Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0013151

Physical Location & Seq

Genomic Coordinates Reverse (-)

21793014 .. 21796671

Gene Structure 3658 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG231100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1110 bp

ATGTCGACCTCTTCTCTATCCATGGCTTCCACAAGTACCACTTGCTCTTCTTCACTTTGCAACAAAATCTCTAACTTCTCACTCAGCCCAATCCCCACCCACTTACAACCTCAATTTAAACCCCTTAAACCCCTGAAGCTGAAAGCCCATTTCTCCTACTTCTCTCGTCTCTCTTCTCTCCACCATTTCCGCCGCCCCTTTTCGGCCTTAGACGGCCTCGAAGTCGAAGAAGGCAATGAAAGCTCGGAGGAAGAAGGAGAAGAACAAAAGGACCCACAAGCAGAATTGCTTGAAGAAGAAGAAGAAGAAGAAAAAGAAGAGCCAAAGGAAGCAGGGTCTGACAGAAGTGACGCTGGGAGGCTCTATGTGGGGAACTTGCCTTATTCTATGACTTCTACCCAGTTGTCTGAGATTTTCGGCGAGGCCGGTACCGTCACTTATTCAGAGATTATTTATGATAGAGTTACTGATAGGAGCAGGGGATTTGGGTTTGTTACAATGTCGAACGTTGAGGAAGCTCAAGAGGCCATTCGGATGTTCGATGGTTCTCAAGTAGGCGGCCGAACTGTGAGGGTAAACTTCCCAGAAGTGCCGAGAGGGGGTGAAAGGGAAATTTTGGGACCCAAGATAAGGAATCCTGGCTACAAGGTCTACATAGATAGCCCTAATAAGATCTATGCAGGAAACCTTGGTTGGGGCCTGACTTCCCAGGGTCTTAAAGATGCCTTTGAAGGCCAGCCAGGGCTATTGGGTGCCAAGGTCATTTATGAGAGGGGTTCAGGACGATCCCGAGGTTTTGGATTCGTCACTTTCGACACTGCTGCCGCTGCAGAAGCTGCTGTGACTGCCATGAATGGAGTGGAGGTTGATGGGCGGGCTTTGCGACTAAACATGGCTTCAGAAAGAGCTAGGACTGTAACTGTTACTCCACCTCCAGCATCGGAAACTAGTACAGAAAACACAGAGGCCAGTGAATTGGCTTCTCCCTCAGCATCTGAAACTACTGCAGAAGACACTACAGACAGTGGTGAAGTGGTTTCTCCCCCAGCATCAGAAACAACTGCAGAAGATGCAGACAGCAGTGAATTGATTTCCAGCGTTAGCATCTGA

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

369

Amino Acids

39.79

Weight (kDa)

4.61

Isoelectric Point (pI)

