Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0014926

Physical Location & Seq

Genomic Coordinates Forward (+)

34692786 .. 34696806

Gene Structure 4021 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00242300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGGCGGAGCACTTGGCTTCGATATTCGGAACCGAGAAGGACCGGGTGAACTGCCCGTTCTATTTCAAGATCGGCGCGTGCCGTCACGGCGACCGGTGCTCCCGTCTCCACAACCGGCCGACGATCAGCCCGACCCTGCTCCTCTCCAACATGTACCAGCGGCCCGACATGATCACCCCCGGCGTCGACCCCCAGGGCCAGCCCATCGACCCCCGCAAGATCCAGGACCATTTCGAGGACTTCTACGAGGACATCTTCGAGGAGCTCGACAAGTTCGGCGAGATCGAGAGCCTCAACGTCTGCGACAATCTCGCCGATCACATGATCGGCAACGTCTACGTCCAGTTCAAGGAGGAGGACCAGGCCGCCGCCGCCCTCCAGGCCTTGCAAGGGAGGTTCTATAACGGCCGCCCGATTATCGCCGACTTCTCGCCCGTGACGGATTTCCGGGAAGCCACGTGTCGCCAGTTCGAGGAGAACAACTGCAATCGAGGCGGCTACTGTAATTTTATGCACGTGAAGCTGATTGGGAGGGAATTGAGGAGGAAGCTGTATGGGAGGTACCGCGGGTATAGGGCTAGCCGGAGCCGGAGCCGGAGTTTGAGCCCGCGGCACCGGAGGGATAGGGATAGGGATTATGATAAACGGGACTACCGGGACAGGGATTATAGAGGGAATGGGGGGAGAAGCAAGGATAGGTATGACAGGGACAGAGACAGTGGGAGGAGAAGACATAGCAGTCCCAGGCGGAGCAGAACCAGGAGCAGGAGCCCCGTGGCGGCAGTGAGGGAAGGGAGCGAAGAACGCCGAGCTAGGATTGAGCAGTGGAATCGAGAAAGGGAGGGGAAGCTGTATCCAGGGGACCTGGAAGTTAGTGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009791 GO:0009987 GO:0010228 GO:0010467 GO:0016070 GO:0016071 GO:0022414 GO:0030628 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0036002 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048573 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0071704 GO:0089701 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 ko05131 map03040 map05131

Pfam Domains

Protein Families

RRM_1 zf-CCCH

Protein Analysis

293

Amino Acids

34.54

Weight (kDa)

9.4

Isoelectric Point (pI)

65.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-CCCH	PF00642	14 - 38	1.3e-07	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
RRM_1	PF00076	83 - 139	1.6e-07	RNA recognition motif

