Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0010206

Physical Location & Seq

Genomic Coordinates Forward (+)

26120814 .. 26122167

Gene Structure 1354 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00305480.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGCACACTCTCAAACCCACCCACGCCGTCTTCATAAGCCACGGCCTCCACCTCAACAACTACGCCTTCTGCGTGCTCTCCTACTCCGGCAATCTCCGATACGCCTCTCTCCTCTTCAACCAAGTCCAGACCCCCAACACCTACATGTACAACACCCTGATCAGAGCCCACTCCACCAGCTCCGACCCTCATCTGGCCATGCATTACTTCCGGCTTATGTTAAACCAGAGCGACTTAGAACCCGATAATTTTACGTTTCATTTCGTCATCTTGGGTTGTGTAAATTGCGGTTGGATTGTTCCGGGGAGGCAGATTCATAGTTGGGTGGTCAAGAATGGGATGGTTATAGTGGATGCTCATGTTCAGACTGCGCTTCTGAGGTTGTATGCAGAATGCAGGGTTTTAGGGGATGCGCACAAGGTGTTCCATGAAATTTCTGAGACAGATATGACACAGTGGAATGTGATTATGAATGGGTATGTGAAGTGTGGCATGGCTTCTGAGGCTTTGAGGGTTTTCCGGGATATGTTGGGAAAGTGGATTCATGACTATCATGAGTATGTTAGAAAGAGGAAAGGGTTGGATTCGGATGTGTTTATTGGGGCGGCGCTTGTTGATATGTATGCCAAGTGTGGTTGTATTGATTTAGCTGTCGAGGCGAAAAGGAATGTGGTAGATGATGGAATCAAGCCTGATGGTGTTGTCCTTCTTGGAGTACTAATGGCATGTACTCATGCAGGATTGCTTGAGAAGGGTCGATTATGTGATGCATTTGTGCTTATTAGAAGAATTCCCATGAAGCCGCTTGCTTCTGTGTGGGGTGTCCGGAGAAGTGAATATGCACTTAGGATAAGGAAGATGATTGGTGAAAAAGGAATCAAGAAGACACCAGGCTGCAGCATGCTAGTGGTGGCTGGGAAGGTTAATGAGTTTGTTTCAGGAGATGTATTCCATTCACATCGTGTTCAGATTTGTACAATGTTGGATCTAATATCTGCTGACTCAGTTCAGGACCCGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR

Protein Analysis

339

Amino Acids

38.16

Weight (kDa)

8.58

Isoelectric Point (pI)

