Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001498

Physical Location & Seq

Genomic Coordinates Reverse (-)

4067430 .. 4069770

Gene Structure 2341 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00221270.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGTCGCACTTCGGCCGATCTGGACCGCCGGACATCAGAGACACCTACTCCCTCCTCGTTCTCAACATCACTTTCCGAACCACCGCCGACGATCTCTTCCCGCTGTTTGATAAGTACGGGAAGGTCGTCGACGTGTTTATCCCCCGAGACCGGAGGACCGGGGATTCGCGCGGCTTCGCTTTTGTGCGGTATAAGTATCAGGATGAGGCGGCCAAGGCCGTGGATAAGCTCGACGGGAGAGTTGTGGATGGGAGAGAGATTATGGTTCAGTTTGCTAAGTATGGTCCAAATGCTGAGAGGATCTCCAGTCACAAGGGAAAGATAAGCGAATCTTCCTCCAAGTTGAAAAGCAGGTCAAGAAGCCGTAGCCCTCGTCCAAGGTATCGAGATGAATACAAGGATAGGGATTACAAGAGGAGAAGTCGCAGTCGAAGTAGGGACAGATATGACCGTGACAGGCACCATAGGAGTGAAAGAGAGCATCGCTACAGAAGCAGGAGCCGCAGTGCAAGTCCTGATAATCGTAAAAGGAGCAAATATGATGACGAGCGGCGTAGTCGGAGCCGGTCCTATGGAAGTGTCTCACCTGCTCGGCCCAGCTCTAAATCTCGAAGGAGCCCCTCTCCTCGTAGGACACCTCCAAGGAGTGAGAGTCCTGATGCACGCCATCGTAATGACCGCTCTCCAACCCCCAAAGATGTCTCACCACAGGCTCGGCGTGAAGATTCTCTAAGTCCTCGTAAATCTGATGCTGATGTGAGCTCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0031974 GO:0031981 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1

Protein Analysis

255

Amino Acids

29.87

Weight (kDa)

10.87

Isoelectric Point (pI)

