Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0003658

Physical Location & Seq

Genomic Coordinates Forward (+)

87599612 .. 87604642

Gene Structure 5031 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG660700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 906 bp

ATGTCTTCTGCAACCACTGGGTTTCTGAAGCCACTATCAATAGCTGAAACTTGTCTGGCCTCTGTTTCAACCCCTAAAACCCAACACCCATTTCTTTCATTTCCCTCAAAACCCACCAAGCTCTCAACTCTCTCGTGCTCATTTTCTTCATGGGTCTCTCTCAAGCACAAGTCTTTGCCTCTCCATGTGGCTCAGACCTCAGACTGGGCACAACAAGAGGTTGCAGAAGAAGTTAAAGACGGGGAGGTCTTGGAAACAGAGGAGGTGCCATTAGAGCCAAGTGCAGTGTCTGAAGAAGCAGAAGAGAGCTCTGATGTTGGTGGAGTAGAAGAGTTCTATCCCGAGCCGCCGGAAGAGGCCAAGCTCTATGTGGGTAATTTGCCTTATGATGTTGACAGTGAGACGCTTGCTAACACCTTCAATGAGGCTGGAGTTGTTGAGATTGCTGAGGTGATTTACAATAGGGAAACAGACCAGAGCAGAGGGTTTGGGTTTGTGACTATGAGTACTGTTGAAGAAGCTGAGAAGGCTGTGGAGATGTTCAACCGATATGATTTAGGTGGAAGGTCTTTGACCGTAAACAAGGCTGCTCCTAGAGGGTCACGCCCCGAAAGACCACCTAGAGTGAATGAACCTTCTTTCAGAATCTATATTGGTAACCTGCCATGGCAAGTGGACGACTCTCGTTTGGAGCAGGTGTTCAGTGAACATGGGAATGTGGTCAGTGCGAGGGTGGTTTATGACAGGGAAACTGGCCGTTCACGCGGGTTTGGTTTCGTCACATTGTCCACTGAGACTGAAGTGGAGGATGCCATTGCGGCTCTTGATGGACAGGTATATGCTTGCCTTGTTTCATTGGTATTAAATTTTTCTTGTTCTCCCACTTGGGTTATGCAGAGAAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko05130 map05130

Pfam Domains

Protein Families

RRM_1

Protein Analysis

301

Amino Acids

33.2

Weight (kDa)

4.56

Isoelectric Point (pI)

52.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	122 - 191	2e-19	RNA recognition motif
RRM_1	PF00076	216 - 279	7.4e-19	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)

