Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003541

Physical Location & Seq

Genomic Coordinates Reverse (-)

61098913 .. 61102612

Gene Structure 3700 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG440400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1113 bp

ATGGCGAACAAGCTCATCAACCAGATGGGCCTTCCCAAATCTATCGCCAACGTCTTCGCAGCTCGTAACATCACCACCGCCAAGGAAGCTTTGTCTTTGACCGAATTAGAATTAATGGAAGTGCTAGATGTGAGTATGGCACAAGTCACGTCTGCGATAGCTCGCATCAGTGAAATCACATGTCCACCCTACCAAACTGTTCTCTCTCTAATGGAGCAAAGAGTTCAAATGGAGCACATGGGTGGTCACCTTTCGACGCAGCTCAAAGGGCTAGACCAGGCCTTATGCGGTGGTATCCCATTTGGGGTTTTGACTGAGCTGGTTGGGCCTGCTGGGATTGGCAAAACACAGTTTTGCCTGAAGCTTGCGTTGTTGGCTTCATTGCCGGCATCTCGTGGGGGTTTAGATGGTCATGTAATATATATCGATGTAGAATCCAAGTTTAGTTCAACAAGGCTGATAGAAATTGGAGTAAAGAGCTTCCCAGAAATATTTCACACAAAAGGACTGGCGCAAGAGATGGCTGGTAGGATCCTTGTTTTGCGGCCTACATCACTTTCTGAATTCACTGAGAGTTTGCAACAAATCAAGATTTCACTCCTTCAAAACCAAGTGAAGTTGCTAATCATTGATAGCATGGCCGCCCTTGTTTCAGGGGAATATGTGCAAGGAGCTACTCGGCAACATTTATTGGGTTGGCATATCTCCTTTATTAAATCACTTGCTGAATTTTCACGAATCCCTGTTGTTGTTACAAACCAAGTGAGATCTCAAAGTCATGATGAAAGCTGCCAGTATTCCTTTCAAGCGCATAGCAGGCAAAAGACTATAGAGGATTACAAAGGACATGACTCTCATCTTGTTCCTGCTTTGGGGATTCATTGGGCTCATGCTGTCACCATACGCCTTGTGCTTGATGCTAAATCTGGGAAGAGGTTCATCAAGCTGGCAAAGTCTCCAGTATCACCTCCTCTAGCCTTCCCATTCAACATAACGTCATCTGGAATTTCACTGCTAACTGATGATGGAATAGAGCTCACCGGACCAGAGATAAACACAATTCATTGTCAAGGTCACAGTGACATAATTCATTTTGATGGGGAGAGATTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000150 GO:0000217 GO:0000280 GO:0000400 GO:0000707 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:0005634 GO:0005657 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022402 GO:0022414 GO:0022607 GO:0032991 GO:0033061 GO:0033063 GO:0033554 GO:0034622 GO:0034641 GO:0035825 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0048285 GO:0050896 GO:0051321 GO:0051716 GO:0061982 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

Rad51

Protein Analysis

370

Amino Acids

40.41

Weight (kDa)

6.73

Isoelectric Point (pI)

43.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HHH_XRCC3_RpoA	PF26169	6 - 59	1.2e-20	XRCC3/RpoA-like, helix-hairpin-helix domain
Rad51	PF08423	84 - 337	5.1e-30	Rad51