92.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	18 - 87	4.4e-20	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: OG0001498)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G64200 AT5G64200
fragaria_vesca	FvH4_5g37470 FvH4_5g37470 FvH4_5g37470 FvH4_5g37470 FvH4_6g21680
malus_domestica	MD08G1182200.v1.1 MD14G1052000.v1.1 MD15G1367900.v1.1
prunus_persica	Prupe.1G516100_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1
pyrus_communis	pycom08g15600 pycom12g04670 pycom14g04330 pycom15g32980
rosa_chinensis	RchiOBHm_Chr3g0478961 RchiOBHm_Chr7g0239081
rosa_laevigata	RLG00000000784 RLG00000023616
rosa_multiflora	Rmu_sc0004605.1_g000002 Rmu_sc0005645.1_g000001 Rmu_sc0012163.1_g000002
rosa_roxburghii	Rroxscaffold_3G00221270 Rroxscaffold_6G00402870
rosa_rugosa	Rorug03G0169300 Rorug03G0169400 Rorug03G0169400 Rorug03G0169400 Rorug03G0169500 Rorug03G0169600 Rorug07G0325500 Rorug07G0325600 Rorug07G0325700 Rorug07G0325800
rosa_samantha	Rh3AG220800 Rh3BG252800 Rh3CG249500 Rh3DG245500 Rh7AG480000 Rh7CG497500 Rh7DG465100
rosa_wichuraiana	Rw3G019860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	595
Acc36I	ACCTGC	2 cut(s)	342, 595
AccB1I	GGYRCC	1 cut(s)	459
AccBSI	CCGCTC	2 cut(s)	550, 681
AccI	GTMKAC	1 cut(s)	129
AccII	CGCG	2 cut(s)	169, 171
AciI	CCGC	9 cut(s)	26, 84, 101, 171, 187, 209, 502, 550, 679
AclWI	GGATC	1 cut(s)	308
AcoI	YGGCCR	2 cut(s)	13, 210
AfaI	GTAC	1 cut(s)	116
AfiI	CCNNNNNNNGG	1 cut(s)	150
AflIII	ACRYGT	1 cut(s)	132
AgsI	TTSAA	1 cut(s)	346
AjiI	CACGTC	1 cut(s)	133
AluBI	AGCT	3 cut(s)	229, 600, 762
AluI	AGCT	3 cut(s)	229, 600, 762
Alw21I	GWGCWC	1 cut(s)	764
Alw26I	GTCTC	4 cut(s)	33, 141, 586, 706
AlwI	GGATC	1 cut(s)	308
Ama87I	CYCGRG	1 cut(s)	144
AoxI	GGCC	4 cut(s)	13, 210, 216, 593
ArsI	GACNNNNNNTTYG	2 cut(s)	148, 180
AspLEI	GCGC	1 cut(s)	171
AspS9I	GGNCC	5 cut(s)	23, 156, 284, 567, 594
AsuC2I	CCSGG	1 cut(s)	160
AsuHPI	GGTGA	2 cut(s)	576, 696
AvaI	CYCGRG	1 cut(s)	144
AvaII	GGWCC	4 cut(s)	23, 156, 284, 567
BanI	GGYRCC	1 cut(s)	459
BanII	GRGCYC	2 cut(s)	620, 764
Bbv12I	GWGCWC	1 cut(s)	764
BccI	CCATC	2 cut(s)	242, 675
BceAI	ACGGC	2 cut(s)	203, 348
BcnI	CCSGG	1 cut(s)	160
BcoDI	GTCTC	4 cut(s)	33, 141, 586, 706
BfmI	CTRYAG	1 cut(s)	487
BfuAI	ACCTGC	2 cut(s)	342, 595
BisI	GCNGC	4 cut(s)	172, 210, 502, 551