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Publication-ready

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Orthologous Genes (Group: OG0003658)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G50250
fragaria_vesca	FvH4_5g06660 FvH4_6g52070
malus_domestica	MD06G1162000.v1.1 MD09G1020400.v1.1 MD14G1167800.v1.1 MD17G1020900.v1.1
prunus_persica	Prupe.3G295800_v2.0.a1 Prupe.5G162300_v2.0.a1
pyrus_communis	pycom06g14480 pycom111g01710 pycom14g03200 pycom14g13990 pycom17g01760
rosa_chinensis	RchiOBHm_Chr2g0173571 RchiOBHm_Chr7g0192001
rosa_laevigata	RLG00000004410 RLG00000022203 RLG00000033717
rosa_multiflora	Rmu_sc0002538.1_g000022 Rmu_ssc0000421.1_g000032
rosa_roxburghii	Rroxscaffold_2G00078770 Rroxscaffold_3G00263370
rosa_rugosa	Rorug02G0571500 Rorug06G0512300
rosa_samantha	Rh2AG650300 Rh2BG660700 Rh2CG625600 Rh2DG676000 Rh7AG122600 Rh7BG124200 Rh7CG126900 Rh7DG125700
rosa_wichuraiana	Rw2G053370 Rw7G010440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	685
AasI	GACNNNNNNGTC	1 cut(s)	245
Acc36I	ACCTGC	2 cut(s)	669, 685
AccB1I	GGYRCC	1 cut(s)	265
AccII	CGCG	1 cut(s)	765
AciI	CCGC	3 cut(s)	347, 765, 818
AcoI	YGGCCR	1 cut(s)	754
AcsI	RAATTY	1 cut(s)	865
AcuI	CTGAAG	3 cut(s)	47, 312, 819
AfaI	GTAC	1 cut(s)	508
AfiI	CCNNNNNNNGG	1 cut(s)	204
AgsI	TTSAA	4 cut(s)	69, 421, 515, 544
AjuI	GAANNNNNNNTTGG	2 cut(s)	75, 107
AloI	GAACNNNNNNTCC	2 cut(s)	683, 715
AluBI	AGCT	5 cut(s)	44, 121, 309, 364, 521
AluI	AGCT	5 cut(s)	44, 121, 309, 364, 521
Alw21I	GWGCWC	2 cut(s)	140, 311
Alw26I	GTCTC	3 cut(s)	160, 395, 788
AlwNI	CAGNNNCTG	1 cut(s)	290
Ama87I	CYCGRG	1 cut(s)	341
AoxI	GGCC	3 cut(s)	57, 357, 754
ApeKI	GCWGC	1 cut(s)	587
ApoI	RAATTY	1 cut(s)	865
AsuHPI	GGTGA	1 cut(s)	463
AvaI	CYCGRG	1 cut(s)	341
BaeGI	GKGCMC	1 cut(s)	211
BanI	GGYRCC	1 cut(s)	265
BanII	GRGCYC	1 cut(s)	311
BauI	CACGAG	1 cut(s)	133
Bbv12I	GWGCWC	2 cut(s)	140, 311
BbvCI	CCTCAGC	1 cut(s)	447
BbvI	GCAGC	1 cut(s)	574
BccI	CCATC	1 cut(s)	821
BceAI	ACGGC	1 cut(s)	741
BcoDI	GTCTC	3 cut(s)	160, 395, 788
BfaI	CTAG	2 cut(s)	594, 621
BfuAI	ACCTGC	2 cut(s)	669, 685
BglI	GCCNNNNNGGC	1 cut(s)	818
BisI	GCNGC	3 cut(s)	347, 588, 819
BlsI	GCNGC	3 cut(s)	348, 589, 820
BmcAI	AGTACT	1 cut(s)	508
BmeT110I	CYCGRG	1 cut(s)	341
BmiI	GGNNCC	1 cut(s)	267
BmrI	ACTGGG	2 cut(s)	27, 214
BmsI	GCATC	1 cut(s)	799
BmuI	ACTGGG	2 cut(s)	27, 214
BpmI	CTGGAG	1 cut(s)	450
Bpu10I	CCTNAGC	1 cut(s)	447
BpuEI	CTTGAG	1 cut(s)	146
BsaI	GGTCTC	1 cut(s)	160
BsaJI	CCNNGG	1 cut(s)	665
BsaXI	ACNNNNNCTCC	2 cut(s)	683, 713
Bsc4I	CCNNNNNNNGG	1 cut(s)	204
Bse1I	ACTGG	3 cut(s)	22, 209, 757
Bse3DI	GCAATG	1 cut(s)	813
BseDI	CCNNGG	1 cut(s)	665
BseGI	GGATG	1 cut(s)	814
BseLI	CCNNNNNNNGG	1 cut(s)	204