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: OG0014926)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G42820 AT5G42820
fragaria_vesca	FvH4_5g26450 FvH4_5g26450
pyrus_communis	pycom06g00210
rosa_chinensis	RchiOBHm_Chr7g0217361
rosa_laevigata	RLG00000002486
rosa_multiflora	Rmu_sc0011824.1_g000010 Rmu_sc0038917.1_g000002
rosa_roxburghii	Rroxscaffold_3G00242300
rosa_rugosa	Rorug07G0168300 Rorug07G0168400
rosa_samantha	Rh7AG308100 Rh7BG298800 Rh7DG307200
rosa_wichuraiana	Rw7G026120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	738
Acc65I	GGTACC	1 cut(s)	561
AccB1I	GGYRCC	2 cut(s)	561, 612
AccI	GTMKAC	2 cut(s)	186, 336
AccII	CGCG	3 cut(s)	77, 567, 610
AclWI	GGATC	1 cut(s)	214
AcoI	YGGCCR	2 cut(s)	116, 406
AcvI	CACGTG	2 cut(s)	459, 517
AcyI	GRCGYC	1 cut(s)	183
AfaI	GTAC	2 cut(s)	155, 563
AfiI	CCNNNNNNNGG	7 cut(s)	235, 349, 390, 472, 661, 765, 778
AflIII	ACRYGT	2 cut(s)	150, 458
AgeI	ACCGGT	1 cut(s)	93
AgsI	TTSAA	2 cut(s)	67, 349
AjnI	CCWGG	8 cut(s)	192, 222, 360, 378, 743, 758, 856, 864
AluBI	AGCT	5 cut(s)	265, 523, 550, 812, 850
AluI	AGCT	5 cut(s)	265, 523, 550, 812, 850
Alw21I	GWGCWC	3 cut(s)	12, 101, 267
Alw26I	GTCTC	2 cut(s)	110, 708
AlwI	GGATC	1 cut(s)	214
AoxI	GGCC	6 cut(s)	116, 161, 196, 363, 381, 406
AsiGI	ACCGGT	1 cut(s)	93
Asp718I	GGTACC	1 cut(s)	561
AspLEI	GCGC	1 cut(s)	77
AspS9I	GGNCC	6 cut(s)	40, 162, 196, 226, 358, 862
AsuC2I	CCSGG	4 cut(s)	44, 180, 449, 656
AsuHPI	GGTGA	2 cut(s)	58, 166
AsuNHI	GCTAGC	1 cut(s)	578
AvaII	GGWCC	4 cut(s)	40, 226, 358, 862
BanI	GGYRCC	2 cut(s)	561, 612
BanII	GRGCYC	3 cut(s)	267, 608, 773
BbrPI	CACGTG	2 cut(s)	459, 517
BbsI	GAAGAC	1 cut(s)	736
Bbv12I	GWGCWC	3 cut(s)	12, 101, 267
BccI	CCATC	1 cut(s)	212
BceAI	ACGGC	3 cut(s)	66, 103, 421
BcgI	CGANNNNNNTGC	2 cut(s)	812, 846
BciT130I	CCWGG	8 cut(s)	194, 224, 362, 380, 745, 760, 858, 866
BciVI	GTATCC	1 cut(s)	864
BclI	TGATCA	1 cut(s)	171
BcnI	CCSGG	4 cut(s)	44, 180, 449, 656
BcoDI	GTCTC	2 cut(s)	110, 708
BfaI	CTAG	2 cut(s)	579, 813
BfuI	GTATCC	1 cut(s)	864
BglI	GCCNNNNNGGC	2 cut(s)	87, 380
BisI	GCNGC	8 cut(s)	161, 366, 369, 372, 409, 496, 611, 780
BlsI	GCNGC	8 cut(s)	162, 367, 370, 373, 410, 497, 612, 781
Bme18I	GGWCC	4 cut(s)	40, 226, 358, 862
BmgT120I	GGNCC	6 cut(s)	40, 162, 196, 226, 358, 862
BmiI	GGNNCC	7 cut(s)	31, 563, 587, 593, 614, 770, 863
BmtI	GCTAGC	1 cut(s)	582
BpiI	GAAGAC	1 cut(s)	736
BpmI	CTGGAG	1 cut(s)	362
BpuMI	CCSGG	4 cut(s)	44, 180, 449, 656
BsaAI	YACGTR	2 cut(s)	459, 517
BsaHI	GRCGYC	1 cut(s)	183
BsaJI	CCNNGG	8 cut(s)	178, 192, 193, 565, 608, 743, 774, 857
BsaWI	WCCGGW	2 cut(s)	93, 615
