Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0013151

Physical Location & Seq

Genomic Coordinates Reverse (-)

22127104 .. 22129015

Gene Structure 1912 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG236600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1113 bp

ATGTCGACCTCTTCTCTATCAGTGGCTTCCACAAGTACTACTTGCTCTTCTTCACTTTGCAACAAAATCTCTAACTTTTCACTCACCCCAATCCCCACCCACTTACAACCTCAATTTAAACCCCTTAAACCCCTGAAGCTGAAAGCCCATTTCTCCTACTTCTCTCGTCTCTCATCTCTCCACCATTTCCGCCGCCCCTTTTCGGCCTTAGACGGCCTCGAAGTCGAAGAAGGAAATGAAAGCTCGGAGGAAGAAGGAGAAGAACAAAAGGACCCACAAGCAGAATTGCTTGAAGAAGACGAAGTAGAAGAAGAAAAAGAAGAGCCAAAGGAAGCAGGGTCTGACAGAAGTGACGCTGGGAGGCTCTATGTGGGGAACTTGCCTTATTCTATGACTTCTACCCAGTTGTCTGAGATTTTCGGCGAGGCCGGTACTGTCACTTATTCAGAGATTATTTATGATAGAGTTACTGATAGGAGCAGGGGATTTGGGTTTGTTACAATGTCGAACGTTGAGGAAGCTCAAGAGGCCATTCGGATGTTCGATGGTTCTCAAGTAGGCGGCCGAACTGTGAGGGTAAACTTCCCAGAAGTGCCGAGAGGGGGTGAAAGGGAAATTTTGGGACCCAAGATAAGGAATCCTGGCTACAAGGTCTACATAGATAGCCCTAATAAGATCTATGCGGGAAACCTTGGTTGGGGCCTGACTTCCCAGGGTCTTAAAGATGCCTTTGAAGGCCAGCCAGGGCTGTTGGGTGCCAAGGTCATTTATGAGAGGGGTTCAGGAAGATCTCGAGGTTTTGGATTCGTCACTTTCGACACTGCTGCCGCTGCAGAAGCTGCTGTGACTGCCATGAATGGAGTGGAGGTTGATGGGCGGGCTTTGCGACTAAACATGGCTTCAGAAAGGGCTAGGATTGTAACTGTTACTCCACCTCCAGCATCGGAAACTAGTACAGAAAACACAGAGGCCAGTGAATTGGCTTCTCCCTCAGCATCTGAAACTACTGCAGAAGACACTACAGACAGTGGTGAAGTGGTTTCTTCCCCAGCATCAGAAACAACTGCAGAAGATGCAGACAGCAGTGAATTGATTTCCAGTGTTAGCATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009579 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0022613 GO:0031425 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901259 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko05130 map05130

Pfam Domains

Protein Families

RRM_1

Protein Analysis

370

Amino Acids

39.86

Weight (kDa)

4.61

Isoelectric Point (pI)