34.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	45 - 94	2.7e-06	PPR repeat family
PPR	PF01535	153 - 179	2.3e-06	PPR repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0010206)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G28640 AT3G28660
fragaria_vesca	FvH4_6g49400
malus_domestica	MD17G1046400.v1.1
prunus_persica	Prupe.3G272900_v2.0.a1 Prupe.3G272900_v2.0.a1
pyrus_communis	pycom111g03510 pycom111g03520
rosa_chinensis	RchiOBHm_Chr1g0349531 RchiOBHm_Chr2g0169281
rosa_laevigata	RLG00000021851
rosa_multiflora	Rmu_ssc0000399.1_g000005
rosa_roxburghii	Rroxscaffold_2G00082290 Rroxscaffold_4G00305480
rosa_rugosa	Rorug02G0539200
rosa_samantha	Rh2AG610300 Rh2BG623400 Rh2CG591900 Rh2DG634200
rosa_wichuraiana	Rw1G018890 Rw2G050610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	414
AccIII	TCCGGA	1 cut(s)	825
AciI	CCGC	3 cut(s)	288, 605, 803
AclWI	GGATC	1 cut(s)	993
AcoI	YGGCCR	1 cut(s)	195
AcsI	RAATTY	2 cut(s)	432, 789
AdeI	CACNNNGTG	2 cut(s)	421, 962
AfaI	GTAC	4 cut(s)	149, 717, 730, 976
AfiI	CCNNNNNNNGG	1 cut(s)	193
AflIII	ACRYGT	1 cut(s)	144
AgsI	TTSAA	1 cut(s)	118
AjnI	CCWGG	1 cut(s)	889
AluBI	AGCT	2 cut(s)	180, 650
AluI	AGCT	2 cut(s)	180, 650
Alw21I	GWGCWC	1 cut(s)	78
Alw26I	GTCTC	1 cut(s)	434
AlwI	GGATC	1 cut(s)	993
Aor13HI	TCCGGA	1 cut(s)	825
AoxI	GGCC	2 cut(s)	43, 195
ApeKI	GCWGC	2 cut(s)	894, 897
ApoI	RAATTY	2 cut(s)	432, 789
AspLEI	GCGC	3 cut(s)	373, 415, 610
AspS9I	GGNCC	1 cut(s)	1012
AsuC2I	CCSGG	2 cut(s)	303, 521
AsuHPI	GGTGA	1 cut(s)	878
AvaII	GGWCC	1 cut(s)	1012
BalI	TGGCCA	1 cut(s)	197
BanII	GRGCYC	1 cut(s)	169
BbsI	GAAGAC	2 cut(s)	22, 890
Bbv12I	GWGCWC	1 cut(s)	78
BbvI	GCAGC	2 cut(s)	881, 909
BccI	CCATC	3 cut(s)	334, 674, 689
BceAI	ACGGC	2 cut(s)	11, 58
BciT130I	CCWGG	1 cut(s)	891
BclI	TGATCA	1 cut(s)	159
BcnI	CCSGG	2 cut(s)	303, 521
BcoDI	GTCTC	1 cut(s)	434
BfaI	CTAG	1 cut(s)	905
BfmI	CTRYAG	1 cut(s)	895
BfoI	RGCGCY	1 cut(s)	611
BisI	GCNGC	4 cut(s)	606, 803, 895, 898
BlsI	GCNGC	4 cut(s)	607, 804, 896, 899
BmcAI	AGTACT	1 cut(s)	717
Bme1390I	CCNGG	3 cut(s)	303, 521, 891
Bme18I	GGWCC	1 cut(s)	1012
BmgT120I	GGNCC	1 cut(s)	1012
BmiI	GGNNCC	1 cut(s)	1014
BmrFI	CCNGG	3 cut(s)	303, 521, 891
BmsI	GCATC	3 cut(s)	343, 400, 757
BpiI	GAAGAC	2 cut(s)	22, 890