BsaXI	ACNNNNNCTCC	4 cut(s)	83, 113, 583, 613
Bsc4I	CCNNNNNNNGG	7 cut(s)	235, 349, 390, 472, 661, 765, 778
Bse118I	RCCGGY	2 cut(s)	93, 114
Bse1I	ACTGG	2 cut(s)	343, 466
BseBI	CCWGG	8 cut(s)	194, 224, 362, 380, 745, 760, 858, 866
BseDI	CCNNGG	8 cut(s)	178, 192, 193, 565, 608, 743, 774, 857
BseLI	CCNNNNNNNGG	7 cut(s)	235, 349, 390, 472, 661, 765, 778
BseNI	ACTGG	2 cut(s)	343, 466
BseRI	GAGGAG	6 cut(s)	131, 275, 368, 488, 556, 739
BseX3I	CGGCCG	2 cut(s)	116, 406
Bsh1236I	CGCG	3 cut(s)	77, 567, 610
Bsh1285I	CGRYCG	3 cut(s)	94, 119, 409
BshFI	GGCC	6 cut(s)	118, 163, 198, 365, 383, 408
BshNI	GGYRCC	2 cut(s)	561, 612
BshTI	ACCGGT	1 cut(s)	93
BsiEI	CGRYCG	3 cut(s)	94, 119, 409
BsiHKAI	GWGCWC	3 cut(s)	12, 101, 267
BslFI	GGGAC	5 cut(s)	662, 671, 722, 726, 875
BslI	CCNNNNNNNGG	7 cut(s)	235, 349, 390, 472, 661, 765, 778
BsmAI	GTCTC	2 cut(s)	110, 708
BsmBI	CGTCTC	1 cut(s)	110
BsmFI	GGGAC	5 cut(s)	662, 671, 722, 726, 875
BsnI	GGCC	6 cut(s)	118, 163, 198, 365, 383, 408
Bsp1286I	GDGCHC	5 cut(s)	12, 101, 267, 608, 773
Bsp143I	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
BspANI	GGCC	6 cut(s)	118, 163, 198, 365, 383, 408
BspFNI	CGCG	3 cut(s)	77, 567, 610
BspLI	GGNNCC	7 cut(s)	31, 563, 587, 593, 614, 770, 863
BspOI	GCTAGC	1 cut(s)	582
BspPI	GGATC	1 cut(s)	214
BspT107I	GGYRCC	2 cut(s)	561, 612
BsrFI	RCCGGY	2 cut(s)	93, 114
BsrI	ACTGG	2 cut(s)	343, 466
BssAI	RCCGGY	2 cut(s)	93, 114
BssECI	CCNNGG	8 cut(s)	178, 192, 193, 565, 608, 743, 774, 857
BssMI	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
BssNI	GRCGYC	1 cut(s)	183
Bst2UI	CCWGG	8 cut(s)	194, 224, 362, 380, 745, 760, 858, 866
Bst4CI	ACNGT	2 cut(s)	503, 719
BstACI	GRCGYC	1 cut(s)	183
BstBAI	YACGTR	2 cut(s)	459, 517
BstC8I	GCNNGC	4 cut(s)	79, 200, 580, 608
BstDSI	CCRYGG	3 cut(s)	565, 608, 774
BstFNI	CGCG	3 cut(s)	77, 567, 610
BstHHI	GCGC	1 cut(s)	77
BstKTI	GATC	7 cut(s)	72, 126, 174, 222, 285, 319, 327
BstMAI	GTCTC	2 cut(s)	110, 708
BstMBI	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
BstMCI	CGRYCG	3 cut(s)	94, 119, 409
BstMWI	GCNNNNNNNGC	7 cut(s)	87, 96, 371, 380, 492, 520, 804
BstNI	CCWGG	8 cut(s)	194, 224, 362, 380, 745, 760, 858, 866
BstNSI	RCATGY	1 cut(s)	154
BstUI	CGCG	3 cut(s)	77, 567, 610
BstV2I	GAAGAC	1 cut(s)	736
BstX2I	RGATCY	1 cut(s)	219
BstYI	RGATCY	1 cut(s)	219
BstZI	CGGCCG	2 cut(s)	116, 406
BsuI	GTATCC	1 cut(s)	864
BsuRI	GGCC	6 cut(s)	118, 163, 198, 365, 383, 408
BtgI	CCRYGG	3 cut(s)	565, 608, 774
BtsI	GCAGTG	2 cut(s)	789, 830
BtsIMutI	CAGTG	3 cut(s)	724, 789, 830
Cac8I	GCNNGC	4 cut(s)	79, 200, 580, 608
CfoI	GCGC	1 cut(s)	77
Cfr10I	RCCGGY	2 cut(s)	93, 114
