Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0016943

Physical Location & Seq

Genomic Coordinates Reverse (-)

20281452 .. 20294828

Gene Structure 13377 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG204200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 996 bp

ATGAAGAAACTTTGTCATTTGCAACATCAAGTCATCCAGGCAGTTGATCCCTTTGTGCTGCAGCAATATGTTTATGATGCCATTGAGACAGTGCTATCTGATGTTTGCTTGGCCATTTCTATGCTGAAAAACGAGGAAACGCGGGACTCGATCATGATTCTCGACTCCAAAAGATTTCTAGACAGACTAATGAGTTCATTGGAAGAAAAGAAGCATCACGAAGTGAAGTTGAAAGAGGGTTTGAAGGGCTTAGCTACCAAACGCATGGAGCTGCACAACTCGTTATCTTCTTCCTGGCCAAAGCAGGAAGCGGCTCTTGCAAAAACCCGCGAGCTTAAGAAGCTGTGTGAGAGCACCCTTTCCTCCATGCTTGATGGAAGACCTGTTCATATAATTGAAGAGATTAATGCCCGTTTGAATAGTGGTGTTGCTGCATATGAAAATGGCGAAATGAAATATTATGACGGTCAAATGCTTGTGTTACAAAATAGCAAAGCTGATTTATGGACGATTCATGGCCTTTGGACTTACGAACTTACCGGAAAAGAACCTGATTTCTACTATAAGCAAGTTACCGATTGTTCACCATTTGAAAGATTTAATTTAAATGAGCTTAGTGGCAAGGAACGATCGATACTCATTAGGGTTTGGCCTATTAACAATAAGAATATCAGGATAACCTATCAATTCTGGAAGTATGAATATGAAAAACACAGTTCATGTACCGCAGATATATTACCAAGCTGTAGAGATTATTTAATGAAAGCAACTGTACTGTGGAATATACTCAAGTTAGACGATTTGTTGGGTCCTAACGGCAAGTATAAGCCAAACTCTTCATTTCAAGCCCAGGACTTGCTGAACGACATGGAAGTGAAGTATAAGGCCCCTCCCGATCAGGCTGAGGCCACCGAGCTCGACCCCAACGACGACGATAGCGATCTCGAAGAAGACGATCATGTGGGGCAGCAGAAATCTTCAAATAAAAGTGACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000079 GO:0001932 GO:0005575 GO:0005623 GO:0007346 GO:0008150 GO:0012505 GO:0019220 GO:0019222 GO:0031323 GO:0031399 GO:0032268 GO:0042325 GO:0043549 GO:0044464 GO:0045859 GO:0050789 GO:0050790 GO:0050794 GO:0051171 GO:0051174 GO:0051246 GO:0051338 GO:0051726 GO:0060255 GO:0065007 GO:0065009 GO:0071900 GO:0080090 GO:1904029

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF773

Protein Analysis

331

Amino Acids

38.22

Weight (kDa)

5.4

Isoelectric Point (pI)

50.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CDK5RAP3	PF05600	7 - 132	3e-33	CDK5 regulatory subunit-associated protein 3
Ribonuclease_T2	PF00445	163 - 295	8.3e-13	Ribonuclease T2 family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016943)