52.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	121 - 191	3.6e-20	RNA recognition motif
RRM_1	PF00076	225 - 295	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)
Acc65I	GGTACC	1 cut(s)	428
AccB1I	GGYRCC	2 cut(s)	428, 752
AccI	GTMKAC	2 cut(s)	5, 651
AciI	CCGC	5 cut(s)	190, 193, 558, 825, 874
AclI	AACGTT	1 cut(s)	507
AclWI	GGATC	1 cut(s)	780
AcoI	YGGCCR	1 cut(s)	559
AcsI	RAATTY	1 cut(s)	612
AcuI	CTGAAG	2 cut(s)	155, 882
AfaI	GTAC	3 cut(s)	37, 430, 952
AfiI	CCNNNNNNNGG	4 cut(s)	202, 599, 630, 694
AgsI	TTSAA	2 cut(s)	293, 731
AhlI	ACTAGT	1 cut(s)	947
AjnI	CCWGG	3 cut(s)	637, 708, 739
AjuI	GAANNNNNNNTTGG	2 cut(s)	676, 708
AluBI	AGCT	5 cut(s)	139, 243, 518, 836, 908
AluI	AGCT	5 cut(s)	139, 243, 518, 836, 908
Alw26I	GTCTC	1 cut(s)	173
AlwI	GGATC	1 cut(s)	780
AlwNI	CAGNNNCTG	3 cut(s)	338, 836, 995
Ama87I	CYCGRG	1 cut(s)	789
AoxI	GGCC	8 cut(s)	204, 214, 423, 525, 559, 697, 733, 966
ApeKI	GCWGC	3 cut(s)	821, 827, 836
ApoI	RAATTY	1 cut(s)	612
Asp718I	GGTACC	1 cut(s)	428
AspS9I	GGNCC	3 cut(s)	271, 620, 697
AsuHPI	GGTGA	2 cut(s)	614, 1040
AvaI	CYCGRG	1 cut(s)	789
AvaII	GGWCC	2 cut(s)	271, 620
BanI	GGYRCC	2 cut(s)	428, 752
BbsI	GAAGAC	1 cut(s)	1017
BbvCI	CCTCAGC	1 cut(s)	988
BbvI	GCAGC	3 cut(s)	808, 814, 823
BccI	CCATC	2 cut(s)	536, 863
BceAI	ACGGC	1 cut(s)	229
BcgI	CGANNNNNNTGC	2 cut(s)	803, 837
BciT130I	CCWGG	3 cut(s)	639, 710, 741
BcoDI	GTCTC	1 cut(s)	173
BcuI	ACTAGT	1 cut(s)	947
BfaI	CTAG	2 cut(s)	909, 948
BfmI	CTRYAG	4 cut(s)	828, 1005, 1017, 1062
BglII	AGATCT	1 cut(s)	672
BisI	GCNGC	6 cut(s)	193, 559, 822, 825, 828, 837
BlsI	GCNGC	6 cut(s)	194, 560, 823, 826, 829, 838
Bme1390I	CCNGG	3 cut(s)	639, 710, 741
Bme18I	GGWCC	2 cut(s)	271, 620
BmeT110I	CYCGRG	1 cut(s)	789
BmgT120I	GGNCC	3 cut(s)	271, 620, 697
BmiI	GGNNCC	6 cut(s)	273, 430, 621, 622, 698, 754
BmrFI	CCNGG	3 cut(s)	639, 710, 741
BmrI	ACTGGG	1 cut(s)	394
BmsI	GCATC	5 cut(s)	712, 947, 1001, 1058, 1060
BmuI	ACTGGG	1 cut(s)	394
BpiI	GAAGAC	1 cut(s)	1017
BpmI	CTGGAG	1 cut(s)	918
Bpu10I	CCTNAGC	1 cut(s)	988
BpuEI	CTTGAG	2 cut(s)	504, 534
BsaJI	CCNNGG	7 cut(s)	21, 688, 708, 709, 740, 756, 790
BsaXI	ACNNNNNCTCC	6 cut(s)	849, 879, 910, 916, 940, 946
Bsc4I	CCNNNNNNNGG	4 cut(s)	202, 599, 630, 694
Bse118I	RCCGGY	1 cut(s)	425
Bse1I	ACTGG	2 cut(s)	400, 969
Bse3DI	GCAATG	1 cut(s)	241
BseBI	CCWGG	3 cut(s)	639, 710, 741
BseDI	CCNNGG	7 cut(s)	21, 688, 708, 709, 740, 756, 790
BseGI	GGATG	1 cut(s)	540
BseLI	CCNNNNNNNGG	4 cut(s)	202, 599, 630, 694