BpuEI	CTTGAG	1 cut(s)	767
BpuMI	CCSGG	2 cut(s)	303, 521
BsaJI	CCNNGG	2 cut(s)	40, 302
BsaWI	WCCGGW	1 cut(s)	825
Bsc4I	CCNNNNNNNGG	1 cut(s)	193
BseAI	TCCGGA	1 cut(s)	825
BseBI	CCWGG	1 cut(s)	891
BseDI	CCNNGG	2 cut(s)	40, 302
BseGI	GGATG	4 cut(s)	345, 358, 415, 595
BseLI	CCNNNNNNNGG	1 cut(s)	193
BseMII	CTCAG	4 cut(s)	368, 429, 492, 1017
BseRI	GAGGAG	1 cut(s)	101
BseXI	GCAGC	2 cut(s)	881, 909
BseYI	CCCAGC	1 cut(s)	914
BshFI	GGCC	2 cut(s)	45, 197
BsiHKAI	GWGCWC	1 cut(s)	78
BsiSI	CCGG	5 cut(s)	87, 211, 302, 520, 826
BslI	CCNNNNNNNGG	1 cut(s)	193
BsmAI	GTCTC	1 cut(s)	434
BsmI	GAATGC	1 cut(s)	398
BsnI	GGCC	2 cut(s)	45, 197
Bsp1286I	GDGCHC	2 cut(s)	78, 169
Bsp13I	TCCGGA	1 cut(s)	825
Bsp1407I	TGTACA	2 cut(s)	147, 974
Bsp143I	GATC	2 cut(s)	159, 985
BspACI	CCGC	3 cut(s)	288, 605, 803
BspANI	GGCC	2 cut(s)	45, 197
BspCNI	CTCAG	4 cut(s)	369, 430, 493, 1016
BspEI	TCCGGA	1 cut(s)	825
BspHI	TCATGA	2 cut(s)	544, 553
BspLI	GGNNCC	1 cut(s)	1014
BspMAI	CTGCAG	1 cut(s)	899
BspPI	GGATC	1 cut(s)	993
BsrGI	TGTACA	2 cut(s)	147, 974
BssECI	CCNNGG	2 cut(s)	40, 302
BssMI	GATC	2 cut(s)	159, 985
Bst2UI	CCWGG	1 cut(s)	891
Bst4CI	ACNGT	1 cut(s)	456
Bst6I	CTCTTC	1 cut(s)	119
BstAUI	TGTACA	2 cut(s)	147, 974
BstC8I	GCNNGC	3 cut(s)	74, 807, 902
BstDEI	CTNAG	6 cut(s)	235, 377, 438, 501, 845, 1003
BstDSI	CCRYGG	1 cut(s)	40
BstF5I	GGATG	4 cut(s)	345, 358, 415, 595
BstH2I	RGCGCY	1 cut(s)	611
BstHHI	GCGC	3 cut(s)	373, 415, 610
BstKTI	GATC	2 cut(s)	162, 988
BstMAI	GTCTC	1 cut(s)	434
BstMBI	GATC	2 cut(s)	159, 985
BstMWI	GCNNNNNNNGC	2 cut(s)	503, 656
BstNI	CCWGG	1 cut(s)	891
BstNSI	RCATGY	3 cut(s)	148, 729, 904
BstSCI	CCNGG	3 cut(s)	301, 519, 889
BstSFI	CTRYAG	1 cut(s)	895
BstV1I	GCAGC	2 cut(s)	881, 909
BstV2I	GAAGAC	2 cut(s)	22, 890
BstX2I	RGATCY	1 cut(s)	985
BstYI	RGATCY	1 cut(s)	985
BsuRI	GGCC	2 cut(s)	45, 197
BtgI	CCRYGG	1 cut(s)	40
BtsCI	GGATG	4 cut(s)	345, 358, 415, 595
BtsIMutI	CAGTG	1 cut(s)	461
Cac8I	GCNNGC	3 cut(s)	74, 807, 902
CciI	TCATGA	2 cut(s)	544, 553
CfoI	GCGC	3 cut(s)	373, 415, 610
Cfr13I	GGNCC	1 cut(s)	1012
Csp6I	GTAC	4 cut(s)	148, 716, 729, 975
CviQI	GTAC	4 cut(s)	148, 716, 729, 975
DdeI	CTNAG	6 cut(s)	235, 377, 438, 501, 845, 1003
DpnI	GATC	2 cut(s)	161, 987
DpnII	GATC	2 cut(s)	159, 985
DraIII	CACNNNGTG	2 cut(s)	421, 962