Cfr13I	GGNCC	6 cut(s)	40, 162, 196, 226, 358, 862
Cfr42I	CCGCGG	2 cut(s)	568, 611
CseI	GACGC	1 cut(s)	172
Csp6I	GTAC	2 cut(s)	154, 562
CspAI	ACCGGT	1 cut(s)	93
CviAII	CATG	3 cut(s)	151, 169, 322
CviQI	GTAC	2 cut(s)	154, 562
DpnI	GATC	7 cut(s)	71, 125, 173, 221, 284, 318, 326
DpnII	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
DrdI	GACNNNNNNGTC	1 cut(s)	738
DseDI	GACNNNNNNGTC	1 cut(s)	738
EaeI	YGGCCR	2 cut(s)	116, 406
EagI	CGGCCG	2 cut(s)	116, 406
EciI	GGCGGA	2 cut(s)	20, 763
Ecl136II	GAGCTC	1 cut(s)	265
EclXI	CGGCCG	2 cut(s)	116, 406
Eco147I	AGGCCT	1 cut(s)	383
Eco24I	GRGCYC	3 cut(s)	267, 608, 773
Eco47I	GGWCC	4 cut(s)	40, 226, 358, 862
Eco52I	CGGCCG	2 cut(s)	116, 406
Eco53kI	GAGCTC	1 cut(s)	265
Eco72I	CACGTG	2 cut(s)	459, 517
EcoICRI	GAGCTC	1 cut(s)	265
EcoO109I	RGGNCCY	1 cut(s)	862
EcoRII	CCWGG	8 cut(s)	192, 222, 360, 378, 743, 758, 856, 864
EcoT38I	GRGCYC	3 cut(s)	267, 608, 773
Esp3I	CGTCTC	1 cut(s)	110
FaeI	CATG	3 cut(s)	154, 172, 325
FaqI	GGGAC	5 cut(s)	662, 671, 722, 726, 875
FatI	CATG	3 cut(s)	150, 168, 321
FauI	CCCGC	3 cut(s)	221, 560, 615
FbaI	TGATCA	1 cut(s)	171
FblI	GTMKAC	2 cut(s)	186, 336
Fnu4HI	GCNGC	8 cut(s)	161, 366, 369, 372, 409, 496, 611, 780
FriOI	GRGCYC	3 cut(s)	267, 608, 773
Fsp4HI	GCNGC	8 cut(s)	161, 366, 369, 372, 409, 496, 611, 780
FspBI	CTAG	2 cut(s)	579, 813
GlaI	GCGC	1 cut(s)	76
GluI	GCNGC	8 cut(s)	161, 366, 369, 372, 409, 496, 611, 780
GsuI	CTGGAG	1 cut(s)	362
HaeIII	GGCC	6 cut(s)	118, 163, 198, 365, 383, 408
HgaI	GACGC	1 cut(s)	172
HhaI	GCGC	1 cut(s)	77
Hin1I	GRCGYC	1 cut(s)	183
Hin1II	CATG	3 cut(s)	154, 172, 325
Hin6I	GCGC	1 cut(s)	75
HinP1I	GCGC	1 cut(s)	75
HincII	GTYRAC	1 cut(s)	187
HindII	GTYRAC	1 cut(s)	187
HinfI	GANTC	1 cut(s)	829
HphI	GGTGA	2 cut(s)	58, 166
Hpy166II	GTNNAC	3 cut(s)	49, 187, 337
Hpy188I	TCNGA	1 cut(s)	29
Hpy188III	TCNNGA	3 cut(s)	67, 286, 833
Hpy8I	GTNNAC	3 cut(s)	49, 187, 337
Hpy99I	CGWCG	2 cut(s)	124, 188
HpyAV	CCTTC	2 cut(s)	31, 785
HpyCH4III	ACNGT	2 cut(s)	503, 719
HpyCH4IV	ACGT	5 cut(s)	297, 333, 339, 458, 516
HpyCH4V	TGCA	3 cut(s)	388, 486, 514
HpyF10VI	GCNNNNNNNGC	7 cut(s)	87, 96, 371, 380, 492, 520, 804
HpySE526I	ACGT	5 cut(s)	297, 333, 339, 458, 516
Hsp92I	GRCGYC	1 cut(s)	183
Hsp92II	CATG	3 cut(s)	154, 172, 325
HspAI	GCGC	1 cut(s)	75
KpnI	GGTACC	1 cut(s)	565
Ksp22I	TGATCA	1 cut(s)	171
KspI	CCGCGG	2 cut(s)	568, 611
Kzo9I	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
MaeI	CTAG	2 cut(s)	579, 813
MaeII	ACGT	5 cut(s)	297, 333, 339, 458, 516
MaeIII	GTNAC	2 cut(s)	83, 436
MalI	GATC	7 cut(s)	71, 125, 173, 221, 284, 318, 326