BseMI	GCAATG	1 cut(s)	241
BseMII	CTCAG	3 cut(s)	97, 399, 1002
BseNI	ACTGG	2 cut(s)	400, 969
BseX3I	CGGCCG	1 cut(s)	559
BseXI	GCAGC	3 cut(s)	808, 814, 823
BseYI	CCCAGC	2 cut(s)	353, 1045
Bsh1285I	CGRYCG	1 cut(s)	562
BshFI	GGCC	8 cut(s)	206, 216, 425, 527, 561, 699, 735, 968
BshNI	GGYRCC	2 cut(s)	428, 752
BsiEI	CGRYCG	1 cut(s)	562
BsiHKCI	CYCGRG	1 cut(s)	789
BsiSI	CCGG	1 cut(s)	426
BslFI	GGGAC	1 cut(s)	633
BslI	CCNNNNNNNGG	4 cut(s)	202, 599, 630, 694
BsmAI	GTCTC	1 cut(s)	173
BsmBI	CGTCTC	1 cut(s)	173
BsmFI	GGGAC	1 cut(s)	633
BsnI	GGCC	8 cut(s)	206, 216, 425, 527, 561, 699, 735, 968
BsoBI	CYCGRG	1 cut(s)	789
Bsp143I	GATC	2 cut(s)	672, 785
Bsp19I	CCATGG	1 cut(s)	21
BspACI	CCGC	5 cut(s)	190, 193, 558, 825, 874
BspANI	GGCC	8 cut(s)	206, 216, 425, 527, 561, 699, 735, 968
BspCNI	CTCAG	3 cut(s)	96, 400, 1001
BspLI	GGNNCC	6 cut(s)	273, 430, 621, 622, 698, 754
BspMAI	CTGCAG	3 cut(s)	832, 1009, 1066
BspPI	GGATC	1 cut(s)	780
BspQI	GCTCTTC	2 cut(s)	52, 312
BspT107I	GGYRCC	2 cut(s)	428, 752
BsrDI	GCAATG	1 cut(s)	241
BsrFI	RCCGGY	1 cut(s)	425
BsrI	ACTGG	2 cut(s)	400, 969
BssAI	RCCGGY	1 cut(s)	425
BssECI	CCNNGG	7 cut(s)	21, 688, 708, 709, 740, 756, 790
BssMI	GATC	2 cut(s)	672, 785
BssT1I	CCWWGG	3 cut(s)	21, 688, 756
Bst2UI	CCWGG	3 cut(s)	639, 710, 741
Bst4CI	ACNGT	5 cut(s)	433, 568, 916, 922, 1025
Bst6I	CTCTTC	4 cut(s)	16, 52, 178, 312
BstAPI	GCANNNNNTGC	2 cut(s)	836, 1070
BstC8I	GCNNGC	2 cut(s)	737, 876
BstDEI	CTNAG	4 cut(s)	83, 208, 408, 988
BstDSI	CCRYGG	1 cut(s)	21
BstF5I	GGATG	1 cut(s)	540
BstKTI	GATC	2 cut(s)	675, 788
BstMAI	GTCTC	1 cut(s)	173
BstMBI	GATC	2 cut(s)	672, 785
BstMCI	CGRYCG	1 cut(s)	562
BstMWI	GCNNNNNNNGC	8 cut(s)	240, 524, 827, 833, 836, 845, 880, 1070
BstNI	CCWGG	3 cut(s)	639, 710, 741
BstSCI	CCNGG	3 cut(s)	637, 708, 739
BstSFI	CTRYAG	4 cut(s)	828, 1005, 1017, 1062
BstV1I	GCAGC	3 cut(s)	808, 814, 823
BstV2I	GAAGAC	1 cut(s)	1017
BstX2I	RGATCY	1 cut(s)	672
BstXI	CCANNNNNNTGG	1 cut(s)	976
BstYI	RGATCY	1 cut(s)	672
BstZI	CGGCCG	1 cut(s)	559
BsuRI	GGCC	8 cut(s)	206, 216, 425, 527, 561, 699, 735, 968
BtgI	CCRYGG	1 cut(s)	21
BtsCI	GGATG	1 cut(s)	540
BtsI	GCAGTG	2 cut(s)	816, 1087
BtsIMutI	CAGTG	4 cut(s)	816, 976, 1030, 1087
Cac8I	GCNNGC	2 cut(s)	737, 876
CaiI	CAGNNNCTG	3 cut(s)	338, 836, 995
Cfr10I	RCCGGY	1 cut(s)	425
Cfr13I	GGNCC	3 cut(s)	271, 620, 697
CseI	GACGC	1 cut(s)	359
Csp6I	GTAC	3 cut(s)	36, 429, 951
CviAII	CATG	3 cut(s)	22, 850, 892
CviQI	GTAC	3 cut(s)	36, 429, 951