Species	Orthologous Gene IDs
malus_domestica	MD12G1060400.v1.1
rosa_chinensis	RchiOBHm_Chr3g0476251
rosa_laevigata	RLG00000023741
rosa_multiflora	Rmu_sc0000114.1_g000016 Rmu_sc0000288.1_g000012 Rmu_sc0023367.1_g000002
rosa_samantha	Rh3AG204200 Rh3AG208500 Rh3BG235500 Rh3BG241500 Rh3DG229800 Rh3DG229900 Rh4CG282100
rosa_wichuraiana	Rw3G018570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	142, 330
AciI	CCGC	4 cut(s)	142, 311, 328, 726
AclWI	GGATC	1 cut(s)	41
AcoI	YGGCCR	2 cut(s)	111, 296
AdeI	CACNNNGTG	1 cut(s)	223
AfaI	GTAC	2 cut(s)	724, 774
AflII	CTTAAG	1 cut(s)	335
AgsI	TTSAA	7 cut(s)	232, 244, 398, 418, 593, 845, 981
AjnI	CCWGG	3 cut(s)	36, 293, 849
AloI	GAACNNNNNNTCC	2 cut(s)	369, 401
AluBI	AGCT	8 cut(s)	254, 271, 334, 343, 497, 613, 744, 916
AluI	AGCT	8 cut(s)	254, 271, 334, 343, 497, 613, 744, 916
Alw21I	GWGCWC	2 cut(s)	356, 918
Alw26I	GTCTC	1 cut(s)	80
AlwI	GGATC	1 cut(s)	41
AoxI	GGCC	6 cut(s)	111, 296, 517, 650, 885, 906
ApeKI	GCWGC	5 cut(s)	58, 61, 271, 431, 967
AseI	ATTAAT	1 cut(s)	405
AspS9I	GGNCC	2 cut(s)	809, 886
AsuHPI	GGTGA	1 cut(s)	576
AvaII	GGWCC	1 cut(s)	809
BalI	TGGCCA	2 cut(s)	113, 298
BanII	GRGCYC	1 cut(s)	918
BbsI	GAAGAC	2 cut(s)	385, 957
Bbv12I	GWGCWC	2 cut(s)	356, 918
BbvCI	CCTCAGC	1 cut(s)	903
BbvI	GCAGC	5 cut(s)	45, 73, 258, 418, 979
BccI	CCATC	1 cut(s)	368
BceAI	ACGGC	1 cut(s)	832
BciT130I	CCWGG	3 cut(s)	38, 295, 851
BcoDI	GTCTC	1 cut(s)	80
BfaI	CTAG	1 cut(s)	179
BfmI	CTRYAG	2 cut(s)	59, 745
BfrI	CTTAAG	1 cut(s)	335
BisI	GCNGC	6 cut(s)	59, 62, 272, 312, 432, 968
BlpI	GCTNAGC	1 cut(s)	250
BlsI	GCNGC	6 cut(s)	60, 63, 273, 313, 433, 969
Bme1390I	CCNGG	3 cut(s)	38, 295, 851
Bme18I	GGWCC	1 cut(s)	809
BmgT120I	GGNCC	2 cut(s)	809, 886
BmiI	GGNNCC	2 cut(s)	810, 888
BmrFI	CCNGG	3 cut(s)	38, 295, 851
BmsI	GCATC	2 cut(s)	67, 223
BpiI	GAAGAC	2 cut(s)	385, 957
Bpu10I	CCTNAGC	1 cut(s)	903
Bpu1102I	GCTNAGC	1 cut(s)	250
BpuEI	CTTGAG	1 cut(s)	773
Bsa29I	ATCGAT	1 cut(s)	632
BsaBI	GATNNNNATC	1 cut(s)	939
BsaJI	CCNNGG	1 cut(s)	849
BsaWI	WCCGGW	1 cut(s)	539
Bse8I	GATNNNNATC	1 cut(s)	939
BseBI	CCWGG	3 cut(s)	38, 295, 851
BseCI	ATCGAT	1 cut(s)	632
BseDI	CCNNGG	1 cut(s)	849
BseGI	GGATG	1 cut(s)	33
BseJI	GATNNNNATC	1 cut(s)	939
BseMII	CTCAG	1 cut(s)	894