BseMI	GCAATG	1 cut(s)	813
BseMII	CTCAG	5 cut(s)	206, 213, 438, 513, 783
BseNI	ACTGG	3 cut(s)	22, 209, 757
BseRI	GAGGAG	1 cut(s)	275
BseSI	GKGCMC	1 cut(s)	211
BseXI	GCAGC	1 cut(s)	574
BsgI	GTGCAG	1 cut(s)	303
Bsh1236I	CGCG	1 cut(s)	765
BshFI	GGCC	3 cut(s)	59, 359, 756
BshNI	GGYRCC	1 cut(s)	265
BsiHKAI	GWGCWC	2 cut(s)	140, 311
BsiHKCI	CYCGRG	1 cut(s)	341
BsiSI	CCGG	1 cut(s)	350
BslI	CCNNNNNNNGG	1 cut(s)	204
BsmAI	GTCTC	3 cut(s)	160, 395, 788
BsmBI	CGTCTC	1 cut(s)	395
BsnI	GGCC	3 cut(s)	59, 359, 756
Bso31I	GGTCTC	1 cut(s)	160
BsoBI	CYCGRG	1 cut(s)	341
Bsp1286I	GDGCHC	3 cut(s)	140, 211, 311
Bsp19I	CCATGG	1 cut(s)	665
BspACI	CCGC	3 cut(s)	347, 765, 818
BspANI	GGCC	3 cut(s)	59, 359, 756
BspCNI	CTCAG	5 cut(s)	205, 212, 439, 514, 784
BspFNI	CGCG	1 cut(s)	765
BspLI	GGNNCC	1 cut(s)	267
BspMI	ACCTGC	2 cut(s)	669, 685
BspT107I	GGYRCC	1 cut(s)	265
BspTNI	GGTCTC	1 cut(s)	160
BsrDI	GCAATG	1 cut(s)	813
BsrI	ACTGG	3 cut(s)	22, 209, 757
BssECI	CCNNGG	1 cut(s)	665
BssSI	CACGAG	1 cut(s)	133
BssT1I	CCWWGG	1 cut(s)	665
Bst2BI	CACGAG	1 cut(s)	133
Bst4CI	ACNGT	3 cut(s)	398, 511, 577
Bst6I	CTCTTC	3 cut(s)	297, 324, 348
BstC8I	GCNNGC	2 cut(s)	408, 844
BstDEI	CTNAG	5 cut(s)	192, 199, 447, 522, 792
BstDSI	CCRYGG	1 cut(s)	665
BstEII	GGTNACC	1 cut(s)	656
BstF5I	GGATG	1 cut(s)	814
BstFNI	CGCG	1 cut(s)	765
BstMAI	GTCTC	3 cut(s)	160, 395, 788
BstMWI	GCNNNNNNNGC	4 cut(s)	274, 527, 762, 818
BstPI	GGTNACC	1 cut(s)	656
BstSLI	GKGCMC	1 cut(s)	211
BstUI	CGCG	1 cut(s)	765
BstV1I	GCAGC	1 cut(s)	574
BsuRI	GGCC	3 cut(s)	59, 359, 756
BtgI	CCRYGG	1 cut(s)	665
BtsCI	GGATG	1 cut(s)	814
BtsI	GCAGTG	1 cut(s)	291
BtsIMutI	CAGTG	6 cut(s)	15, 291, 403, 709, 730, 789
BveI	ACCTGC	2 cut(s)	669, 685
Cac8I	GCNNGC	2 cut(s)	408, 844
CaiI	CAGNNNCTG	1 cut(s)	290
CseI	GACGC	1 cut(s)	412
Csp6I	GTAC	1 cut(s)	507
CviAII	CATG	4 cut(s)	150, 185, 666, 710
CviQI	GTAC	1 cut(s)	507
DdeI	CTNAG	5 cut(s)	192, 199, 447, 522, 792
DrdI	GACNNNNNNGTC	1 cut(s)	245
DseDI	GACNNNNNNGTC	1 cut(s)	245
EaeI	YGGCCR	1 cut(s)	754
Eam1104I	CTCTTC	3 cut(s)	297, 324, 348
EarI	CTCTTC	3 cut(s)	297, 324, 348
Ecl136II	GAGCTC	1 cut(s)	309
Eco130I	CCWWGG	1 cut(s)	665
Eco24I	GRGCYC	1 cut(s)	311
Eco31I	GGTCTC	1 cut(s)	160
Eco53kI	GAGCTC	1 cut(s)	309
Eco57I	CTGAAG	3 cut(s)	47, 312, 819
Eco88I	CYCGRG	1 cut(s)	341
Eco91I	GGTNACC	1 cut(s)	656
EcoICRI	GAGCTC	1 cut(s)	309
EcoO65I	GGTNACC	1 cut(s)	656
EcoT14I	CCWWGG	1 cut(s)	665
EcoT38I	GRGCYC	1 cut(s)	311
ErhI	CCWWGG	1 cut(s)	665
Esp3I	CGTCTC	1 cut(s)	395
FaeI	CATG	4 cut(s)	153, 188, 669, 713
FatI	CATG	4 cut(s)	149, 184, 665, 709
FauI	CCCGC	1 cut(s)	758
Fnu4HI	GCNGC	3 cut(s)	347, 588, 819
FokI	GGATG	1 cut(s)	821
FriOI	GRGCYC	1 cut(s)	311
Fsp4HI	GCNGC	3 cut(s)	347, 588, 819
FspBI	CTAG	2 cut(s)	594, 621