48.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	122 - 192	3.6e-20	RNA recognition motif
RRM_1	PF00076	226 - 296	2.7e-15	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: OG0013151)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52380
fragaria_vesca	FvH4_6g20490 FvH4_6g20490
malus_domestica	MD12G1042000.v1.1 MD14G1041200.v1.1
prunus_persica	Prupe.7G093200_v2.0.a1
pyrus_communis	pycom12g03670 pycom14g03500
rosa_chinensis	RchiOBHm_Chr3g0476371
rosa_laevigata	RLG00000023776
rosa_multiflora	Rmu_sc0000114.1_g000008
rosa_roxburghii	Rroxscaffold_6G00405360
rosa_rugosa	Rorug03G0153800
rosa_samantha	Rh3AG205000 Rh3BG236600 Rh3CG231100 Rh3DG230900
rosa_wichuraiana	Rw3G018630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	755
AccI	GTMKAC	2 cut(s)	5, 654
AciI	CCGC	6 cut(s)	190, 193, 561, 683, 828, 877
AclI	AACGTT	1 cut(s)	510
AcoI	YGGCCR	1 cut(s)	562
AcsI	RAATTY	1 cut(s)	615
AcuI	CTGAAG	2 cut(s)	155, 885
AfaI	GTAC	3 cut(s)	37, 433, 955
AfiI	CCNNNNNNNGG	4 cut(s)	202, 602, 633, 697
AgsI	TTSAA	2 cut(s)	293, 734
AhlI	ACTAGT	1 cut(s)	950
AjnI	CCWGG	3 cut(s)	640, 711, 742
AjuI	GAANNNNNNNTTGG	2 cut(s)	679, 711
AluBI	AGCT	4 cut(s)	139, 243, 521, 839
AluI	AGCT	4 cut(s)	139, 243, 521, 839
Alw26I	GTCTC	1 cut(s)	173
AlwNI	CAGNNNCTG	3 cut(s)	341, 839, 998
Ama87I	CYCGRG	1 cut(s)	792
AoxI	GGCC	8 cut(s)	204, 214, 426, 528, 562, 700, 736, 969
ApeKI	GCWGC	3 cut(s)	824, 830, 839
ApoI	RAATTY	1 cut(s)	615
AspS9I	GGNCC	3 cut(s)	271, 623, 700
AsuHPI	GGTGA	3 cut(s)	76, 617, 1043
AvaI	CYCGRG	1 cut(s)	792
AvaII	GGWCC	2 cut(s)	271, 623
BanI	GGYRCC	1 cut(s)	755
BbsI	GAAGAC	2 cut(s)	303, 1020
BbvCI	CCTCAGC	1 cut(s)	991
BbvI	GCAGC	3 cut(s)	811, 817, 826
BccI	CCATC	2 cut(s)	539, 866
BceAI	ACGGC	1 cut(s)	229
BcgI	CGANNNNNNTGC	2 cut(s)	806, 840
BciT130I	CCWGG	3 cut(s)	642, 713, 744
BcoDI	GTCTC	1 cut(s)	173
BcuI	ACTAGT	1 cut(s)	950
BfaI	CTAG	2 cut(s)	912, 951
BfmI	CTRYAG	4 cut(s)	831, 1008, 1020, 1065
BglII	AGATCT	2 cut(s)	675, 788
BisI	GCNGC	6 cut(s)	193, 562, 825, 828, 831, 840
BlsI	GCNGC	6 cut(s)	194, 563, 826, 829, 832, 841
BmcAI	AGTACT	1 cut(s)	37
Bme1390I	CCNGG	3 cut(s)	642, 713, 744
Bme18I	GGWCC	2 cut(s)	271, 623
BmeT110I	CYCGRG	1 cut(s)	792
BmgT120I	GGNCC	3 cut(s)	271, 623, 700
BmiI	GGNNCC	5 cut(s)	273, 624, 625, 701, 757
BmrFI	CCNGG	3 cut(s)	642, 713, 744
BmrI	ACTGGG	1 cut(s)	397
BmsI	GCATC	5 cut(s)	715, 950, 1004, 1061, 1063
BmuI	ACTGGG	1 cut(s)	397
BpiI	GAAGAC	2 cut(s)	303, 1020
BpmI	CTGGAG	1 cut(s)	921
Bpu10I	CCTNAGC	1 cut(s)	991
BpuEI	CTTGAG	2 cut(s)	507, 537