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003541)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28560 AT2G28560 AT2G28560 AT2G28560 AT2G28560 AT2G28560
fragaria_vesca	FvH4_3g33990 FvH4_3g33990 FvH4_3g33990 FvH4_3g33990 FvH4_3g33990 FvH4_3g33990
malus_domestica	MD11G1120900.v1.1
prunus_persica	Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1
pyrus_communis	pycom11g10220
rosa_chinensis	RchiOBHm_Chr5g0061521
rosa_laevigata	RLG00000035484
rosa_multiflora	Rmu_co8481717.1_g000001 Rmu_sc0006720.1_g000001 Rmu_sc0010824.1_g000011
rosa_roxburghii	Rroxscaffold_1G00019150
rosa_rugosa	Rorug05G0341400 Rorug05G0341500 Rorug05G0341600 Rorug05G0341700
rosa_samantha	Rh5AG403500 Rh5BG415700 Rh5CG440400 Rh5DG430200
rosa_wichuraiana	Rw5G037930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	78, 288, 544, 642
AclWI	GGATC	2 cut(s)	526, 539
AcoI	YGGCCR	1 cut(s)	639
AcsI	RAATTY	3 cut(s)	563, 728, 1005
AcuI	CTGAAG	1 cut(s)	380
AfiI	CCNNNNNNNGG	2 cut(s)	304, 872
AflIII	ACRYGT	1 cut(s)	179
AgsI	TTSAA	5 cut(s)	227, 450, 605, 806, 988
AjiI	CACGTC	1 cut(s)	150
AjnI	CCWGG	1 cut(s)	276
AleI	CACNNNNGTG	1 cut(s)	240
Alw21I	GWGCWC	2 cut(s)	237, 1038
Alw26I	GTCTC	1 cut(s)	960
AlwI	GGATC	2 cut(s)	526, 539
AoxI	GGCC	5 cut(s)	28, 279, 326, 545, 639
ApeKI	GCWGC	3 cut(s)	59, 259, 789
ApoI	RAATTY	3 cut(s)	563, 728, 1005
AseI	ATTAAT	1 cut(s)	113
Asp700I	GAANNNNTTC	2 cut(s)	492, 935
AspLEI	GCGC	2 cut(s)	514, 811
AspS9I	GGNCC	3 cut(s)	28, 326, 1043
AsuHPI	GGTGA	5 cut(s)	64, 239, 889, 957, 1030
AvaII	GGWCC	1 cut(s)	1043
BamHI	GGATCC	1 cut(s)	531
BanII	GRGCYC	2 cut(s)	889, 1038
BauI	CACGAG	1 cut(s)	393
BbsI	GAAGAC	1 cut(s)	46
Bbv12I	GWGCWC	2 cut(s)	237, 1038
BbvI	GCAGC	3 cut(s)	71, 271, 776
BccI	CCATC	5 cut(s)	19, 401, 514, 1019, 1091
BciT130I	CCWGG	1 cut(s)	278
BciVI	GTATCC	1 cut(s)	305
BcoDI	GTCTC	1 cut(s)	960
BfaI	CTAG	3 cut(s)	125, 272, 974
BfmI	CTRYAG	1 cut(s)	828
BfuI	GTATCC	1 cut(s)	305
BglII	AGATCT	1 cut(s)	767
BisI	GCNGC	5 cut(s)	60, 260, 545, 642, 790
BlsI	GCNGC	5 cut(s)	61, 261, 546, 643, 791
Bme1390I	CCNGG	1 cut(s)	278
Bme18I	GGWCC	1 cut(s)	1043
BmgBI	CACGTC	1 cut(s)	150
BmgT120I	GGNCC	3 cut(s)	28, 326, 1043
BmiI	GGNNCC	1 cut(s)	533
BmrFI	CCNGG	1 cut(s)	278
BmsI	GCATC	3 cut(s)	174, 398, 907
BpiI	GAAGAC	1 cut(s)	46
BpmI	CTGGAG	1 cut(s)	942
Bsa29I	ATCGAT	1 cut(s)	426
BsaJI	CCNNGG	1 cut(s)	81
BsaWI	WCCGGW	1 cut(s)	1040
BsaXI	ACNNNNNCTCC	1 cut(s)	1094
Bsc4I	CCNNNNNNNGG	2 cut(s)	304, 872
