Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0007889

Physical Location & Seq

Genomic Coordinates Reverse (-)

61107893 .. 61110878

Gene Structure 2986 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG391300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 783 bp

ATGGGAAATTCCAGCTCCATTAAGCATAGCAGTGAAGGAGGAAGATTGAAGCACTCGAAGAGAAAGCACAACCGGCTGGGTGTAACTTGTTCTGCAGGTTATGATCATGATTATCATGAAGGAATAAAGAGTGTAAGAGCGGACAACCACGTTTGTGATTTCTCTCCTTATTCGGATCTATGCATTTGCGTGGTTACTTGGAACATGAATGGTCAAGTGAGTTACGGAGATTTGGAGGAGATGGTTGCCGGGAACAACCGCAAGTTCGATCTTCTGGTTATCGGTCTGCAAGAAGTGCCCCGGAAAAATATTTCACGACTGTTGCAGACAGCGCTTCTTGACTCTCACATCTTGTTAGGAAAAGCCACTATGCAATCAATACACCTGTATATCTTTGGGCCAAAGGGCTCAGATTTCTTCCTCAGAGAAATAAAGATCGATAAGGTTTCAGTAGGGGGATGTGGAGGGCTAATTGGGAGAAAGAAAGGAGCTGTGGGAATCCGCATCAACTATAAAGGCATTCCGATGGTCTTCAAGCTGTCTCAGGAGCAACTCTCATCCCCTTCTCACTCTCACAGTGCAAACAATTTCTTGCTGCAGTCAAGTACAAATGGACTTTTGGAAGCCATCTCCAATGTCAAACAGTTGTCTCTTTCAACTCGTAATTTGGAGGTAAGCATGTCTGCAACTTACTCTTTTACACTATATATGTTAGAGAAGATTATAGAAACTACTAATTCAAGATTAGATAGAAAGATAGGCGCGCTATCTCCTGTTTGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004439 GO:0005575 GO:0005623 GO:0005886 GO:0006629 GO:0006644 GO:0006650 GO:0006661 GO:0006793 GO:0006796 GO:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0008610 GO:0008654 GO:0009058 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009733 GO:0009737 GO:0009753 GO:0009987 GO:0010033 GO:0016020 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019637 GO:0030258 GO:0033993 GO:0034485 GO:0034593 GO:0034594 GO:0034595 GO:0036092 GO:0042221 GO:0042578 GO:0043813 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044464 GO:0045017 GO:0046474 GO:0046486 GO:0046488 GO:0046839 GO:0046856 GO:0050896 GO:0052866 GO:0071704 GO:0071944 GO:0090407 GO:0097305 GO:0106018 GO:0106019 GO:1901576 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko00562 ko01100 ko04070 map00562 map01100 map04070

Pfam Domains

Protein Families

Exo_endo_phos

Protein Analysis

260

Amino Acids

28.75

Weight (kDa)

9.33

Isoelectric Point (pI)

38.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Exo_endo_phos2	PF22669	65 - 178	9.1e-12	Endonuclease/Exonuclease/phosphatase family 2