BsaJI	CCNNGG	5 cut(s)	691, 711, 712, 743, 759
BsaXI	ACNNNNNCTCC	6 cut(s)	852, 882, 913, 919, 943, 949
Bsc4I	CCNNNNNNNGG	4 cut(s)	202, 602, 633, 697
Bse118I	RCCGGY	1 cut(s)	428
Bse1I	ACTGG	3 cut(s)	403, 972, 1098
BseBI	CCWGG	3 cut(s)	642, 713, 744
BseDI	CCNNGG	5 cut(s)	691, 711, 712, 743, 759
BseGI	GGATG	1 cut(s)	543
BseLI	CCNNNNNNNGG	4 cut(s)	202, 602, 633, 697
BseMII	CTCAG	2 cut(s)	402, 1005
BseNI	ACTGG	3 cut(s)	403, 972, 1098
BseX3I	CGGCCG	1 cut(s)	562
BseXI	GCAGC	3 cut(s)	811, 817, 826
BseYI	CCCAGC	2 cut(s)	356, 1048
Bsh1285I	CGRYCG	1 cut(s)	565
BshFI	GGCC	8 cut(s)	206, 216, 428, 530, 564, 702, 738, 971
BshNI	GGYRCC	1 cut(s)	755
BsiEI	CGRYCG	1 cut(s)	565
BsiHKCI	CYCGRG	1 cut(s)	792
BsiSI	CCGG	1 cut(s)	429
BslFI	GGGAC	1 cut(s)	636
BslI	CCNNNNNNNGG	4 cut(s)	202, 602, 633, 697
BsmAI	GTCTC	1 cut(s)	173
BsmBI	CGTCTC	1 cut(s)	173
BsmFI	GGGAC	1 cut(s)	636
BsnI	GGCC	8 cut(s)	206, 216, 428, 530, 564, 702, 738, 971
BsoBI	CYCGRG	1 cut(s)	792
Bsp143I	GATC	2 cut(s)	675, 788
BspACI	CCGC	6 cut(s)	190, 193, 561, 683, 828, 877
BspANI	GGCC	8 cut(s)	206, 216, 428, 530, 564, 702, 738, 971
BspCNI	CTCAG	2 cut(s)	403, 1004
BspLI	GGNNCC	5 cut(s)	273, 624, 625, 701, 757
BspMAI	CTGCAG	3 cut(s)	835, 1012, 1069
BspQI	GCTCTTC	2 cut(s)	52, 315
BspT107I	GGYRCC	1 cut(s)	755
BsrFI	RCCGGY	1 cut(s)	428
BsrI	ACTGG	3 cut(s)	403, 972, 1098
BssAI	RCCGGY	1 cut(s)	428
BssECI	CCNNGG	5 cut(s)	691, 711, 712, 743, 759
BssMI	GATC	2 cut(s)	675, 788
BssT1I	CCWWGG	2 cut(s)	691, 759
Bst2UI	CCWGG	3 cut(s)	642, 713, 744
Bst4CI	ACNGT	4 cut(s)	436, 571, 925, 1028
Bst6I	CTCTTC	3 cut(s)	16, 52, 315
BstAPI	GCANNNNNTGC	2 cut(s)	839, 1073
BstC8I	GCNNGC	2 cut(s)	740, 879
BstDEI	CTNAG	3 cut(s)	208, 411, 991
BstF5I	GGATG	1 cut(s)	543
BstKTI	GATC	2 cut(s)	678, 791
BstMAI	GTCTC	1 cut(s)	173
BstMBI	GATC	2 cut(s)	675, 788
BstMCI	CGRYCG	1 cut(s)	565
BstMWI	GCNNNNNNNGC	7 cut(s)	527, 830, 836, 839, 848, 883, 1073
BstNI	CCWGG	3 cut(s)	642, 713, 744
BstSCI	CCNGG	3 cut(s)	640, 711, 742
BstSFI	CTRYAG	4 cut(s)	831, 1008, 1020, 1065
BstV1I	GCAGC	3 cut(s)	811, 817, 826
BstV2I	GAAGAC	2 cut(s)	303, 1020
BstX2I	RGATCY	2 cut(s)	675, 788
BstXI	CCANNNNNNTGG	1 cut(s)	979
BstYI	RGATCY	2 cut(s)	675, 788
BstZI	CGGCCG	1 cut(s)	562
BsuRI	GGCC	8 cut(s)	206, 216, 428, 530, 564, 702, 738, 971
BtsCI	GGATG	1 cut(s)	543
BtsI	GCAGTG	2 cut(s)	819, 1090
BtsIMutI	CAGTG	6 cut(s)	27, 819, 979, 1033, 1090, 1105
Cac8I	GCNNGC	2 cut(s)	740, 879
CaiI	CAGNNNCTG	3 cut(s)	341, 839, 998
Cfr10I	RCCGGY	1 cut(s)	428
Cfr13I	GGNCC	3 cut(s)	271, 623, 700
CseI	GACGC	1 cut(s)	362