Bse118I	RCCGGY	1 cut(s)	385
Bse1I	ACTGG	3 cut(s)	513, 793, 959
Bse3DI	GCAATG	1 cut(s)	380
BseBI	CCWGG	1 cut(s)	278
BseCI	ATCGAT	1 cut(s)	426
BseDI	CCNNGG	1 cut(s)	81
BseLI	CCNNNNNNNGG	2 cut(s)	304, 872
BseMI	GCAATG	1 cut(s)	380
BseMII	CTCAG	2 cut(s)	306, 561
BseNI	ACTGG	3 cut(s)	513, 793, 959
BseRI	GAGGAG	1 cut(s)	960
BseXI	GCAGC	3 cut(s)	71, 271, 776
BseYI	CCCAGC	1 cut(s)	332
BshFI	GGCC	5 cut(s)	30, 281, 328, 547, 641
BshVI	ATCGAT	1 cut(s)	426
BsiHKAI	GWGCWC	2 cut(s)	237, 1038
BsiSI	CCGG	2 cut(s)	386, 1041
BslI	CCNNNNNNNGG	2 cut(s)	304, 872
BsmAI	GTCTC	1 cut(s)	960
BsnI	GGCC	5 cut(s)	30, 281, 328, 547, 641
Bsp1286I	GDGCHC	3 cut(s)	237, 889, 1038
Bsp143I	GATC	2 cut(s)	531, 767
BspACI	CCGC	4 cut(s)	78, 288, 544, 642
BspANI	GGCC	5 cut(s)	30, 281, 328, 547, 641
BspCNI	CTCAG	2 cut(s)	307, 562
BspDI	ATCGAT	1 cut(s)	426
BspHI	TCATGA	1 cut(s)	778
BspLI	GGNNCC	1 cut(s)	533
BspPI	GGATC	2 cut(s)	526, 539
BsrDI	GCAATG	1 cut(s)	380
BsrFI	RCCGGY	1 cut(s)	385
BsrI	ACTGG	3 cut(s)	513, 793, 959
BssAI	RCCGGY	1 cut(s)	385
BssECI	CCNNGG	1 cut(s)	81
BssMI	GATC	2 cut(s)	531, 767
BssSI	CACGAG	1 cut(s)	393
BssT1I	CCWWGG	1 cut(s)	81
Bst2BI	CACGAG	1 cut(s)	393
Bst2UI	CCWGG	1 cut(s)	278
Bst4CI	ACNGT	3 cut(s)	199, 351, 1079
Bst6I	CTCTTC	1 cut(s)	926
BstC8I	GCNNGC	6 cut(s)	163, 330, 366, 387, 818, 948
BstDEI	CTNAG	2 cut(s)	315, 570
BstEII	GGTNACC	1 cut(s)	245
BstHHI	GCGC	2 cut(s)	514, 811
BstKTI	GATC	2 cut(s)	534, 770
BstMAI	GTCTC	1 cut(s)	960
BstMBI	GATC	2 cut(s)	531, 767
BstMWI	GCNNNNNNNGC	5 cut(s)	86, 268, 325, 374, 817
BstNI	CCWGG	1 cut(s)	278
BstNSI	RCATGY	1 cut(s)	183
BstPI	GGTNACC	1 cut(s)	245
BstSCI	CCNGG	1 cut(s)	276
BstSFI	CTRYAG	1 cut(s)	828
BstV1I	GCAGC	3 cut(s)	71, 271, 776
BstV2I	GAAGAC	1 cut(s)	46
BstX2I	RGATCY	2 cut(s)	531, 767
BstYI	RGATCY	2 cut(s)	531, 767
Bsu15I	ATCGAT	1 cut(s)	426
BsuI	GTATCC	1 cut(s)	305
BsuRI	GGCC	5 cut(s)	30, 281, 328, 547, 641
BsuTUI	ATCGAT	1 cut(s)	426
BtrI	CACGTC	1 cut(s)	150
BtsI	GCAGTG	1 cut(s)	1010
BtsIMutI	CAGTG	4 cut(s)	175, 567, 1010, 1084
Cac8I	GCNNGC	6 cut(s)	163, 330, 366, 387, 818, 948
CciI	TCATGA	1 cut(s)	778
CfoI	GCGC	2 cut(s)	514, 811
Cfr10I	RCCGGY	1 cut(s)	385
Cfr13I	GGNCC	3 cut(s)	28, 326, 1043
ClaI	ATCGAT	1 cut(s)	426
CseI	GACGC	1 cut(s)	265
CviAII	CATG	7 cut(s)	180, 238, 413, 637, 779, 848, 890
DdeI	CTNAG	2 cut(s)	315, 570
DpnI	GATC	2 cut(s)	533, 769
DpnII	GATC	2 cut(s)	531, 767
EaeI	YGGCCR	1 cut(s)	639
Eam1104I	CTCTTC	1 cut(s)	926
EarI	CTCTTC	1 cut(s)	926