BseXI	GCAGC	5 cut(s)	45, 73, 258, 418, 979
BsgI	GTGCAG	1 cut(s)	257
Bsh1236I	CGCG	2 cut(s)	142, 330
Bsh1285I	CGRYCG	1 cut(s)	632
BshFI	GGCC	6 cut(s)	113, 298, 519, 652, 887, 908
BshVI	ATCGAT	1 cut(s)	632
BsiEI	CGRYCG	1 cut(s)	632
BsiHKAI	GWGCWC	2 cut(s)	356, 918
BsiSI	CCGG	1 cut(s)	540
BslFI	GGGAC	1 cut(s)	158
BsmAI	GTCTC	1 cut(s)	80
BsmFI	GGGAC	1 cut(s)	158
BsnI	GGCC	6 cut(s)	113, 298, 519, 652, 887, 908
Bsp1286I	GDGCHC	2 cut(s)	356, 918
Bsp143I	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
Bsp1720I	GCTNAGC	1 cut(s)	250
BspACI	CCGC	4 cut(s)	142, 311, 328, 726
BspANI	GGCC	6 cut(s)	113, 298, 519, 652, 887, 908
BspCNI	CTCAG	1 cut(s)	895
BspDI	ATCGAT	1 cut(s)	632
BspFNI	CGCG	2 cut(s)	142, 330
BspHI	TCATGA	1 cut(s)	153
BspLI	GGNNCC	2 cut(s)	810, 888
BspMAI	CTGCAG	1 cut(s)	63
BspPI	GGATC	1 cut(s)	41
BspTI	CTTAAG	1 cut(s)	335
BssECI	CCNNGG	1 cut(s)	849
BssMI	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
Bst2UI	CCWGG	3 cut(s)	38, 295, 851
Bst4CI	ACNGT	5 cut(s)	91, 467, 716, 772, 777
Bst6I	CTCTTC	2 cut(s)	393, 841
BstAFI	CTTAAG	1 cut(s)	335
BstC8I	GCNNGC	1 cut(s)	332
BstDEI	CTNAG	3 cut(s)	250, 614, 903
BstF5I	GGATG	1 cut(s)	33
BstFNI	CGCG	2 cut(s)	142, 330
BstKTI	GATC	6 cut(s)	49, 153, 632, 898, 943, 958
BstMAI	GTCTC	1 cut(s)	80
BstMBI	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
BstMCI	CGRYCG	1 cut(s)	632
BstMWI	GCNNNNNNNGC	2 cut(s)	317, 340
BstNI	CCWGG	3 cut(s)	38, 295, 851
BstSCI	CCNGG	3 cut(s)	36, 293, 849
BstSFI	CTRYAG	2 cut(s)	59, 745
BstUI	CGCG	2 cut(s)	142, 330
BstV1I	GCAGC	5 cut(s)	45, 73, 258, 418, 979
BstV2I	GAAGAC	2 cut(s)	385, 957
BstXI	CCANNNNNNTGG	1 cut(s)	265
Bsu15I	ATCGAT	1 cut(s)	632
BsuRI	GGCC	6 cut(s)	113, 298, 519, 652, 887, 908
BsuTUI	ATCGAT	1 cut(s)	632
BtsCI	GGATG	1 cut(s)	33
BtsIMutI	CAGTG	1 cut(s)	96
Cac8I	GCNNGC	1 cut(s)	332
CciI	TCATGA	1 cut(s)	153
Cfr13I	GGNCC	2 cut(s)	809, 886
ClaI	ATCGAT	1 cut(s)	632
Csp6I	GTAC	2 cut(s)	723, 773
CviAII	CATG	7 cut(s)	154, 265, 367, 515, 720, 868, 959
CviQI	GTAC	2 cut(s)	723, 773
DdeI	CTNAG	3 cut(s)	250, 614, 903
DpnI	GATC	6 cut(s)	48, 152, 631, 897, 942, 957
DpnII	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
DraI	TTTAAA	1 cut(s)	606
DraIII	CACNNNGTG	1 cut(s)	223
EaeI	YGGCCR	2 cut(s)	111, 296
Eam1104I	CTCTTC	2 cut(s)	393, 841