Csp6I	GTAC	3 cut(s)	36, 432, 954
CviAII	CATG	2 cut(s)	853, 895
CviQI	GTAC	3 cut(s)	36, 432, 954
DdeI	CTNAG	3 cut(s)	208, 411, 991
DpnI	GATC	2 cut(s)	677, 790
DpnII	GATC	2 cut(s)	675, 788
DraI	TTTAAA	1 cut(s)	118
EaeI	YGGCCR	1 cut(s)	562
EagI	CGGCCG	1 cut(s)	562
Eam1104I	CTCTTC	3 cut(s)	16, 52, 315
EarI	CTCTTC	3 cut(s)	16, 52, 315
EciI	GGCGGA	1 cut(s)	179
EclXI	CGGCCG	1 cut(s)	562
Eco130I	CCWWGG	2 cut(s)	691, 759
Eco47I	GGWCC	2 cut(s)	271, 623
Eco52I	CGGCCG	1 cut(s)	562
Eco57I	CTGAAG	2 cut(s)	155, 885
Eco88I	CYCGRG	1 cut(s)	792
EcoO109I	RGGNCCY	3 cut(s)	271, 623, 700
EcoRII	CCWGG	3 cut(s)	640, 711, 742
EcoT14I	CCWWGG	2 cut(s)	691, 759
ErhI	CCWWGG	2 cut(s)	691, 759
Esp3I	CGTCTC	1 cut(s)	173
FaeI	CATG	2 cut(s)	856, 898
FaiI	YATR	8 cut(s)	369, 392, 459, 659, 681, 771, 854, 896
FalI	AAGNNNNNCTT	2 cut(s)	25, 57
FaqI	GGGAC	1 cut(s)	636
FatI	CATG	2 cut(s)	852, 894
FauI	CCCGC	2 cut(s)	676, 870
FblI	GTMKAC	2 cut(s)	5, 654
Fnu4HI	GCNGC	6 cut(s)	193, 562, 825, 828, 831, 840
FokI	GGATG	1 cut(s)	550
Fsp4HI	GCNGC	6 cut(s)	193, 562, 825, 828, 831, 840
FspBI	CTAG	2 cut(s)	912, 951
GluI	GCNGC	6 cut(s)	193, 562, 825, 828, 831, 840
GsaI	CCCAGC	2 cut(s)	360, 1052
GsuI	CTGGAG	1 cut(s)	921
HaeIII	GGCC	8 cut(s)	206, 216, 428, 530, 564, 702, 738, 971
HapII	CCGG	1 cut(s)	429
HgaI	GACGC	1 cut(s)	362
Hin1II	CATG	2 cut(s)	856, 898
HincII	GTYRAC	1 cut(s)	6
HindII	GTYRAC	1 cut(s)	6
HinfI	GANTC	2 cut(s)	637, 804
HpaII	CCGG	1 cut(s)	429
HphI	GGTGA	3 cut(s)	76, 617, 1043
Hpy166II	GTNNAC	3 cut(s)	6, 580, 655
Hpy188III	TCNNGA	3 cut(s)	524, 783, 792
Hpy8I	GTNNAC	3 cut(s)	6, 580, 655
HpyAV	CCTTC	3 cut(s)	224, 248, 728
HpyCH4III	ACNGT	4 cut(s)	436, 571, 925, 1028
HpyCH4IV	ACGT	1 cut(s)	510
HpyCH4V	TGCA	5 cut(s)	60, 833, 1010, 1067, 1076
HpyF10VI	GCNNNNNNNGC	7 cut(s)	527, 830, 836, 839, 848, 883, 1073
HpyF3I	CTNAG	3 cut(s)	208, 411, 991
HpySE526I	ACGT	1 cut(s)	510
Hsp92II	CATG	2 cut(s)	856, 898
KflI	GGGWCCC	1 cut(s)	623
Kzo9I	GATC	2 cut(s)	675, 788
LguI	GCTCTTC	2 cut(s)	52, 315
LmnI	GCTCC	1 cut(s)	477
Lsp1109I	GCAGC	3 cut(s)	811, 817, 826
LweI	GCATC	5 cut(s)	715, 950, 1004, 1061, 1063
MaeI	CTAG	2 cut(s)	912, 951
MaeII	ACGT	1 cut(s)	510
MaeIII	GTNAC	8 cut(s)	350, 436, 466, 496, 808, 844, 919, 925
MalI	GATC	2 cut(s)	677, 790
MboI	GATC	2 cut(s)	675, 788
MflI	RGATCY	2 cut(s)	675, 788
MluCI	AATT	5 cut(s)	113, 284, 615, 977, 1088
MseI	TTAA	3 cut(s)	117, 126, 720
MslI	CAYNNNNRTG	1 cut(s)	536
MspA1I	CMGCKG	1 cut(s)	830
MspI	CCGG	1 cut(s)	429
MspR9I	CCNGG	3 cut(s)	642, 713, 744
MvaI	CCWGG	3 cut(s)	642, 713, 744