BlsI	GCNGC	4 cut(s)	173, 211, 503, 552
Bme1390I	CCNGG	1 cut(s)	160
Bme18I	GGWCC	4 cut(s)	23, 156, 284, 567
BmeT110I	CYCGRG	1 cut(s)	144
BmgBI	CACGTC	1 cut(s)	133
BmgT120I	GGNCC	5 cut(s)	23, 156, 284, 567, 594
BmiI	GGNNCC	4 cut(s)	461, 500, 563, 617
BmrFI	CCNGG	1 cut(s)	160
BmsI	GCATC	3 cut(s)	490, 649, 739
BplI	GAGNNNNNCTC	4 cut(s)	287, 319, 607, 639
BpmI	CTGGAG	1 cut(s)	289
BpuMI	CCSGG	1 cut(s)	160
BsaI	GGTCTC	1 cut(s)	141
BsaJI	CCNNGG	5 cut(s)	159, 213, 219, 377, 641
BsaWI	WCCGGW	1 cut(s)	150
BsaXI	ACNNNNNCTCC	6 cut(s)	32, 62, 490, 520, 637, 667
Bsc4I	CCNNNNNNNGG	1 cut(s)	150
Bse118I	RCCGGY	1 cut(s)	564
Bse1I	ACTGG	1 cut(s)	306
BseDI	CCNNGG	5 cut(s)	159, 213, 219, 377, 641
BseGI	GGATG	2 cut(s)	208, 253
BseLI	CCNNNNNNNGG	1 cut(s)	150
BseMII	CTCAG	1 cut(s)	285
BseNI	ACTGG	1 cut(s)	306
BseRI	GAGGAG	3 cut(s)	44, 430, 615
BseX3I	CGGCCG	1 cut(s)	13
BseYI	CCCAGC	1 cut(s)	596
Bsh1236I	CGCG	2 cut(s)	169, 171
Bsh1285I	CGRYCG	1 cut(s)	16
BshFI	GGCC	4 cut(s)	15, 212, 218, 595
BshNI	GGYRCC	1 cut(s)	459
BsiEI	CGRYCG	1 cut(s)	16
BsiHKAI	GWGCWC	1 cut(s)	764
BsiHKCI	CYCGRG	1 cut(s)	144
BsiSI	CCGG	4 cut(s)	29, 151, 159, 565
BslFI	GGGAC	1 cut(s)	452
BslI	CCNNNNNNNGG	1 cut(s)	150
BsmAI	GTCTC	4 cut(s)	33, 141, 586, 706
BsmFI	GGGAC	1 cut(s)	452
BsnI	GGCC	4 cut(s)	15, 212, 218, 595
Bso31I	GGTCTC	1 cut(s)	141
BsoBI	CYCGRG	1 cut(s)	144
Bsp1286I	GDGCHC	2 cut(s)	620, 764
Bsp143I	GATC	3 cut(s)	17, 91, 300
BspACI	CCGC	9 cut(s)	26, 84, 101, 171, 187, 209, 502, 550, 679
BspANI	GGCC	4 cut(s)	15, 212, 218, 595
BspCNI	CTCAG	1 cut(s)	286
BspFNI	CGCG	2 cut(s)	169, 171
BspLI	GGNNCC	4 cut(s)	461, 500, 563, 617
BspMI	ACCTGC	2 cut(s)	342, 595
BspPI	GGATC	1 cut(s)	308
BspT107I	GGYRCC	1 cut(s)	459
BspTNI	GGTCTC	1 cut(s)	141
BsrBI	CCGCTC	2 cut(s)	550, 681
BsrFI	RCCGGY	1 cut(s)	564
BsrI	ACTGG	1 cut(s)	306
BssAI	RCCGGY	1 cut(s)	564
BssECI	CCNNGG	5 cut(s)	159, 213, 219, 377, 641
BssMI	GATC	3 cut(s)	17, 91, 300
BssT1I	CCWWGG	3 cut(s)	213, 377, 641
Bst4CI	ACNGT	1 cut(s)	452
Bst6I	CTCTTC	1 cut(s)	101
BstC8I	GCNNGC	1 cut(s)	664
BstDEI	CTNAG	3 cut(s)	276, 294, 731
BstDSI	CCRYGG	1 cut(s)	219
BstF5I	GGATG	2 cut(s)	208, 253
BstFNI	CGCG	2 cut(s)	169, 171
BstHHI	GCGC	1 cut(s)	171
BstKTI	GATC	3 cut(s)	20, 94, 303
BstMAI	GTCTC	4 cut(s)	33, 141, 586, 706
BstMBI	GATC	3 cut(s)	17, 91, 300
BstMCI	CGRYCG	1 cut(s)	16