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0007889)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G47510 AT1G47510 AT1G47510 AT1G47510
fragaria_vesca	FvH4_2g40410 FvH4_2g40410 FvH4_2g40410 FvH4_2g40410
malus_domestica	MD08G1037300.v1.1
prunus_persica	Prupe.1G384600_v2.0.a1 Prupe.1G384600_v2.0.a1 Prupe.1G384600_v2.0.a1 Prupe.1G384600_v2.0.a1
pyrus_communis	pycom08g02970
rosa_chinensis	RchiOBHm_Chr2g0154391 RchiOBHm_Chr6g0300331
rosa_laevigata	RLG00000011347
rosa_roxburghii	Rroxscaffold_7G00167890
rosa_samantha	Rh5DG391300 Rh6AG407800 Rh6BG415100 Rh6CG422500 Rh6DG408100
rosa_wichuraiana	Rw6G035660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	86
AccBSI	CCGCTC	1 cut(s)	140
AccII	CGCG	1 cut(s)	764
AciI	CCGC	3 cut(s)	140, 259, 502
AclWI	GGATC	1 cut(s)	183
AcsI	RAATTY	1 cut(s)	7
AfaI	GTAC	1 cut(s)	607
AfeI	AGCGCT	1 cut(s)	333
AgsI	TTSAA	4 cut(s)	49, 535, 657, 741
AleI	CACNNNNGTG	1 cut(s)	153
AluBI	AGCT	3 cut(s)	15, 491, 538
AluI	AGCT	3 cut(s)	15, 491, 538
Alw26I	GTCTC	2 cut(s)	546, 654
AlwI	GGATC	1 cut(s)	183
Aor51HI	AGCGCT	1 cut(s)	333
AoxI	GGCC	1 cut(s)	398
ApeKI	GCWGC	1 cut(s)	595
ApoI	RAATTY	1 cut(s)	7
AspLEI	GCGC	3 cut(s)	334, 764, 766
AspS9I	GGNCC	1 cut(s)	398
AsuC2I	CCSGG	2 cut(s)	250, 301
BaeGI	GKGCMC	1 cut(s)	300
BanII	GRGCYC	1 cut(s)	410
BbsI	GAAGAC	1 cut(s)	523
BbvI	GCAGC	1 cut(s)	582
BccI	CCATC	3 cut(s)	235, 520, 635
BclI	TGATCA	1 cut(s)	103
BcnI	CCSGG	2 cut(s)	250, 301
BcoDI	GTCTC	2 cut(s)	546, 654
BfmI	CTRYAG	2 cut(s)	93, 596
BfoI	RGCGCY	1 cut(s)	335
BfuAI	ACCTGC	1 cut(s)	86
BisI	GCNGC	1 cut(s)	596
BlsI	GCNGC	1 cut(s)	597
Bme1390I	CCNGG	2 cut(s)	250, 301
BmgT120I	GGNCC	1 cut(s)	398
BmrFI	CCNGG	2 cut(s)	250, 301
BmsI	GCATC	1 cut(s)	513
BpiI	GAAGAC	1 cut(s)	523
BplI	GAGNNNNNCTC	2 cut(s)	539, 571
BpuMI	CCSGG	2 cut(s)	250, 301
Bsa29I	ATCGAT	1 cut(s)	438
BsaJI	CCNNGG	1 cut(s)	299
Bse118I	RCCGGY	1 cut(s)	72
BseCI	ATCGAT	1 cut(s)	438
BseDI	CCNNGG	1 cut(s)	299
BseGI	GGATG	2 cut(s)	464, 557
BseMII	CTCAG	3 cut(s)	423, 436, 557
BsePI	GCGCGC	1 cut(s)	762
BseRI	GAGGAG	1 cut(s)	251
BseSI	GKGCMC	1 cut(s)	300
BseXI	GCAGC	1 cut(s)	582
BseYI	CCCAGC	1 cut(s)	76
Bsh1236I	CGCG	1 cut(s)	764
BshFI	GGCC	1 cut(s)	400
BshVI	ATCGAT	1 cut(s)	438
BsiSI	CCGG	3 cut(s)	73, 249, 301
BsmAI	GTCTC	2 cut(s)	546, 654
BsmI	GAATGC	1 cut(s)	519
BsnI	GGCC	1 cut(s)	400
Bsp1286I	GDGCHC	2 cut(s)	300, 410
Bsp143I	GATC	4 cut(s)	103, 175, 268, 435
BspACI	CCGC	3 cut(s)	140, 259, 502
BspANI	GGCC	1 cut(s)	400
BspCNI	CTCAG	3 cut(s)	422, 435, 556
BspDI	ATCGAT	1 cut(s)	438
BspFNI	CGCG	1 cut(s)	764
BspHI	TCATGA	2 cut(s)	106, 115
BspMAI	CTGCAG	2 cut(s)	97, 600
