Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0003001

Physical Location & Seq

Genomic Coordinates Reverse (-)

34156452 .. 34164590

Gene Structure 8139 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG327500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGGGTTTAGCGCTGAGAAGCAACAGCGCAAGCATGACATATTATATGTCCACCACCCACTCACACTCTCCTCTCTCATTCCACTCCTGCTCTCTCCCACACCGCTTCAACGTTCAATCAATGGCGGTTAAAAGGGTCCGCTCTGAGCTCCAAGTAAAAGTCAACGGCTCTCTCTCCTCTGCTGACTCCGACCAACTCTTCCTCGACCGCCAAAAAGCACTGGAGGCGGCCATGAATGATATCAATAGCTCATTCGGCAAGGGAAGTGTTACAAGACTAGGAAGCGCTGGTGGAGCTTTGGTTGAAACTTTCCCCAGTGGTTGCTTGACATTGGACCTTGCCTTAGGTGGTGGCCTCCCAAAAGGGAGAATTGTAGAGATATTTGGACCAGAAAGTAGTGGAAAGACAACTCTAGCACTCCATGCAATCGCAGAGGTGCAGAGGCTTGGAGGAAATGCTATGCTTGTTGATGCAGAACATGCCTTTGATCCAGCATATTCAAAAGCATTGGGAGTAGATGTAGAAAATCTGATTGTCTGCCAGCCTGATCATGGCGAAATGGCACTTGAGATTGCAGATCGTATGTGCAGATCTGGTGCCATTGATCTTATCTGTGTCGATTCTGTCTCGGCTCTCACTCCACGAGCAGAAATTGAAGGTGAGATCGGGATGCAACAAATGGGTTTGCAAGCACGCCTTATGAGCCAAGCTTTGCGCAAAATGTCAGGAAATGCATCTAAAGCTGGATGTACTCTCATATTCTTGAATCAAATAAGATATAAGATTGGTGTGTATTATGGGAATCCAGAAGTGACATCTGGAGGAATTGCATTAAAGTTCTTTGCCTCAGTTCGCCTGGAAATACGTTCTACAGGGAAAATAAAATCTGTAAAAGGAGACGAGGAAATTGGGGTTCGGGTCCGTGTACGAGTGCAAAAGAGTAAGTTGTTGTAG

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

317

Amino Acids

33.94

Weight (kDa)

8.86

Isoelectric Point (pI)

40.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RecA_N	PF00154	72 - 316	1.2e-106	RecA N-terminal domain
ATPase	PF06745	105 - 177	8.1e-06	KaiC
Rad51	PF08423	106 - 290	1.9e-07	Rad51