MboI	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
MboII	GAAGA	3 cut(s)	247, 741, 812
MflI	RGATCY	1 cut(s)	219
MhlI	GDGCHC	5 cut(s)	12, 101, 267, 608, 773
MluCI	AATT	2 cut(s)	505, 536
MmeI	TCCRAC	1 cut(s)	171
MspA1I	CMGCKG	3 cut(s)	160, 567, 610
MvaI	CCWGG	8 cut(s)	194, 224, 362, 380, 745, 760, 858, 866
MvnI	CGCG	3 cut(s)	77, 567, 610
MwoI	GCNNNNNNNGC	7 cut(s)	87, 96, 371, 380, 492, 520, 804
NciI	CCSGG	4 cut(s)	44, 180, 449, 656
NdeII	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
NheI	GCTAGC	1 cut(s)	578
NlaIII	CATG	3 cut(s)	154, 172, 325
NlaIV	GGNNCC	7 cut(s)	31, 563, 587, 593, 614, 770, 863
NmeAIII	GCCGAG	1 cut(s)	833
NmuCI	GTSAC	2 cut(s)	83, 436
NspI	RCATGY	1 cut(s)	154
PasI	CCCWGGG	1 cut(s)	193
PceI	AGGCCT	1 cut(s)	383
PciI	ACATGT	1 cut(s)	150
PcsI	WCGNNNNNNNCGW	3 cut(s)	128, 264, 282
PfeI	GAWTC	1 cut(s)	829
PfoI	TCCNGGA	2 cut(s)	222, 447
PinAI	ACCGGT	1 cut(s)	93
PkrI	GCNGC	8 cut(s)	162, 367, 370, 373, 410, 497, 612, 781
PmaCI	CACGTG	2 cut(s)	459, 517
PmlI	CACGTG	2 cut(s)	459, 517
Ppu21I	YACGTR	2 cut(s)	459, 517
PpuMI	RGGWCCY	1 cut(s)	862
PscI	ACATGT	1 cut(s)	150
Psp124BI	GAGCTC	1 cut(s)	267
Psp5II	RGGWCCY	1 cut(s)	862
Psp6I	CCWGG	8 cut(s)	192, 222, 360, 378, 743, 758, 856, 864
PspCI	CACGTG	2 cut(s)	459, 517
PspGI	CCWGG	8 cut(s)	192, 222, 360, 378, 743, 758, 856, 864
PspN4I	GGNNCC	7 cut(s)	31, 563, 587, 593, 614, 770, 863
PspPI	GGNCC	6 cut(s)	40, 162, 196, 226, 358, 862
PspPPI	RGGWCCY	1 cut(s)	862
PsuI	RGATCY	1 cut(s)	219
RsaI	GTAC	2 cut(s)	155, 563
RsaNI	GTAC	2 cut(s)	154, 562
SacI	GAGCTC	1 cut(s)	267
SacII	CCGCGG	2 cut(s)	568, 611
SalI	GTCGAC	1 cut(s)	185
SatI	GCNGC	8 cut(s)	161, 366, 369, 372, 409, 496, 611, 780
Sau3AI	GATC	7 cut(s)	69, 123, 171, 219, 282, 316, 324
Sau96I	GGNCC	6 cut(s)	40, 162, 196, 226, 358, 862
SduI	GDGCHC	5 cut(s)	12, 101, 267, 608, 773
Sfr303I	CCGCGG	2 cut(s)	568, 611
SgrBI	CCGCGG	2 cut(s)	568, 611
SinI	GGWCC	4 cut(s)	40, 226, 358, 862
Sse9I	AATT	2 cut(s)	505, 536
SseBI	AGGCCT	1 cut(s)	383
SspMI	CTAG	2 cut(s)	579, 813
SstI	GAGCTC	1 cut(s)	267
StuI	AGGCCT	1 cut(s)	383
TaaI	ACNGT	2 cut(s)	503, 719
TaiI	ACGT	5 cut(s)	300, 336, 342, 461, 519
TasI	AATT	2 cut(s)	505, 536
TauI	GCSGC	8 cut(s)	163, 368, 371, 374, 411, 498, 613, 782
TfiI	GAWTC	1 cut(s)	829
TscAI	CASTG	3 cut(s)	724, 789, 830
TseFI	GTSAC	2 cut(s)	83, 436
Tsp45I	GTSAC	2 cut(s)	83, 436
TspGWI	ACGGA	1 cut(s)	455
TspRI	CASTG	3 cut(s)	724, 789, 830
VpaK11BI	GGWCC	4 cut(s)	40, 226, 358, 862
XceI	RCATGY	1 cut(s)	154
XmiI	GTMKAC	2 cut(s)	186, 336
XspI	CTAG	2 cut(s)	579, 813

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