BspMI	ACCTGC	1 cut(s)	86
BspPI	GGATC	1 cut(s)	183
BsrBI	CCGCTC	1 cut(s)	140
BsrFI	RCCGGY	1 cut(s)	72
BssAI	RCCGGY	1 cut(s)	72
BssECI	CCNNGG	1 cut(s)	299
BssHII	GCGCGC	1 cut(s)	762
BssMI	GATC	4 cut(s)	103, 175, 268, 435
Bst4CI	ACNGT	3 cut(s)	321, 578, 645
Bst6I	CTCTTC	1 cut(s)	53
BstAPI	GCANNNNNTGC	1 cut(s)	295
BstC8I	GCNNGC	1 cut(s)	764
BstDEI	CTNAG	3 cut(s)	409, 422, 543
BstF5I	GGATG	2 cut(s)	464, 557
BstFNI	CGCG	1 cut(s)	764
BstH2I	RGCGCY	1 cut(s)	335
BstHHI	GCGC	3 cut(s)	334, 764, 766
BstKTI	GATC	4 cut(s)	106, 178, 271, 438
BstMAI	GTCTC	2 cut(s)	546, 654
BstMBI	GATC	4 cut(s)	103, 175, 268, 435
BstMWI	GCNNNNNNNGC	3 cut(s)	73, 295, 331
BstNSI	RCATGY	1 cut(s)	682
BstSCI	CCNGG	2 cut(s)	248, 299
BstSFI	CTRYAG	2 cut(s)	93, 596
BstSLI	GKGCMC	1 cut(s)	300
BstUI	CGCG	1 cut(s)	764
BstV1I	GCAGC	1 cut(s)	582
BstV2I	GAAGAC	1 cut(s)	523
BstX2I	RGATCY	1 cut(s)	175
BstYI	RGATCY	1 cut(s)	175
Bsu15I	ATCGAT	1 cut(s)	438
BsuRI	GGCC	1 cut(s)	400
BsuTUI	ATCGAT	1 cut(s)	438
BtsCI	GGATG	2 cut(s)	464, 557
BtsI	GCAGTG	1 cut(s)	37
BtsIMutI	CAGTG	2 cut(s)	37, 583
BveI	ACCTGC	1 cut(s)	86
Cac8I	GCNNGC	1 cut(s)	764
CciI	TCATGA	2 cut(s)	106, 115
CfoI	GCGC	3 cut(s)	334, 764, 766
Cfr10I	RCCGGY	1 cut(s)	72
Cfr13I	GGNCC	1 cut(s)	398
ClaI	ATCGAT	1 cut(s)	438
Csp6I	GTAC	1 cut(s)	606
CviAII	CATG	4 cut(s)	107, 116, 205, 679
CviJI	RGCY	9 cut(s)	15, 76, 365, 400, 408, 469, 491, 538, 626
CviKI_1	RGCY	9 cut(s)	15, 76, 365, 400, 408, 469, 491, 538, 626
CviQI	GTAC	1 cut(s)	606
DdeI	CTNAG	3 cut(s)	409, 422, 543
DpnI	GATC	4 cut(s)	105, 177, 270, 437
DpnII	GATC	4 cut(s)	103, 175, 268, 435
Eam1104I	CTCTTC	1 cut(s)	53
EarI	CTCTTC	1 cut(s)	53
Eco24I	GRGCYC	1 cut(s)	410
Eco47III	AGCGCT	1 cut(s)	333
EcoT22I	ATGCAT	1 cut(s)	185
EcoT38I	GRGCYC	1 cut(s)	410
FaeI	CATG	4 cut(s)	110, 119, 208, 682
FatI	CATG	4 cut(s)	106, 115, 204, 678
FbaI	TGATCA	1 cut(s)	103
Fnu4HI	GCNGC	1 cut(s)	596
FokI	GGATG	2 cut(s)	471, 544
FriOI	GRGCYC	1 cut(s)	410
Fsp4HI	GCNGC	1 cut(s)	596
GlaI	GCGC	3 cut(s)	333, 763, 765
GluI	GCNGC	1 cut(s)	596
GsaI	CCCAGC	1 cut(s)	80
HaeII	RGCGCY	1 cut(s)	335
HaeIII	GGCC	1 cut(s)	400
HapII	CCGG	3 cut(s)	73, 249, 301
HhaI	GCGC	3 cut(s)	334, 764, 766
Hin1II	CATG	4 cut(s)	110, 119, 208, 682
Hin6I	GCGC	3 cut(s)	332, 762, 764
HinP1I	GCGC	3 cut(s)	332, 762, 764
HinfI	GANTC	2 cut(s)	341, 498
HpaII	CCGG	3 cut(s)	73, 249, 301
Hpy188I	TCNGA	4 cut(s)	175, 412, 425, 525
Hpy188III	TCNNGA	6 cut(s)	107, 116, 315, 338, 545, 741
HpyAV	CCTTC	3 cut(s)	29, 113, 573
HpyCH4III	ACNGT	3 cut(s)	321, 578, 645
HpyCH4IV	ACGT	1 cut(s)	150
HpyCH4V	TGCA	8 cut(s)	95, 183, 289, 325, 373, 581, 598, 686