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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	716
AccB1I	GGYRCC	1 cut(s)	596
AccBSI	CCGCTC	1 cut(s)	141
AciI	CCGC	5 cut(s)	103, 125, 139, 208, 227
AclI	AACGTT	1 cut(s)	111
AclWI	GGATC	1 cut(s)	482
AcoI	YGGCCR	1 cut(s)	228
AfaI	GTAC	2 cut(s)	751, 927
AfeI	AGCGCT	2 cut(s)	12, 286
AfiI	CCNNNNNNNGG	1 cut(s)	551
AgsI	TTSAA	6 cut(s)	109, 116, 305, 501, 656, 766
AjnI	CCWGG	1 cut(s)	855
AluBI	AGCT	5 cut(s)	148, 249, 296, 710, 743
AluI	AGCT	5 cut(s)	148, 249, 296, 710, 743
Alw21I	GWGCWC	1 cut(s)	150
Alw26I	GTCTC	2 cut(s)	631, 891
AlwI	GGATC	1 cut(s)	482
Aor51HI	AGCGCT	2 cut(s)	12, 286
AoxI	GGCC	2 cut(s)	228, 352
AspLEI	GCGC	4 cut(s)	13, 29, 287, 717
AspS9I	GGNCC	4 cut(s)	136, 334, 386, 919
AsuHPI	GGTGA	1 cut(s)	671
AvaII	GGWCC	4 cut(s)	136, 334, 386, 919
AxyI	CCTNAGG	1 cut(s)	343
BanI	GGYRCC	1 cut(s)	596
BanII	GRGCYC	1 cut(s)	150
BauI	CACGAG	1 cut(s)	642
Bbv12I	GWGCWC	1 cut(s)	150
BceAI	ACGGC	1 cut(s)	181
BciT130I	CCWGG	1 cut(s)	857
BclI	TGATCA	1 cut(s)	547
BcoDI	GTCTC	2 cut(s)	631, 891
BfaI	CTAG	2 cut(s)	278, 413
BfmI	CTRYAG	1 cut(s)	870
BfoI	RGCGCY	2 cut(s)	14, 288
BglII	AGATCT	1 cut(s)	590
BisI	GCNGC	1 cut(s)	228
BlsI	GCNGC	1 cut(s)	229
Bme1390I	CCNGG	1 cut(s)	857
Bme18I	GGWCC	4 cut(s)	136, 334, 386, 919
BmgT120I	GGNCC	4 cut(s)	136, 334, 386, 919
BmiI	GGNNCC	3 cut(s)	137, 598, 920
BmrFI	CCNGG	1 cut(s)	857
BmrI	ACTGGG	1 cut(s)	309
BmsI	GCATC	3 cut(s)	460, 660, 743
BmuI	ACTGGG	1 cut(s)	309
BpmI	CTGGAG	2 cut(s)	242, 840
BpuEI	CTTGAG	1 cut(s)	587
BsaXI	ACNNNNNCTCC	4 cut(s)	285, 315, 504, 534
Bsc4I	CCNNNNNNNGG	1 cut(s)	551
Bse1I	ACTGG	2 cut(s)	225, 315
Bse21I	CCTNAGG	1 cut(s)	343
BseBI	CCWGG	1 cut(s)	857
BseGI	GGATG	2 cut(s)	675, 752
BseLI	CCNNNNNNNGG	1 cut(s)	551
BseMII	CTCAG	3 cut(s)	5, 135, 861
BseNI	ACTGG	2 cut(s)	225, 315
BseRI	GAGGAG	2 cut(s)	60, 166
BsgI	GTGCAG	2 cut(s)	458, 607
Bsh1285I	CGRYCG	1 cut(s)	208
BshFI	GGCC	2 cut(s)	230, 354
BshNI	GGYRCC	1 cut(s)	596
BsiEI	CGRYCG	1 cut(s)	208
BsiHKAI	GWGCWC	1 cut(s)	150
BslI	CCNNNNNNNGG	1 cut(s)	551
BsmAI	GTCTC	2 cut(s)	631, 891
BsmBI	CGTCTC	1 cut(s)	891
BsnI	GGCC	2 cut(s)	230, 354
Bsp1286I	GDGCHC	1 cut(s)	150
Bsp143I	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
BspACI	CCGC	5 cut(s)	103, 125, 139, 208, 227
BspANI	GGCC	2 cut(s)	230, 354
BspCNI	CTCAG	3 cut(s)	6, 136, 860
BspLI	GGNNCC	3 cut(s)	137, 598, 920
BspPI	GGATC	1 cut(s)	482
BspT107I	GGYRCC	1 cut(s)	596
BsrBI	CCGCTC	1 cut(s)	141
BsrI	ACTGG	2 cut(s)	225, 315
BssMI	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
BssSI	CACGAG	1 cut(s)	642
Bst2BI	CACGAG	1 cut(s)	642
Bst2UI	CCWGG	1 cut(s)	857
Bst6I	CTCTTC	1 cut(s)	203