BstMWI	GCNNNNNNNGC	3 cut(s)	215, 492, 501
BstSCI	CCNGG	1 cut(s)	158
BstSFI	CTRYAG	1 cut(s)	487
BstUI	CGCG	2 cut(s)	169, 171
BstX2I	RGATCY	1 cut(s)	300
BstXI	CCANNNNNNTGG	1 cut(s)	220
BstYI	RGATCY	1 cut(s)	300
BstZI	CGGCCG	1 cut(s)	13
BsuRI	GGCC	4 cut(s)	15, 212, 218, 595
BtgI	CCRYGG	1 cut(s)	219
BtgZI	GCGATG	1 cut(s)	467
BtrI	CACGTC	1 cut(s)	133
BtsCI	GGATG	2 cut(s)	208, 253
BtsI	GCAGTG	1 cut(s)	511
BtsIMutI	CAGTG	1 cut(s)	511
BveI	ACCTGC	2 cut(s)	342, 595
Cac8I	GCNNGC	1 cut(s)	664
CfoI	GCGC	1 cut(s)	171
Cfr10I	RCCGGY	1 cut(s)	564
Cfr13I	GGNCC	5 cut(s)	23, 156, 284, 567, 594
Csp6I	GTAC	1 cut(s)	115
CviQI	GTAC	1 cut(s)	115
DdeI	CTNAG	3 cut(s)	276, 294, 731
DpnI	GATC	3 cut(s)	19, 93, 302
DpnII	GATC	3 cut(s)	17, 91, 300
EaeI	YGGCCR	2 cut(s)	13, 210
EagI	CGGCCG	1 cut(s)	13
Eam1104I	CTCTTC	1 cut(s)	101
EarI	CTCTTC	1 cut(s)	101
Ecl136II	GAGCTC	1 cut(s)	762
EclXI	CGGCCG	1 cut(s)	13
Eco130I	CCWWGG	3 cut(s)	213, 377, 641
Eco24I	GRGCYC	2 cut(s)	620, 764
Eco31I	GGTCTC	1 cut(s)	141
Eco47I	GGWCC	4 cut(s)	23, 156, 284, 567
Eco52I	CGGCCG	1 cut(s)	13
Eco53kI	GAGCTC	1 cut(s)	762
Eco88I	CYCGRG	1 cut(s)	144
EcoICRI	GAGCTC	1 cut(s)	762
EcoT14I	CCWWGG	3 cut(s)	213, 377, 641
EcoT38I	GRGCYC	2 cut(s)	620, 764
ErhI	CCWWGG	3 cut(s)	213, 377, 641
FaiI	YATR	8 cut(s)	192, 263, 282, 447, 465, 540, 573, 766
FalI	AAGNNNNNCTT	2 cut(s)	316, 348
FaqI	GGGAC	1 cut(s)	452
FauI	CCCGC	1 cut(s)	108
FblI	GTMKAC	1 cut(s)	129
Fnu4HI	GCNGC	4 cut(s)	172, 210, 502, 551
FokI	GGATG	2 cut(s)	215, 260
FriOI	GRGCYC	2 cut(s)	620, 764
Fsp4HI	GCNGC	4 cut(s)	172, 210, 502, 551
GlaI	GCGC	1 cut(s)	170
GluI	GCNGC	4 cut(s)	172, 210, 502, 551
GsaI	CCCAGC	1 cut(s)	600
GsuI	CTGGAG	1 cut(s)	289
HaeIII	GGCC	4 cut(s)	15, 212, 218, 595
HapII	CCGG	4 cut(s)	29, 151, 159, 565
HhaI	GCGC	1 cut(s)	171
Hin6I	GCGC	1 cut(s)	169
HinP1I	GCGC	1 cut(s)	169
HincII	GTYRAC	1 cut(s)	130
HindII	GTYRAC	1 cut(s)	130
HinfI	GANTC	4 cut(s)	164, 329, 652, 725
HpaII	CCGG	4 cut(s)	29, 151, 159, 565
HphI	GGTGA	2 cut(s)	576, 696
Hpy166II	GTNNAC	1 cut(s)	130
Hpy188I	TCNGA	4 cut(s)	38, 77, 561, 748
Hpy188III	TCNNGA	7 cut(s)	21, 200, 357, 386, 515, 609, 656
Hpy8I	GTNNAC	1 cut(s)	130
Hpy99I	CGWCG	4 cut(s)	92, 131, 134, 236
HpyAV	CCTTC	2 cut(s)	115, 606
HpyCH4III	ACNGT	1 cut(s)	452
HpyCH4IV	ACGT	1 cut(s)	132
HpyCH4V	TGCA	2 cut(s)	509, 662