Ecl136II	GAGCTC	1 cut(s)	1036
Eco130I	CCWWGG	1 cut(s)	81
Eco147I	AGGCCT	1 cut(s)	281
Eco24I	GRGCYC	2 cut(s)	889, 1038
Eco47I	GGWCC	1 cut(s)	1043
Eco53kI	GAGCTC	1 cut(s)	1036
Eco57I	CTGAAG	1 cut(s)	380
Eco91I	GGTNACC	1 cut(s)	245
EcoICRI	GAGCTC	1 cut(s)	1036
EcoO65I	GGTNACC	1 cut(s)	245
EcoRI	GAATTC	1 cut(s)	563
EcoRII	CCWGG	1 cut(s)	276
EcoT14I	CCWWGG	1 cut(s)	81
EcoT38I	GRGCYC	2 cut(s)	889, 1038
ErhI	CCWWGG	1 cut(s)	81
FaeI	CATG	7 cut(s)	183, 241, 416, 640, 782, 851, 893
FatI	CATG	7 cut(s)	179, 237, 412, 636, 778, 847, 889
Fnu4HI	GCNGC	5 cut(s)	60, 260, 545, 642, 790
FriOI	GRGCYC	2 cut(s)	889, 1038
Fsp4HI	GCNGC	5 cut(s)	60, 260, 545, 642, 790
FspBI	CTAG	3 cut(s)	125, 272, 974
GlaI	GCGC	2 cut(s)	513, 810
GluI	GCNGC	5 cut(s)	60, 260, 545, 642, 790
GsaI	CCCAGC	1 cut(s)	336
GsuI	CTGGAG	1 cut(s)	942
HaeIII	GGCC	5 cut(s)	30, 281, 328, 547, 641
HapII	CCGG	2 cut(s)	386, 1041
HgaI	GACGC	1 cut(s)	265
HhaI	GCGC	2 cut(s)	514, 811
Hin1II	CATG	7 cut(s)	183, 241, 416, 640, 782, 851, 893
Hin6I	GCGC	2 cut(s)	512, 809
HinP1I	GCGC	2 cut(s)	512, 809
HindIII	AAGCTT	2 cut(s)	87, 362
HinfI	GANTC	4 cut(s)	434, 738, 851, 877
HpaII	CCGG	2 cut(s)	386, 1041
HphI	GGTGA	5 cut(s)	64, 239, 889, 957, 1030
Hpy166II	GTNNAC	1 cut(s)	185
Hpy188I	TCNGA	1 cut(s)	562
Hpy188III	TCNNGA	4 cut(s)	589, 735, 779, 1002
Hpy8I	GTNNAC	1 cut(s)	185
Hpy99I	CGWCG	1 cut(s)	259
HpyAV	CCTTC	3 cut(s)	41, 611, 988
HpyCH4III	ACNGT	3 cut(s)	199, 351, 1079
HpyCH4IV	ACGT	3 cut(s)	51, 149, 995
HpyCH4V	TGCA	2 cut(s)	580, 667
HpyF10VI	GCNNNNNNNGC	5 cut(s)	86, 268, 325, 374, 817
HpyF3I	CTNAG	2 cut(s)	315, 570
HpySE526I	ACGT	3 cut(s)	51, 149, 995
Hsp92II	CATG	7 cut(s)	183, 241, 416, 640, 782, 851, 893
HspAI	GCGC	2 cut(s)	512, 809
KroI	GCCGGC	1 cut(s)	385
KroNI	GCCGGC	1 cut(s)	387
Kzo9I	GATC	2 cut(s)	531, 767
LmnI	GCTCC	3 cut(s)	214, 232, 671
Lsp1109I	GCAGC	3 cut(s)	71, 271, 776
LweI	GCATC	3 cut(s)	174, 398, 907
MaeI	CTAG	3 cut(s)	125, 272, 974
MaeII	ACGT	3 cut(s)	51, 149, 995
MaeIII	GTNAC	7 cut(s)	65, 145, 245, 751, 895, 1073, 1079
MalI	GATC	2 cut(s)	533, 769
MboI	GATC	2 cut(s)	531, 767
MboII	GAAGA	2 cut(s)	46, 943
MflI	RGATCY	2 cut(s)	531, 767
MhlI	GDGCHC	3 cut(s)	237, 889, 1038
MluCI	AATT	8 cut(s)	104, 110, 465, 563, 728, 1005, 1059, 1086
MlyI	GAGTC	1 cut(s)	845
MnlI	CCTC	4 cut(s)	826, 927, 978, 981
MroNI	GCCGGC	1 cut(s)	385
MroXI	GAANNNNTTC	2 cut(s)	492, 935
MseI	TTAA	2 cut(s)	113, 714
MslI	CAYNNNNRTG	2 cut(s)	240, 1095
MspI	CCGG	2 cut(s)	386, 1041