BstAPI	GCANNNNNTGC	2 cut(s)	422, 479
BstC8I	GCNNGC	4 cut(s)	31, 542, 690, 694
BstDEI	CTNAG	4 cut(s)	14, 144, 343, 847
BstF5I	GGATG	2 cut(s)	675, 752
BstH2I	RGCGCY	2 cut(s)	14, 288
BstHHI	GCGC	4 cut(s)	13, 29, 287, 717
BstKTI	GATC	6 cut(s)	490, 550, 580, 593, 607, 666
BstMAI	GTCTC	2 cut(s)	631, 891
BstMBI	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
BstMCI	CGRYCG	1 cut(s)	208
BstMWI	GCNNNNNNNGC	7 cut(s)	224, 255, 293, 422, 479, 702, 740
BstNI	CCWGG	1 cut(s)	857
BstNSI	RCATGY	1 cut(s)	482
BstSCI	CCNGG	1 cut(s)	855
BstSFI	CTRYAG	1 cut(s)	870
BstX2I	RGATCY	1 cut(s)	590
BstYI	RGATCY	1 cut(s)	590
Bsu36I	CCTNAGG	1 cut(s)	343
BsuRI	GGCC	2 cut(s)	230, 354
BtsCI	GGATG	2 cut(s)	675, 752
BtsIMutI	CAGTG	2 cut(s)	218, 322
Cac8I	GCNNGC	4 cut(s)	31, 542, 690, 694
CfoI	GCGC	4 cut(s)	13, 29, 287, 717
Cfr13I	GGNCC	4 cut(s)	136, 334, 386, 919
Csp6I	GTAC	2 cut(s)	750, 926
CviAII	CATG	5 cut(s)	34, 232, 422, 479, 551
CviQI	GTAC	2 cut(s)	750, 926
DdeI	CTNAG	4 cut(s)	14, 144, 343, 847
DpnI	GATC	6 cut(s)	489, 549, 579, 592, 606, 665
DpnII	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
EaeI	YGGCCR	1 cut(s)	228
Eam1104I	CTCTTC	1 cut(s)	203
EarI	CTCTTC	1 cut(s)	203
Ecl136II	GAGCTC	1 cut(s)	148
Eco24I	GRGCYC	1 cut(s)	150
Eco32I	GATATC	1 cut(s)	241
Eco47I	GGWCC	4 cut(s)	136, 334, 386, 919
Eco47III	AGCGCT	2 cut(s)	12, 286
Eco53kI	GAGCTC	1 cut(s)	148
Eco81I	CCTNAGG	1 cut(s)	343
EcoICRI	GAGCTC	1 cut(s)	148
EcoRII	CCWGG	1 cut(s)	855
EcoRV	GATATC	1 cut(s)	241
EcoT22I	ATGCAT	1 cut(s)	736
EcoT38I	GRGCYC	1 cut(s)	150
Esp3I	CGTCTC	1 cut(s)	891
FaeI	CATG	5 cut(s)	37, 235, 425, 482, 554
FalI	AAGNNNNNCTT	2 cut(s)	681, 713
FatI	CATG	5 cut(s)	33, 231, 421, 478, 550
FbaI	TGATCA	1 cut(s)	547
Fnu4HI	GCNGC	1 cut(s)	228
FokI	GGATG	2 cut(s)	682, 759
FriOI	GRGCYC	1 cut(s)	150
Fsp4HI	GCNGC	1 cut(s)	228
FspBI	CTAG	2 cut(s)	278, 413
FspI	TGCGCA	1 cut(s)	716
GlaI	GCGC	4 cut(s)	12, 28, 286, 716
GluI	GCNGC	1 cut(s)	228
GsuI	CTGGAG	2 cut(s)	242, 840
HaeII	RGCGCY	2 cut(s)	14, 288
HaeIII	GGCC	2 cut(s)	230, 354
HhaI	GCGC	4 cut(s)	13, 29, 287, 717
Hin1II	CATG	5 cut(s)	37, 235, 425, 482, 554
Hin6I	GCGC	4 cut(s)	11, 27, 285, 715
HinP1I	GCGC	4 cut(s)	11, 27, 285, 715
HincII	GTYRAC	1 cut(s)	163
HindII	GTYRAC	1 cut(s)	163
HindIII	AAGCTT	1 cut(s)	708
HinfI	GANTC	4 cut(s)	185, 620, 766, 802
HphI	GGTGA	1 cut(s)	671
Hpy166II	GTNNAC	3 cut(s)	51, 163, 926
Hpy188I	TCNGA	3 cut(s)	145, 190, 531
Hpy188III	TCNNGA	5 cut(s)	667, 726, 763, 806, 819
Hpy8I	GTNNAC	3 cut(s)	51, 163, 926
HpyAV	CCTTC	1 cut(s)	650
HpyCH4IV	ACGT	2 cut(s)	111, 865
HpyF10VI	GCNNNNNNNGC	7 cut(s)	224, 255, 293, 422, 479, 702, 740
HpyF3I	CTNAG	4 cut(s)	14, 144, 343, 847