EaeI	YGGCCR	1 cut(s)	195
Eam1104I	CTCTTC	1 cut(s)	119
EarI	CTCTTC	1 cut(s)	119
Eco24I	GRGCYC	1 cut(s)	169
Eco47I	GGWCC	1 cut(s)	1012
EcoO109I	RGGNCCY	1 cut(s)	1012
EcoRI	GAATTC	1 cut(s)	789
EcoRII	CCWGG	1 cut(s)	889
EcoT22I	ATGCAT	2 cut(s)	204, 772
EcoT38I	GRGCYC	1 cut(s)	169
FbaI	TGATCA	1 cut(s)	159
Fnu4HI	GCNGC	4 cut(s)	606, 803, 895, 898
FokI	GGATG	4 cut(s)	352, 365, 422, 602
FriOI	GRGCYC	1 cut(s)	169
Fsp4HI	GCNGC	4 cut(s)	606, 803, 895, 898
FspAI	RTGCGCAY	1 cut(s)	414
FspBI	CTAG	1 cut(s)	905
FspI	TGCGCA	1 cut(s)	414
GlaI	GCGC	3 cut(s)	372, 414, 609
GluI	GCNGC	4 cut(s)	606, 803, 895, 898
GsaI	CCCAGC	1 cut(s)	918
HaeII	RGCGCY	1 cut(s)	611
HaeIII	GGCC	2 cut(s)	45, 197
HapII	CCGG	5 cut(s)	87, 211, 302, 520, 826
HhaI	GCGC	3 cut(s)	373, 415, 610
Hin6I	GCGC	3 cut(s)	371, 413, 608
HinP1I	GCGC	3 cut(s)	371, 413, 608
HinfI	GANTC	6 cut(s)	313, 541, 584, 684, 876, 1001
HpaII	CCGG	5 cut(s)	87, 211, 302, 520, 826
HphI	GGTGA	1 cut(s)	878
Hpy188I	TCNGA	9 cut(s)	98, 164, 184, 366, 378, 439, 502, 589, 969
Hpy188III	TCNNGA	8 cut(s)	127, 331, 545, 554, 826, 880, 939, 1010
HpyAV	CCTTC	4 cut(s)	76, 716, 745, 913
HpyCH4III	ACNGT	1 cut(s)	456
HpyCH4IV	ACGT	1 cut(s)	254
HpyCH4V	TGCA	8 cut(s)	4, 202, 389, 396, 737, 770, 842, 897
HpyF10VI	GCNNNNNNNGC	2 cut(s)	503, 656
HpyF3I	CTNAG	6 cut(s)	235, 377, 438, 501, 845, 1003
HpySE526I	ACGT	1 cut(s)	254
HspAI	GCGC	3 cut(s)	371, 413, 608
Kpn2I	TCCGGA	1 cut(s)	825
Ksp22I	TGATCA	1 cut(s)	159
Kzo9I	GATC	2 cut(s)	159, 985
LmnI	GCTCC	1 cut(s)	185
Lsp1109I	GCAGC	2 cut(s)	881, 909
LweI	GCATC	3 cut(s)	343, 400, 757
MaeI	CTAG	1 cut(s)	905
MaeII	ACGT	1 cut(s)	254
MalI	GATC	2 cut(s)	161, 987
MboI	GATC	2 cut(s)	159, 985
MboII	GAAGA	5 cut(s)	22, 106, 798, 868, 895
MflI	RGATCY	1 cut(s)	985
MhlI	GDGCHC	2 cut(s)	78, 169
MlsI	TGGCCA	1 cut(s)	197
MluCI	AATT	4 cut(s)	247, 283, 432, 789
MluNI	TGGCCA	1 cut(s)	197
MlyI	GAGTC	1 cut(s)	995
MmeI	TCCRAC	4 cut(s)	207, 272, 561, 963
Mox20I	TGGCCA	1 cut(s)	197
Mph1103I	ATGCAT	2 cut(s)	204, 772
MroI	TCCGGA	1 cut(s)	825
MscI	TGGCCA	1 cut(s)	197
MseI	TTAA	2 cut(s)	221, 924
MslI	CAYNNNNRTG	3 cut(s)	143, 558, 905
Msp20I	TGGCCA	1 cut(s)	197
MspI	CCGG	5 cut(s)	87, 211, 302, 520, 826
MspR9I	CCNGG	3 cut(s)	303, 521, 891
Mva1269I	GAATGC	1 cut(s)	398
