGCC	3 cut(s)	242, 366, 967
HhaI	GCGC	4 cut(s)	13, 29, 299, 729
Hin1II	CATG	5 cut(s)	37, 247, 437, 494, 566
Hin6I	GCGC	4 cut(s)	11, 27, 297, 727
HinP1I	GCGC	4 cut(s)	11, 27, 297, 727
HincII	GTYRAC	1 cut(s)	175
HindII	GTYRAC	1 cut(s)	175
HindIII	AAGCTT	1 cut(s)	720
HinfI	GANTC	4 cut(s)	197, 632, 778, 814
HphI	GGTGA	1 cut(s)	683
Hpy166II	GTNNAC	3 cut(s)	51, 175, 938
Hpy188I	TCNGA	3 cut(s)	157, 202, 543
Hpy188III	TCNNGA	7 cut(s)	679, 738, 775, 818, 831, 1154, 1247
Hpy8I	GTNNAC	3 cut(s)	51, 175, 938
HpyAV	CCTTC	2 cut(s)	662, 1060
HpyCH4IV	ACGT	1 cut(s)	877
HpyF10VI	GCNNNNNNNGC	7 cut(s)	236, 267, 305, 434, 491, 714, 752
HpyF3I	CTNAG	4 cut(s)	14, 156, 355, 859
HpySE526I	ACGT	1 cut(s)	877
Hsp92II	CATG	5 cut(s)	37, 247, 437, 494, 566
HspAI	GCGC	4 cut(s)	11, 27, 297, 727
Ksp22I	TGATCA	1 cut(s)	559
Kzo9I	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
LmnI	GCTCC	3 cut(s)	165, 305, 1184
Lsp1109I	GCAGC	1 cut(s)	178
LweI	GCATC	4 cut(s)	472, 672, 755, 1183
MaeI	CTAG	2 cut(s)	290, 425
MaeII	ACGT	1 cut(s)	877
MaeIII	GTNAC	3 cut(s)	280, 823, 1237
MalI	GATC	6 cut(s)	501, 561, 591, 604, 618, 677
MbiI	CCGCTC	1 cut(s)	153
MboI	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
MboII	GAAGA	7 cut(s)	202, 1075, 1122, 1142, 1180, 1265, 1277
MflI	RGATCY	1 cut(s)	602
MhlI	GDGCHC	2 cut(s)	162, 1073
MluCI	AATT	7 cut(s)	381, 663, 837, 918, 983, 990, 1016
MlyI	GAGTC	1 cut(s)	191
MmeI	TCCRAC	1 cut(s)	225
Mph1103I	ATGCAT	1 cut(s)	748
MseI	TTAA	1 cut(s)	845
MslI	CAYNNNNRTG	1 cut(s)	1248
MspA1I	CMGCKG	1 cut(s)	191
MspR9I	CCNGG	1 cut(s)	869
MvaI	CCWGG	1 cut(s)	869
MwoI	GCNNNNNNNGC	7 cut(s)	236, 267, 305, 434, 491, 714, 752
NdeII	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
NlaIII	CATG	5 cut(s)	37, 247, 437, 494, 566
NlaIV	GGNNCC	4 cut(s)	149, 610, 932, 1091
NmeAIII	GCCGAG	1 cut(s)	620
NmuCI	GTSAC	1 cut(s)	823
NsbI	TGCGCA	1 cut(s)	728
NsiI	ATGCAT	1 cut(s)	748
NspI	RCATGY	1 cut(s)	494
PfeI	GAWTC	3 cut(s)	632, 778, 814
PflMI	CCANNNNNTGG	1 cut(s)	1099
PkrI	GCNGC	2 cut(s)	193, 241
PleI	GAGTC	1 cut(s)	191
PpsI	GAGTC	1 cut(s)	191
Psp124BI	GAGCTC	1 cut(s)	162
Psp6I	CCWGG	1 cut(s)	867
PspGI	CCWGG	1 cut(s)	867
PspN4I	GGNNCC	4 cut(s)	149, 610, 932, 1091
PspPI	GGNCC	5 cut(s)	148, 346, 398, 931, 1090
PsuI	RGATCY	1 cut(s)	602
RsaI	GTAC	3 cut(s)	763, 939, 1130
RsaNI	GTAC	3 cut(s)	762, 938, 1129
RseI	CAYNNNNRTG	1 cut(s)	1248
SacI	GAGCTC	1 cut(s)	162
SaqAI	TTAA	1 cut(s)	845
SatI	GCNGC	2 cut(s)	192, 240
Sau3AI	GATC	6 cut(s)	499, 559, 589, 602, 616, 675
Sau96I	GGNCC	5 cut(s)	148, 346, 398, 931, 1090
ScaI	AGTACT	1 cut(s)	1130
SchI	GAGTC	1 cut(s)	191
ScrFI	CCNGG	1 cut(s)	869
SduI	GDGCHC	2 cut(s)	162, 1073
SfaNI	GCATC	4 cut(s)	472, 672, 755, 1183
SfcI	CTRYAG	1 cut(s)	882
SinI	GGWCC	5 cut(s)	148, 346, 398, 931, 1090
SmiMI	CAYNNNNRTG	1 cut(s)	1248
SmlI	CTYRAG	2 cut(s)	578, 1132
SmoI	CTYRAG	2 cut(s)	578, 1132
Sse9I	AATT	7 cut(s)	381, 663, 837, 918, 983, 990, 1016
SsiI	CCGC	5 cut(s)	137, 151, 189, 220, 239
SspMI	CTAG	2 cut(s)	290, 425
SstI	GAGCTC	1 cut(s)	162
StyD4I	CCNGG	1 cut(s)	867
TaiI	ACGT	1 cut(s)	880
TaqI	TCGA	4 cut(s)	216, 630, 962, 1155
TasI	AATT	7 cut(s)	381, 663, 837, 918, 983, 990, 1016
TatI	WGTACW	2 cut(s)	761, 1128
TauI	GCSGC	1 cut(s)	242
TfiI	GAWTC	3 cut(s)	632, 778, 814
Tru1I	TTAA	1 cut(s)	845
Tru9I	TTAA	1 cut(s)	845
TscAI	CASTG	2 cut(s)	237, 334
TseFI	GTSAC	1 cut(s)	823
TseI	GCWGC	1 cut(s)	191
Tsp45I	GTSAC	1 cut(s)	823
TspDTI	ATGAA	2 cut(s)	260, 1266
TspGWI	ACGGA	1 cut(s)	923
TspRI	CASTG	2 cut(s)	237, 334
Van91I	CCANNNNNTGG	1 cut(s)	1099
VpaK11BI	GGWCC	5 cut(s)	148, 346, 398, 931, 1090
XapI	RAATTY	1 cut(s)	983
XceI	RCATGY	1 cut(s)	494
XcmI	CCANNNNNNNNNTGG	1 cut(s)	560
XspI	CTAG	2 cut(s)	290, 425
ZrmI	AGTACT	1 cut(s)	1130
Zsp2I	ATGCAT	1 cut(s)	748

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