HpySE526I	ACGT	2 cut(s)	111, 865
Hsp92II	CATG	5 cut(s)	37, 235, 425, 482, 554
HspAI	GCGC	4 cut(s)	11, 27, 285, 715
Ksp22I	TGATCA	1 cut(s)	547
Kzo9I	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
LmnI	GCTCC	2 cut(s)	153, 293
LweI	GCATC	3 cut(s)	460, 660, 743
MaeI	CTAG	2 cut(s)	278, 413
MaeII	ACGT	2 cut(s)	111, 865
MaeIII	GTNAC	2 cut(s)	268, 811
MalI	GATC	6 cut(s)	489, 549, 579, 592, 606, 665
MbiI	CCGCTC	1 cut(s)	141
MboI	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
MboII	GAAGA	1 cut(s)	190
MflI	RGATCY	1 cut(s)	590
MhlI	GDGCHC	1 cut(s)	150
MluCI	AATT	4 cut(s)	369, 651, 825, 906
MlyI	GAGTC	1 cut(s)	179
MmeI	TCCRAC	1 cut(s)	213
Mph1103I	ATGCAT	1 cut(s)	736
MseI	TTAA	2 cut(s)	129, 833
MspR9I	CCNGG	1 cut(s)	857
MvaI	CCWGG	1 cut(s)	857
MwoI	GCNNNNNNNGC	7 cut(s)	224, 255, 293, 422, 479, 702, 740
NdeII	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
NlaIII	CATG	5 cut(s)	37, 235, 425, 482, 554
NlaIV	GGNNCC	3 cut(s)	137, 598, 920
NmeAIII	GCCGAG	1 cut(s)	608
NmuCI	GTSAC	1 cut(s)	811
NsbI	TGCGCA	1 cut(s)	716
NsiI	ATGCAT	1 cut(s)	736
NspI	RCATGY	1 cut(s)	482
PfeI	GAWTC	3 cut(s)	620, 766, 802
PkrI	GCNGC	1 cut(s)	229
PleI	GAGTC	1 cut(s)	179
PpsI	GAGTC	1 cut(s)	179
Psp124BI	GAGCTC	1 cut(s)	150
Psp1406I	AACGTT	1 cut(s)	111
Psp6I	CCWGG	1 cut(s)	855
PspGI	CCWGG	1 cut(s)	855
PspN4I	GGNNCC	3 cut(s)	137, 598, 920
PspPI	GGNCC	4 cut(s)	136, 334, 386, 919
PsuI	RGATCY	1 cut(s)	590
RsaI	GTAC	2 cut(s)	751, 927
RsaNI	GTAC	2 cut(s)	750, 926
SacI	GAGCTC	1 cut(s)	150
SaqAI	TTAA	2 cut(s)	129, 833
SatI	GCNGC	1 cut(s)	228
Sau3AI	GATC	6 cut(s)	487, 547, 577, 590, 604, 663
Sau96I	GGNCC	4 cut(s)	136, 334, 386, 919
SchI	GAGTC	1 cut(s)	179
ScrFI	CCNGG	1 cut(s)	857
SduI	GDGCHC	1 cut(s)	150
SfaNI	GCATC	3 cut(s)	460, 660, 743
SfcI	CTRYAG	1 cut(s)	870
SinI	GGWCC	4 cut(s)	136, 334, 386, 919
SmlI	CTYRAG	1 cut(s)	566
SmoI	CTYRAG	1 cut(s)	566
Sse9I	AATT	4 cut(s)	369, 651, 825, 906
SsiI	CCGC	5 cut(s)	103, 125, 139, 208, 227
SspMI	CTAG	2 cut(s)	278, 413
SstI	GAGCTC	1 cut(s)	150
StyD4I	CCNGG	1 cut(s)	855
TaiI	ACGT	2 cut(s)	114, 868
TaqI	TCGA	2 cut(s)	204, 618
TasI	AATT	4 cut(s)	369, 651, 825, 906
TatI	WGTACW	1 cut(s)	749
TauI	GCSGC	1 cut(s)	230
TfiI	GAWTC	3 cut(s)	620, 766, 802
Tru1I	TTAA	2 cut(s)	129, 833
Tru9I	TTAA	2 cut(s)	129, 833
TscAI	CASTG	2 cut(s)	225, 322
TseFI	GTSAC	1 cut(s)	811
Tsp45I	GTSAC	1 cut(s)	811
TspDTI	ATGAA	1 cut(s)	248
TspGWI	ACGGA	1 cut(s)	911
TspRI	CASTG	2 cut(s)	225, 322
VpaK11BI	GGWCC	4 cut(s)	136, 334, 386, 919
XceI	RCATGY	1 cut(s)	482
XcmI	CCANNNNNNNNNTGG	1 cut(s)	548
XspI	CTAG	2 cut(s)	278, 413
Zsp2I	ATGCAT	1 cut(s)	736

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