HpyF10VI	GCNNNNNNNGC	3 cut(s)	215, 492, 501
HpyF3I	CTNAG	3 cut(s)	276, 294, 731
HpySE526I	ACGT	1 cut(s)	132
HspAI	GCGC	1 cut(s)	169
Kzo9I	GATC	3 cut(s)	17, 91, 300
LmnI	GCTCC	4 cut(s)	498, 531, 561, 615
LweI	GCATC	3 cut(s)	490, 649, 739
MaeII	ACGT	1 cut(s)	132
MaeIII	GTNAC	2 cut(s)	308, 452
MalI	GATC	3 cut(s)	19, 93, 302
MbiI	CCGCTC	2 cut(s)	550, 681
MboI	GATC	3 cut(s)	17, 91, 300
MboII	GAAGA	3 cut(s)	88, 324, 734
MflI	RGATCY	1 cut(s)	300
MhlI	GDGCHC	2 cut(s)	620, 764
MlyI	GAGTC	1 cut(s)	661
MmeI	TCCRAC	2 cut(s)	539, 710
MslI	CAYNNNNRTG	2 cut(s)	468, 672
MspA1I	CMGCKG	1 cut(s)	103
MspI	CCGG	4 cut(s)	29, 151, 159, 565
MspR9I	CCNGG	1 cut(s)	160
MvnI	CGCG	2 cut(s)	169, 171
MwoI	GCNNNNNNNGC	3 cut(s)	215, 492, 501
NciI	CCSGG	1 cut(s)	160
NdeII	GATC	3 cut(s)	17, 91, 300
NlaIV	GGNNCC	4 cut(s)	461, 500, 563, 617
NmeAIII	GCCGAG	2 cut(s)	571, 694
NmuCI	GTSAC	2 cut(s)	308, 452
PaqCI	CACCTGC	1 cut(s)	595
PcsI	WCGNNNNNNNCGW	1 cut(s)	123
PfeI	GAWTC	3 cut(s)	164, 329, 725
PkrI	GCNGC	4 cut(s)	173, 211, 503, 552
PleI	GAGTC	1 cut(s)	660
PpsI	GAGTC	1 cut(s)	660
Psp124BI	GAGCTC	1 cut(s)	764
PspFI	CCCAGC	1 cut(s)	596
PspN4I	GGNNCC	4 cut(s)	461, 500, 563, 617
PspPI	GGNCC	5 cut(s)	23, 156, 284, 567, 594
PsuI	RGATCY	1 cut(s)	300
RsaI	GTAC	1 cut(s)	116
RsaNI	GTAC	1 cut(s)	115
RseI	CAYNNNNRTG	2 cut(s)	468, 672
SacI	GAGCTC	1 cut(s)	764
SalI	GTCGAC	1 cut(s)	128
SatI	GCNGC	4 cut(s)	172, 210, 502, 551
Sau3AI	GATC	3 cut(s)	17, 91, 300
Sau96I	GGNCC	5 cut(s)	23, 156, 284, 567, 594
SchI	GAGTC	1 cut(s)	661
ScrFI	CCNGG	1 cut(s)	160
SduI	GDGCHC	2 cut(s)	620, 764
SfaNI	GCATC	3 cut(s)	490, 649, 739
SfcI	CTRYAG	1 cut(s)	487
SgrDI	CGTCGACG	1 cut(s)	128
SinI	GGWCC	4 cut(s)	23, 156, 284, 567
SmiMI	CAYNNNNRTG	2 cut(s)	468, 672
SsiI	CCGC	9 cut(s)	26, 84, 101, 171, 187, 209, 502, 550, 679
SstI	GAGCTC	1 cut(s)	764
StyD4I	CCNGG	1 cut(s)	158
StyI	CCWWGG	3 cut(s)	213, 377, 641
TaaI	ACNGT	1 cut(s)	452
TaiI	ACGT	1 cut(s)	135
TaqI	TCGA	5 cut(s)	129, 231, 385, 430, 610
TauI	GCSGC	4 cut(s)	174, 212, 504, 553
TfiI	GAWTC	3 cut(s)	164, 329, 725
TscAI	CASTG	1 cut(s)	511
TseFI	GTSAC	2 cut(s)	308, 452
Tsp45I	GTSAC	2 cut(s)	308, 452
TspDTI	ATGAA	1 cut(s)	405
TspRI	CASTG	1 cut(s)	511
VpaK11BI	GGWCC	4 cut(s)	23, 156, 284, 567
XmiI	GTMKAC	1 cut(s)	129

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