DdeI	CTNAG	4 cut(s)	83, 208, 408, 988
DpnI	GATC	2 cut(s)	674, 787
DpnII	GATC	2 cut(s)	672, 785
DraI	TTTAAA	1 cut(s)	118
EaeI	YGGCCR	1 cut(s)	559
EagI	CGGCCG	1 cut(s)	559
Eam1104I	CTCTTC	4 cut(s)	16, 52, 178, 312
EarI	CTCTTC	4 cut(s)	16, 52, 178, 312
EciI	GGCGGA	1 cut(s)	179
EclXI	CGGCCG	1 cut(s)	559
Eco130I	CCWWGG	3 cut(s)	21, 688, 756
Eco47I	GGWCC	2 cut(s)	271, 620
Eco52I	CGGCCG	1 cut(s)	559
Eco57I	CTGAAG	2 cut(s)	155, 882
Eco88I	CYCGRG	1 cut(s)	789
EcoO109I	RGGNCCY	3 cut(s)	271, 620, 697
EcoRII	CCWGG	3 cut(s)	637, 708, 739
EcoT14I	CCWWGG	3 cut(s)	21, 688, 756
ErhI	CCWWGG	3 cut(s)	21, 688, 756
Esp3I	CGTCTC	1 cut(s)	173
FaeI	CATG	3 cut(s)	25, 853, 895
FaiI	YATR	9 cut(s)	23, 366, 389, 456, 656, 678, 768, 851, 893
FalI	AAGNNNNNCTT	2 cut(s)	25, 57
FaqI	GGGAC	1 cut(s)	633
FatI	CATG	3 cut(s)	21, 849, 891
FauI	CCCGC	1 cut(s)	867
FblI	GTMKAC	2 cut(s)	5, 651
Fnu4HI	GCNGC	6 cut(s)	193, 559, 822, 825, 828, 837
FokI	GGATG	1 cut(s)	547
Fsp4HI	GCNGC	6 cut(s)	193, 559, 822, 825, 828, 837
FspBI	CTAG	2 cut(s)	909, 948
GluI	GCNGC	6 cut(s)	193, 559, 822, 825, 828, 837
GsaI	CCCAGC	2 cut(s)	357, 1049
GsuI	CTGGAG	1 cut(s)	918
HaeIII	GGCC	8 cut(s)	206, 216, 425, 527, 561, 699, 735, 968
HapII	CCGG	1 cut(s)	426
HgaI	GACGC	1 cut(s)	359
Hin1II	CATG	3 cut(s)	25, 853, 895
HincII	GTYRAC	1 cut(s)	6
HindII	GTYRAC	1 cut(s)	6
HinfI	GANTC	2 cut(s)	634, 801
HpaII	CCGG	1 cut(s)	426
HphI	GGTGA	2 cut(s)	614, 1040
Hpy166II	GTNNAC	3 cut(s)	6, 577, 652
Hpy188III	TCNNGA	3 cut(s)	521, 780, 789
Hpy8I	GTNNAC	3 cut(s)	6, 577, 652
HpyAV	CCTTC	3 cut(s)	224, 248, 725
HpyCH4III	ACNGT	5 cut(s)	433, 568, 916, 922, 1025
HpyCH4IV	ACGT	1 cut(s)	507
HpyCH4V	TGCA	6 cut(s)	60, 680, 830, 1007, 1064, 1073
HpyF10VI	GCNNNNNNNGC	8 cut(s)	240, 524, 827, 833, 836, 845, 880, 1070
HpyF3I	CTNAG	4 cut(s)	83, 208, 408, 988
HpySE526I	ACGT	1 cut(s)	507
Hsp92II	CATG	3 cut(s)	25, 853, 895
KflI	GGGWCCC	1 cut(s)	620
KpnI	GGTACC	1 cut(s)	432
Kzo9I	GATC	2 cut(s)	672, 785
LguI	GCTCTTC	2 cut(s)	52, 312
LmnI	GCTCC	1 cut(s)	474
Lsp1109I	GCAGC	3 cut(s)	808, 814, 823
LweI	GCATC	5 cut(s)	712, 947, 1001, 1058, 1060
MaeI	CTAG	2 cut(s)	909, 948
MaeII	ACGT	1 cut(s)	507
MaeIII	GTNAC	8 cut(s)	347, 433, 463, 493, 805, 841, 916, 922
MalI	GATC	2 cut(s)	674, 787
MboI	GATC	2 cut(s)	672, 785
MflI	RGATCY	1 cut(s)	672
MluCI	AATT	5 cut(s)	113, 284, 612, 974, 1085
MseI	TTAA	3 cut(s)	117, 126, 717
MslI	CAYNNNNRTG	1 cut(s)	533
MspA1I	CMGCKG	1 cut(s)	827
MspI	CCGG	1 cut(s)	426