MvaI	CCWGG	1 cut(s)	891
MwoI	GCNNNNNNNGC	2 cut(s)	503, 656
NciI	CCSGG	2 cut(s)	303, 521
NdeII	GATC	2 cut(s)	159, 985
NlaIV	GGNNCC	1 cut(s)	1014
NsbI	TGCGCA	1 cut(s)	414
NsiI	ATGCAT	2 cut(s)	204, 772
NspI	RCATGY	3 cut(s)	148, 729, 904
PaeI	GCATGC	1 cut(s)	904
PagI	TCATGA	2 cut(s)	544, 553
PciI	ACATGT	1 cut(s)	144
PcsI	WCGNNNNNNNCGW	1 cut(s)	69
PctI	GAATGC	1 cut(s)	398
PfeI	GAWTC	5 cut(s)	313, 541, 584, 684, 876
PfoI	TCCNGGA	1 cut(s)	519
PkrI	GCNGC	4 cut(s)	607, 804, 896, 899
PleI	GAGTC	1 cut(s)	995
PpsI	GAGTC	1 cut(s)	995
PpuMI	RGGWCCY	1 cut(s)	1012
PscI	ACATGT	1 cut(s)	144
Psp5II	RGGWCCY	1 cut(s)	1012
Psp6I	CCWGG	1 cut(s)	889
PspFI	CCCAGC	1 cut(s)	914
PspGI	CCWGG	1 cut(s)	889
PspN4I	GGNNCC	1 cut(s)	1014
PspPI	GGNCC	1 cut(s)	1012
PspPPI	RGGWCCY	1 cut(s)	1012
PstI	CTGCAG	1 cut(s)	899
PsuI	RGATCY	1 cut(s)	985
RsaI	GTAC	4 cut(s)	149, 717, 730, 976
RsaNI	GTAC	4 cut(s)	148, 716, 729, 975
RseI	CAYNNNNRTG	3 cut(s)	143, 558, 905
SaqAI	TTAA	2 cut(s)	221, 924
SatI	GCNGC	4 cut(s)	606, 803, 895, 898
Sau3AI	GATC	2 cut(s)	159, 985
Sau96I	GGNCC	1 cut(s)	1012
ScaI	AGTACT	1 cut(s)	717
SchI	GAGTC	1 cut(s)	995
ScrFI	CCNGG	3 cut(s)	303, 521, 891
SduI	GDGCHC	2 cut(s)	78, 169
SetI	ASST	8 cut(s)	54, 143, 182, 257, 383, 423, 652, 924
SfaNI	GCATC	3 cut(s)	343, 400, 757
SfcI	CTRYAG	1 cut(s)	895
SinI	GGWCC	1 cut(s)	1012
SmiMI	CAYNNNNRTG	3 cut(s)	143, 558, 905
SmlI	CTYRAG	1 cut(s)	746
SmoI	CTYRAG	1 cut(s)	746
SphI	GCATGC	1 cut(s)	904
Sse9I	AATT	4 cut(s)	247, 283, 432, 789
SsiI	CCGC	3 cut(s)	288, 605, 803
SspMI	CTAG	1 cut(s)	905
StyD4I	CCNGG	3 cut(s)	301, 519, 889
TaaI	ACNGT	1 cut(s)	456
TaiI	ACGT	1 cut(s)	257
TaqI	TCGA	2 cut(s)	654, 757
TasI	AATT	4 cut(s)	247, 283, 432, 789
TatI	WGTACW	4 cut(s)	147, 715, 728, 974
TauI	GCSGC	2 cut(s)	608, 805
TfiI	GAWTC	5 cut(s)	313, 541, 584, 684, 876
Tru1I	TTAA	2 cut(s)	221, 924
Tru9I	TTAA	2 cut(s)	221, 924
TscAI	CASTG	1 cut(s)	461
TseI	GCWGC	2 cut(s)	894, 897
TspDTI	ATGAA	7 cut(s)	22, 248, 305, 444, 485, 533, 812
TspRI	CASTG	1 cut(s)	461
VpaK11BI	GGWCC	1 cut(s)	1012
XapI	RAATTY	2 cut(s)	432, 789
XceI	RCATGY	3 cut(s)	148, 729, 904
XspI	CTAG	1 cut(s)	905
ZrmI	AGTACT	1 cut(s)	717
Zsp2I	ATGCAT	2 cut(s)	204, 772

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