EarI	CTCTTC	2 cut(s)	393, 841
Ecl136II	GAGCTC	1 cut(s)	916
Eco24I	GRGCYC	1 cut(s)	918
Eco47I	GGWCC	1 cut(s)	809
Eco53kI	GAGCTC	1 cut(s)	916
EcoICRI	GAGCTC	1 cut(s)	916
EcoO109I	RGGNCCY	2 cut(s)	809, 886
EcoRII	CCWGG	3 cut(s)	36, 293, 849
EcoT38I	GRGCYC	1 cut(s)	918
FaeI	CATG	7 cut(s)	157, 268, 370, 518, 723, 871, 962
FalI	AAGNNNNNCTT	2 cut(s)	300, 332
FaqI	GGGAC	1 cut(s)	158
FatI	CATG	7 cut(s)	153, 264, 366, 514, 719, 867, 958
FauI	CCCGC	2 cut(s)	135, 335
FauNDI	CATATG	1 cut(s)	436
Fnu4HI	GCNGC	6 cut(s)	59, 62, 272, 312, 432, 968
FokI	GGATG	1 cut(s)	20
FriOI	GRGCYC	1 cut(s)	918
Fsp4HI	GCNGC	6 cut(s)	59, 62, 272, 312, 432, 968
FspBI	CTAG	1 cut(s)	179
GluI	GCNGC	6 cut(s)	59, 62, 272, 312, 432, 968
HaeIII	GGCC	6 cut(s)	113, 298, 519, 652, 887, 908
HapII	CCGG	1 cut(s)	540
Hin1II	CATG	7 cut(s)	157, 268, 370, 518, 723, 871, 962
HinfI	GANTC	4 cut(s)	146, 157, 164, 511
HpaII	CCGG	1 cut(s)	540
HphI	GGTGA	1 cut(s)	576
Hpy166II	GTNNAC	1 cut(s)	584
Hpy188I	TCNGA	1 cut(s)	100
Hpy188III	TCNNGA	8 cut(s)	154, 161, 179, 218, 673, 691, 893, 944
Hpy8I	GTNNAC	1 cut(s)	584
Hpy99I	CGWCG	2 cut(s)	932, 935
HpyAV	CCTTC	1 cut(s)	238
HpyCH4III	ACNGT	5 cut(s)	91, 467, 716, 772, 777
HpyCH4V	TGCA	5 cut(s)	22, 61, 274, 320, 434
HpyF10VI	GCNNNNNNNGC	2 cut(s)	317, 340
HpyF3I	CTNAG	3 cut(s)	250, 614, 903
Hsp92II	CATG	7 cut(s)	157, 268, 370, 518, 723, 871, 962
Kzo9I	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
LmnI	GCTCC	1 cut(s)	268
Lsp1109I	GCAGC	5 cut(s)	45, 73, 258, 418, 979
LweI	GCATC	2 cut(s)	67, 223
MaeI	CTAG	1 cut(s)	179
MaeIII	GTNAC	3 cut(s)	480, 571, 989
MalI	GATC	6 cut(s)	48, 152, 631, 897, 942, 957
MboI	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
MhlI	GDGCHC	2 cut(s)	356, 918
MlsI	TGGCCA	2 cut(s)	113, 298
MluCI	AATT	3 cut(s)	393, 601, 686
MluNI	TGGCCA	2 cut(s)	113, 298
MlyI	GAGTC	2 cut(s)	140, 158
MnlI	CCTC	5 cut(s)	127, 229, 373, 898, 900
Mox20I	TGGCCA	2 cut(s)	113, 298
MscI	TGGCCA	2 cut(s)	113, 298
MseI	TTAA	6 cut(s)	336, 405, 600, 605, 657, 758
MslI	CAYNNNNRTG	2 cut(s)	119, 872
Msp20I	TGGCCA	2 cut(s)	113, 298
MspCI	CTTAAG	1 cut(s)	335
MspI	CCGG	1 cut(s)	540
MspR9I	CCNGG	3 cut(s)	38, 295, 851
MvaI	CCWGG	3 cut(s)	38, 295, 851
MvnI	CGCG	2 cut(s)	142, 330