MwoI	GCNNNNNNNGC	7 cut(s)	527, 830, 836, 839, 848, 883, 1073
NdeII	GATC	2 cut(s)	675, 788
NlaIII	CATG	2 cut(s)	856, 898
NlaIV	GGNNCC	5 cut(s)	273, 624, 625, 701, 757
NmeAIII	GCCGAG	1 cut(s)	621
NmuCI	GTSAC	4 cut(s)	350, 436, 808, 844
PaeR7I	CTCGAG	1 cut(s)	792
PasI	CCCWGGG	1 cut(s)	712
PciSI	GCTCTTC	2 cut(s)	52, 315
PcsI	WCGNNNNNNNCGW	1 cut(s)	813
PfeI	GAWTC	2 cut(s)	637, 804
PkrI	GCNGC	6 cut(s)	194, 563, 826, 829, 832, 841
PpuMI	RGGWCCY	2 cut(s)	271, 623
Psp1406I	AACGTT	1 cut(s)	510
Psp5II	RGGWCCY	2 cut(s)	271, 623
Psp6I	CCWGG	3 cut(s)	640, 711, 742
PspFI	CCCAGC	2 cut(s)	356, 1048
PspGI	CCWGG	3 cut(s)	640, 711, 742
PspN4I	GGNNCC	5 cut(s)	273, 624, 625, 701, 757
PspPI	GGNCC	3 cut(s)	271, 623, 700
PspPPI	RGGWCCY	2 cut(s)	271, 623
PstI	CTGCAG	3 cut(s)	835, 1012, 1069
PstNI	CAGNNNCTG	3 cut(s)	341, 839, 998
PsuI	RGATCY	2 cut(s)	675, 788
RsaI	GTAC	3 cut(s)	37, 433, 955
RsaNI	GTAC	3 cut(s)	36, 432, 954
RseI	CAYNNNNRTG	1 cut(s)	536
SalI	GTCGAC	1 cut(s)	4
SapI	GCTCTTC	2 cut(s)	52, 315
SaqAI	TTAA	3 cut(s)	117, 126, 720
SatI	GCNGC	6 cut(s)	193, 562, 825, 828, 831, 840
Sau3AI	GATC	2 cut(s)	675, 788
Sau96I	GGNCC	3 cut(s)	271, 623, 700
ScaI	AGTACT	1 cut(s)	37
ScrFI	CCNGG	3 cut(s)	642, 713, 744
SfaNI	GCATC	5 cut(s)	715, 950, 1004, 1061, 1063
SfcI	CTRYAG	4 cut(s)	831, 1008, 1020, 1065
Sfr274I	CTCGAG	1 cut(s)	792
SinI	GGWCC	2 cut(s)	271, 623
SlaI	CTCGAG	1 cut(s)	792
SmiMI	CAYNNNNRTG	1 cut(s)	536
SmlI	CTYRAG	3 cut(s)	522, 552, 792
SmoI	CTYRAG	3 cut(s)	522, 552, 792
SpeI	ACTAGT	1 cut(s)	950
Sse9I	AATT	5 cut(s)	113, 284, 615, 977, 1088
SsiI	CCGC	6 cut(s)	190, 193, 561, 683, 828, 877
SspMI	CTAG	2 cut(s)	912, 951
StyD4I	CCNGG	3 cut(s)	640, 711, 742
StyI	CCWWGG	2 cut(s)	691, 759
TaaI	ACNGT	4 cut(s)	436, 571, 925, 1028
TaiI	ACGT	1 cut(s)	513
TaqI	TCGA	7 cut(s)	5, 219, 225, 506, 543, 793, 816
TasI	AATT	5 cut(s)	113, 284, 615, 977, 1088
TatI	WGTACW	2 cut(s)	35, 953
TauI	GCSGC	3 cut(s)	195, 564, 830
TfiI	GAWTC	2 cut(s)	637, 804
Tru1I	TTAA	3 cut(s)	117, 126, 720
Tru9I	TTAA	3 cut(s)	117, 126, 720
TscAI	CASTG	6 cut(s)	27, 826, 979, 1033, 1090, 1105
TseFI	GTSAC	4 cut(s)	350, 436, 808, 844
TseI	GCWGC	3 cut(s)	824, 830, 839
Tsp45I	GTSAC	4 cut(s)	350, 436, 808, 844
TspDTI	ATGAA	2 cut(s)	252, 869
TspRI	CASTG	6 cut(s)	27, 826, 979, 1033, 1090, 1105
VpaK11BI	GGWCC	2 cut(s)	271, 623
XapI	RAATTY	1 cut(s)	615
XcmI	CCANNNNNNNNNTGG	1 cut(s)	859
XhoI	CTCGAG	1 cut(s)	792
XmiI	GTMKAC	2 cut(s)	5, 654
XspI	CTAG	2 cut(s)	912, 951
ZrmI	AGTACT	1 cut(s)	37

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