MspR9I	CCNGG	3 cut(s)	639, 710, 741
MvaI	CCWGG	3 cut(s)	639, 710, 741
MwoI	GCNNNNNNNGC	8 cut(s)	240, 524, 827, 833, 836, 845, 880, 1070
NcoI	CCATGG	1 cut(s)	21
NdeII	GATC	2 cut(s)	672, 785
NlaIII	CATG	3 cut(s)	25, 853, 895
NlaIV	GGNNCC	6 cut(s)	273, 430, 621, 622, 698, 754
NmeAIII	GCCGAG	1 cut(s)	618
NmuCI	GTSAC	4 cut(s)	347, 433, 805, 841
PasI	CCCWGGG	1 cut(s)	709
PciSI	GCTCTTC	2 cut(s)	52, 312
PcsI	WCGNNNNNNNCGW	1 cut(s)	810
PfeI	GAWTC	2 cut(s)	634, 801
PkrI	GCNGC	6 cut(s)	194, 560, 823, 826, 829, 838
PpuMI	RGGWCCY	2 cut(s)	271, 620
Psp1406I	AACGTT	1 cut(s)	507
Psp5II	RGGWCCY	2 cut(s)	271, 620
Psp6I	CCWGG	3 cut(s)	637, 708, 739
PspFI	CCCAGC	2 cut(s)	353, 1045
PspGI	CCWGG	3 cut(s)	637, 708, 739
PspN4I	GGNNCC	6 cut(s)	273, 430, 621, 622, 698, 754
PspPI	GGNCC	3 cut(s)	271, 620, 697
PspPPI	RGGWCCY	2 cut(s)	271, 620
PstI	CTGCAG	3 cut(s)	832, 1009, 1066
PstNI	CAGNNNCTG	3 cut(s)	338, 836, 995
PsuI	RGATCY	1 cut(s)	672
RsaI	GTAC	3 cut(s)	37, 430, 952
RsaNI	GTAC	3 cut(s)	36, 429, 951
RseI	CAYNNNNRTG	1 cut(s)	533
SalI	GTCGAC	1 cut(s)	4
SapI	GCTCTTC	2 cut(s)	52, 312
SaqAI	TTAA	3 cut(s)	117, 126, 717
SatI	GCNGC	6 cut(s)	193, 559, 822, 825, 828, 837
Sau3AI	GATC	2 cut(s)	672, 785
Sau96I	GGNCC	3 cut(s)	271, 620, 697
ScrFI	CCNGG	3 cut(s)	639, 710, 741
SfaNI	GCATC	5 cut(s)	712, 947, 1001, 1058, 1060
SfcI	CTRYAG	4 cut(s)	828, 1005, 1017, 1062
SinI	GGWCC	2 cut(s)	271, 620
SmiMI	CAYNNNNRTG	1 cut(s)	533
SmlI	CTYRAG	2 cut(s)	519, 549
SmoI	CTYRAG	2 cut(s)	519, 549
SpeI	ACTAGT	1 cut(s)	947
Sse9I	AATT	5 cut(s)	113, 284, 612, 974, 1085
SsiI	CCGC	5 cut(s)	190, 193, 558, 825, 874
SspMI	CTAG	2 cut(s)	909, 948
StyD4I	CCNGG	3 cut(s)	637, 708, 739
StyI	CCWWGG	3 cut(s)	21, 688, 756
TaaI	ACNGT	5 cut(s)	433, 568, 916, 922, 1025
TaiI	ACGT	1 cut(s)	510
TaqI	TCGA	6 cut(s)	5, 219, 225, 503, 540, 813
TasI	AATT	5 cut(s)	113, 284, 612, 974, 1085
TatI	WGTACW	1 cut(s)	950
TauI	GCSGC	3 cut(s)	195, 561, 827
TfiI	GAWTC	2 cut(s)	634, 801
Tru1I	TTAA	3 cut(s)	117, 126, 717
Tru9I	TTAA	3 cut(s)	117, 126, 717
TscAI	CASTG	4 cut(s)	823, 976, 1030, 1087
TseFI	GTSAC	4 cut(s)	347, 433, 805, 841
TseI	GCWGC	3 cut(s)	821, 827, 836
Tsp45I	GTSAC	4 cut(s)	347, 433, 805, 841
TspDTI	ATGAA	2 cut(s)	252, 866
TspRI	CASTG	4 cut(s)	823, 976, 1030, 1087
VpaK11BI	GGWCC	2 cut(s)	271, 620
XapI	RAATTY	1 cut(s)	612
XcmI	CCANNNNNNNNNTGG	1 cut(s)	856
XmiI	GTMKAC	2 cut(s)	5, 651
XspI	CTAG	2 cut(s)	909, 948

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