GluI	GCNGC	3 cut(s)	347, 588, 819
GsuI	CTGGAG	1 cut(s)	450
HaeIII	GGCC	3 cut(s)	59, 359, 756
HapII	CCGG	1 cut(s)	350
HgaI	GACGC	1 cut(s)	412
Hin1II	CATG	4 cut(s)	153, 188, 669, 713
HincII	GTYRAC	1 cut(s)	394
HindII	GTYRAC	1 cut(s)	394
HinfI	GANTC	2 cut(s)	645, 680
HpaII	CCGG	1 cut(s)	350
HphI	GGTGA	1 cut(s)	463
Hpy166II	GTNNAC	6 cut(s)	394, 580, 676, 707, 761, 789
Hpy188I	TCNGA	6 cut(s)	27, 195, 202, 292, 313, 644
Hpy188III	TCNNGA	2 cut(s)	341, 824
Hpy8I	GTNNAC	6 cut(s)	394, 580, 676, 707, 761, 789
HpyAV	CCTTC	4 cut(s)	427, 520, 558, 645
HpyCH4III	ACNGT	3 cut(s)	398, 511, 577
HpyCH4V	TGCA	4 cut(s)	11, 224, 284, 895
HpyF10VI	GCNNNNNNNGC	4 cut(s)	274, 527, 762, 818
HpyF3I	CTNAG	5 cut(s)	192, 199, 447, 522, 792
Hsp92II	CATG	4 cut(s)	153, 188, 669, 713
LmnI	GCTCC	2 cut(s)	595, 691
Lsp1109I	GCAGC	1 cut(s)	574
LweI	GCATC	1 cut(s)	799
MaeI	CTAG	2 cut(s)	594, 621
MaeIII	GTNAC	4 cut(s)	496, 600, 656, 778
MboII	GAAGA	7 cut(s)	138, 239, 305, 314, 341, 365, 527
MhlI	GDGCHC	3 cut(s)	140, 211, 311
MluCI	AATT	2 cut(s)	376, 865
MlyI	GAGTC	1 cut(s)	674
MseI	TTAA	2 cut(s)	234, 863
MslI	CAYNNNNRTG	1 cut(s)	714
MspI	CCGG	1 cut(s)	350
MvnI	CGCG	1 cut(s)	765
MwoI	GCNNNNNNNGC	4 cut(s)	274, 527, 762, 818
NcoI	CCATGG	1 cut(s)	665
NlaIII	CATG	4 cut(s)	153, 188, 669, 713
NlaIV	GGNNCC	1 cut(s)	267
NmuCI	GTSAC	3 cut(s)	496, 600, 778
PaqCI	CACCTGC	1 cut(s)	685
PfeI	GAWTC	1 cut(s)	645
PkrI	GCNGC	3 cut(s)	348, 589, 820
PleI	GAGTC	1 cut(s)	674
PpsI	GAGTC	1 cut(s)	674
Psp124BI	GAGCTC	1 cut(s)	311
PspEI	GGTNACC	1 cut(s)	656
PspN4I	GGNNCC	1 cut(s)	267
PstNI	CAGNNNCTG	1 cut(s)	290
RsaI	GTAC	1 cut(s)	508
RsaNI	GTAC	1 cut(s)	507
RseI	CAYNNNNRTG	1 cut(s)	714
SacI	GAGCTC	1 cut(s)	311
SaqAI	TTAA	2 cut(s)	234, 863
SatI	GCNGC	3 cut(s)	347, 588, 819
ScaI	AGTACT	1 cut(s)	508
SchI	GAGTC	1 cut(s)	674
SduI	GDGCHC	3 cut(s)	140, 211, 311
SfaNI	GCATC	1 cut(s)	799
SmiMI	CAYNNNNRTG	1 cut(s)	714
SmlI	CTYRAG	1 cut(s)	161
SmoI	CTYRAG	1 cut(s)	161
Sse9I	AATT	2 cut(s)	376, 865
SsiI	CCGC	3 cut(s)	347, 765, 818
SspMI	CTAG	2 cut(s)	594, 621
SstI	GAGCTC	1 cut(s)	311
StyI	CCWWGG	1 cut(s)	665
TaaI	ACNGT	3 cut(s)	398, 511, 577
TasI	AATT	2 cut(s)	376, 865
TatI	WGTACW	1 cut(s)	506
TauI	GCSGC	2 cut(s)	349, 821
TfiI	GAWTC	1 cut(s)	645
Tru1I	TTAA	2 cut(s)	234, 863
Tru9I	TTAA	2 cut(s)	234, 863
TscAI	CASTG	6 cut(s)	22, 291, 403, 709, 730, 796
TseFI	GTSAC	3 cut(s)	496, 600, 778
TseI	GCWGC	1 cut(s)	587
Tsp45I	GTSAC	3 cut(s)	496, 600, 778
TspDTI	ATGAA	4 cut(s)	87, 138, 645, 843
TspRI	CASTG	6 cut(s)	22, 291, 403, 709, 730, 796
XapI	RAATTY	1 cut(s)	865
XcmI	CCANNNNNNNNNTGG	1 cut(s)	367
XspI	CTAG	2 cut(s)	594, 621
ZrmI	AGTACT	1 cut(s)	508

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