HpyF10VI	GCNNNNNNNGC	3 cut(s)	73, 295, 331
HpyF3I	CTNAG	3 cut(s)	409, 422, 543
HpySE526I	ACGT	1 cut(s)	150
Hsp92II	CATG	4 cut(s)	110, 119, 208, 682
HspAI	GCGC	3 cut(s)	332, 762, 764
Ksp22I	TGATCA	1 cut(s)	103
Kzo9I	GATC	4 cut(s)	103, 175, 268, 435
LmnI	GCTCC	3 cut(s)	20, 488, 547
LpnPI	CCDG	9 cut(s)	25, 62, 81, 86, 260, 262, 314, 398, 530
Lsp1109I	GCAGC	1 cut(s)	582
LweI	GCATC	1 cut(s)	513
MaeII	ACGT	1 cut(s)	150
MaeIII	GTNAC	3 cut(s)	82, 193, 221
MalI	GATC	4 cut(s)	105, 177, 270, 437
MbiI	CCGCTC	1 cut(s)	140
MboI	GATC	4 cut(s)	103, 175, 268, 435
MboII	GAAGA	6 cut(s)	54, 70, 263, 409, 523, 730
MflI	RGATCY	1 cut(s)	175
MhlI	GDGCHC	2 cut(s)	300, 410
MluCI	AATT	5 cut(s)	7, 471, 586, 664, 736
MlyI	GAGTC	1 cut(s)	335
MnlI	CCTC	5 cut(s)	32, 229, 431, 458, 664
Mph1103I	ATGCAT	1 cut(s)	185
MseI	TTAA	1 cut(s)	21
MslI	CAYNNNNRTG	4 cut(s)	30, 153, 188, 524
MspI	CCGG	3 cut(s)	73, 249, 301
MspR9I	CCNGG	2 cut(s)	250, 301
Mva1269I	GAATGC	1 cut(s)	519
MvnI	CGCG	1 cut(s)	764
MwoI	GCNNNNNNNGC	3 cut(s)	73, 295, 331
NciI	CCSGG	2 cut(s)	250, 301
NdeII	GATC	4 cut(s)	103, 175, 268, 435
NlaIII	CATG	4 cut(s)	110, 119, 208, 682
NsiI	ATGCAT	1 cut(s)	185
NspI	RCATGY	1 cut(s)	682
OliI	CACNNNNGTG	1 cut(s)	153
PagI	TCATGA	2 cut(s)	106, 115
PauI	GCGCGC	1 cut(s)	762
PctI	GAATGC	1 cut(s)	519
PfeI	GAWTC	1 cut(s)	498
PkrI	GCNGC	1 cut(s)	597
PleI	GAGTC	1 cut(s)	335
PpsI	GAGTC	1 cut(s)	335
PspFI	CCCAGC	1 cut(s)	76
PspPI	GGNCC	1 cut(s)	398
PstI	CTGCAG	2 cut(s)	97, 600
PsuI	RGATCY	1 cut(s)	175
PteI	GCGCGC	1 cut(s)	762
RsaI	GTAC	1 cut(s)	607
RsaNI	GTAC	1 cut(s)	606
RseI	CAYNNNNRTG	4 cut(s)	30, 153, 188, 524
SaqAI	TTAA	1 cut(s)	21
SatI	GCNGC	1 cut(s)	596
Sau3AI	GATC	4 cut(s)	103, 175, 268, 435
Sau96I	GGNCC	1 cut(s)	398
SchI	GAGTC	1 cut(s)	335
ScrFI	CCNGG	2 cut(s)	250, 301
SduI	GDGCHC	2 cut(s)	300, 410
SetI	ASST	8 cut(s)	17, 100, 153, 387, 447, 493, 540, 675
SfaNI	GCATC	1 cut(s)	513
SfcI	CTRYAG	2 cut(s)	93, 596
SmiMI	CAYNNNNRTG	4 cut(s)	30, 153, 188, 524
Sse9I	AATT	5 cut(s)	7, 471, 586, 664, 736
SsiI	CCGC	3 cut(s)	140, 259, 502
SspI	AATATT	1 cut(s)	310
StyD4I	CCNGG	2 cut(s)	248, 299
TaaI	ACNGT	3 cut(s)	321, 578, 645
TaiI	ACGT	1 cut(s)	153
TaqI	TCGA	3 cut(s)	56, 267, 438
TaqII	GACCGA	1 cut(s)	272
TasI	AATT	5 cut(s)	7, 471, 586, 664, 736
TatI	WGTACW	1 cut(s)	605
TfiI	GAWTC	1 cut(s)	498
Tru1I	TTAA	1 cut(s)	21
Tru9I	TTAA	1 cut(s)	21
TscAI	CASTG	2 cut(s)	37, 583
TseI	GCWGC	1 cut(s)	595
TspDTI	ATGAA	2 cut(s)	132, 221
TspGWI	ACGGA	1 cut(s)	240
TspRI	CASTG	2 cut(s)	37, 583
XapI	RAATTY	1 cut(s)	7
XceI	RCATGY	1 cut(s)	682
Zsp2I	ATGCAT	1 cut(s)	185

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