MwoI	GCNNNNNNNGC	2 cut(s)	317, 340
NdeI	CATATG	1 cut(s)	436
NdeII	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
NlaIII	CATG	7 cut(s)	157, 268, 370, 518, 723, 871, 962
NlaIV	GGNNCC	2 cut(s)	810, 888
NmuCI	GTSAC	1 cut(s)	989
PagI	TCATGA	1 cut(s)	153
PcsI	WCGNNNNNNNCGW	4 cut(s)	146, 924, 936, 951
PfeI	GAWTC	2 cut(s)	157, 511
PkrI	GCNGC	6 cut(s)	60, 63, 273, 313, 433, 969
Ple19I	CGATCG	1 cut(s)	632
PleI	GAGTC	2 cut(s)	140, 158
PpsI	GAGTC	2 cut(s)	140, 158
PpuMI	RGGWCCY	1 cut(s)	809
PshBI	ATTAAT	1 cut(s)	405
Psp124BI	GAGCTC	1 cut(s)	918
Psp5II	RGGWCCY	1 cut(s)	809
Psp6I	CCWGG	3 cut(s)	36, 293, 849
PspGI	CCWGG	3 cut(s)	36, 293, 849
PspN4I	GGNNCC	2 cut(s)	810, 888
PspPI	GGNCC	2 cut(s)	809, 886
PspPPI	RGGWCCY	1 cut(s)	809
PsrI	GAACNNNNNNTAC	2 cut(s)	618, 650
PstI	CTGCAG	1 cut(s)	63
PvuI	CGATCG	1 cut(s)	632
RsaI	GTAC	2 cut(s)	724, 774
RsaNI	GTAC	2 cut(s)	723, 773
RseI	CAYNNNNRTG	2 cut(s)	119, 872
SacI	GAGCTC	1 cut(s)	918
SaqAI	TTAA	6 cut(s)	336, 405, 600, 605, 657, 758
SatI	GCNGC	6 cut(s)	59, 62, 272, 312, 432, 968
Sau3AI	GATC	6 cut(s)	46, 150, 629, 895, 940, 955
Sau96I	GGNCC	2 cut(s)	809, 886
SchI	GAGTC	2 cut(s)	140, 158
ScrFI	CCNGG	3 cut(s)	38, 295, 851
SduI	GDGCHC	2 cut(s)	356, 918
SfaNI	GCATC	2 cut(s)	67, 223
SfcI	CTRYAG	2 cut(s)	59, 745
SinI	GGWCC	1 cut(s)	809
SmiI	ATTTAAAT	1 cut(s)	606
SmiMI	CAYNNNNRTG	2 cut(s)	119, 872
SmlI	CTYRAG	2 cut(s)	335, 788
SmoI	CTYRAG	2 cut(s)	335, 788
Sse9I	AATT	3 cut(s)	393, 601, 686
SsiI	CCGC	4 cut(s)	142, 311, 328, 726
SspI	AATATT	1 cut(s)	458
SspMI	CTAG	1 cut(s)	179
SstI	GAGCTC	1 cut(s)	918
StyD4I	CCNGG	3 cut(s)	36, 293, 849
SwaI	ATTTAAAT	1 cut(s)	606
TaaI	ACNGT	5 cut(s)	91, 467, 716, 772, 777
TaqI	TCGA	5 cut(s)	149, 162, 632, 918, 945
TasI	AATT	3 cut(s)	393, 601, 686
TatI	WGTACW	1 cut(s)	772
TauI	GCSGC	1 cut(s)	314
TfiI	GAWTC	2 cut(s)	157, 511
Tru1I	TTAA	6 cut(s)	336, 405, 600, 605, 657, 758
Tru9I	TTAA	6 cut(s)	336, 405, 600, 605, 657, 758
TscAI	CASTG	1 cut(s)	96
TseFI	GTSAC	1 cut(s)	989
TseI	GCWGC	5 cut(s)	58, 61, 271, 431, 967
Tsp45I	GTSAC	1 cut(s)	989
TspRI	CASTG	1 cut(s)	96
Vha464I	CTTAAG	1 cut(s)	335
VpaK11BI	GGWCC	1 cut(s)	809
VspI	ATTAAT	1 cut(s)	405
XbaI	TCTAGA	1 cut(s)	178
XspI	CTAG	1 cut(s)	179

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