MspR9I	CCNGG	1 cut(s)	278
MvaI	CCWGG	1 cut(s)	278
MwoI	GCNNNNNNNGC	5 cut(s)	86, 268, 325, 374, 817
NaeI	GCCGGC	1 cut(s)	387
NdeII	GATC	2 cut(s)	531, 767
NgoMIV	GCCGGC	1 cut(s)	385
NlaIII	CATG	7 cut(s)	183, 241, 416, 640, 782, 851, 893
NlaIV	GGNNCC	1 cut(s)	533
NmeAIII	GCCGAG	1 cut(s)	658
NmuCI	GTSAC	5 cut(s)	145, 245, 895, 1073, 1079
NspI	RCATGY	1 cut(s)	183
OliI	CACNNNNGTG	1 cut(s)	240
PagI	TCATGA	1 cut(s)	778
PceI	AGGCCT	1 cut(s)	281
PciI	ACATGT	1 cut(s)	179
PdiI	GCCGGC	1 cut(s)	387
PdmI	GAANNNNTTC	2 cut(s)	492, 935
PfeI	GAWTC	3 cut(s)	434, 738, 877
PkrI	GCNGC	5 cut(s)	61, 261, 546, 643, 791
PleI	GAGTC	1 cut(s)	845
PpsI	GAGTC	1 cut(s)	845
PscI	ACATGT	1 cut(s)	179
PshBI	ATTAAT	1 cut(s)	113
Psp124BI	GAGCTC	1 cut(s)	1038
Psp6I	CCWGG	1 cut(s)	276
PspEI	GGTNACC	1 cut(s)	245
PspFI	CCCAGC	1 cut(s)	332
PspGI	CCWGG	1 cut(s)	276
PspN4I	GGNNCC	1 cut(s)	533
PspPI	GGNCC	3 cut(s)	28, 326, 1043
PsuI	RGATCY	2 cut(s)	531, 767
RseI	CAYNNNNRTG	2 cut(s)	240, 1095
SacI	GAGCTC	1 cut(s)	1038
SaqAI	TTAA	2 cut(s)	113, 714
SatI	GCNGC	5 cut(s)	60, 260, 545, 642, 790
Sau3AI	GATC	2 cut(s)	531, 767
Sau96I	GGNCC	3 cut(s)	28, 326, 1043
SchI	GAGTC	1 cut(s)	845
ScrFI	CCNGG	1 cut(s)	278
SduI	GDGCHC	3 cut(s)	237, 889, 1038
SfaNI	GCATC	3 cut(s)	174, 398, 907
SfcI	CTRYAG	1 cut(s)	828
SinI	GGWCC	1 cut(s)	1043
SmiMI	CAYNNNNRTG	2 cut(s)	240, 1095
Sse9I	AATT	8 cut(s)	104, 110, 465, 563, 728, 1005, 1059, 1086
SseBI	AGGCCT	1 cut(s)	281
SsiI	CCGC	4 cut(s)	78, 288, 544, 642
SspI	AATATT	1 cut(s)	492
SspMI	CTAG	3 cut(s)	125, 272, 974
SstI	GAGCTC	1 cut(s)	1038
StuI	AGGCCT	1 cut(s)	281
StyD4I	CCNGG	1 cut(s)	276
StyI	CCWWGG	1 cut(s)	81
TaaI	ACNGT	3 cut(s)	199, 351, 1079
TaiI	ACGT	3 cut(s)	54, 152, 998
TaqI	TCGA	2 cut(s)	254, 426
TaqII	GACCGA	1 cut(s)	116
TasI	AATT	8 cut(s)	104, 110, 465, 563, 728, 1005, 1059, 1086
TauI	GCSGC	2 cut(s)	547, 644
TfiI	GAWTC	3 cut(s)	434, 738, 877
Tru1I	TTAA	2 cut(s)	113, 714
Tru9I	TTAA	2 cut(s)	113, 714
TscAI	CASTG	4 cut(s)	175, 574, 1017, 1084
TseFI	GTSAC	5 cut(s)	145, 245, 895, 1073, 1079
TseI	GCWGC	3 cut(s)	59, 259, 789
Tsp45I	GTSAC	5 cut(s)	145, 245, 895, 1073, 1079
TspDTI	ATGAA	6 cut(s)	369, 798, 869, 928, 1052, 1079
TspRI	CASTG	4 cut(s)	175, 574, 1017, 1084
VpaK11BI	GGWCC	1 cut(s)	1043
VspI	ATTAAT	1 cut(s)	113
XapI	RAATTY	3 cut(s)	563, 728, 1005
XceI	RCATGY	1 cut(s)	183
XmnI	GAANNNNTTC	2 cut(s)	492, 935
XspI	CTAG	3 cut(s)	125, 272, 974

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