Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0017437

Physical Location & Seq

Genomic Coordinates Forward (+)

24234439 .. 24244728

Gene Structure 10290 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG112100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGCTCGCCATCACTGTGGCCGACTTCTCCGTCACAAATGGAGCATTGAACTCAAGAGGGATAAGCTCGCCAAGTTGAAGCTCAAAGGCAAAGCTAAGGTATCCTCCACTTGGATTCGTCCTGCTAAAATCCGCCATTACAGCAAGATGCTATTGTCTCCTCCTTTCCTTCAAAGCTCAGCAAAGGAATATTATCCATCAACAATCATATATGAGGTCCAGGATGATTTAGTGTCTCAAGGCTATACATCTACGGCCTTTCATCCAGATGGTATCTTACTCGGAGTAGGCACCTTGGATGGTCTTGTCAAAATTTGGGATGTGAAAAGTCAGACTGCCACTAGTGATGGTGTTAGATGTTGGGATAAGCACAACTTAAGTAATTGCATATGGAGTGATTTTGGTACACGAACGAGCTGTGTTGAATTCGACTTCAGTGGAAGTTACCTTGCAGCTGCATGCTTTTATAAAATGAGAGTTCTCCGAGCTTCTAGTCTGGAGTCAAAATGGAAGATCATCAGTGAACAAACTTGCGTAAAATTTAGCCCAGATGCCCGATATATTGTAGTAGGATCAACGAACGGAAAAGAAAACCTCTGCAATTACTGCGAACATATCATCGTTGAGGAGTATGACTACGATCGTCCCACCCCTGCTGATGTTATGGAGATGTTAGATTGCTCTTATGCTGAGGTTATGAAGACAATAGATTGCTACAACATAGTTCCTAGCATTGAGAAGGAGTCAGACTGTGATTCGAAGTGGGTATATCTGACCAAAAAGAAGAAAAAAGCTGTGATGGAGCAGTTCGAGGAAACAGTTGAGAGTGGGTTACAAATTTGCAAATCATCCAGCAAGCTTTTGAAGGGTGGCGAACCTGACCTGATGACAGCGGCAAAGACGATCCTCCATGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000209 GO:0000349 GO:0000375 GO:0000377 GO:0000393 GO:0000398 GO:0000974 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005618 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005684 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006397 GO:0006464 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008380 GO:0009507 GO:0009536 GO:0009605 GO:0009607 GO:0009617 GO:0009987 GO:0010035 GO:0010038 GO:0010467 GO:0016043 GO:0016070 GO:0016071 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0022607 GO:0022613 GO:0022618 GO:0030312 GO:0031461 GO:0031974 GO:0031981 GO:0032446 GO:0032991 GO:0034622 GO:0034641 GO:0036211 GO:0042221 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046686 GO:0050896 GO:0051704 GO:0051707 GO:0061630 GO:0061659 GO:0065003 GO:0070013 GO:0070534 GO:0070647 GO:0071006 GO:0071012 GO:0071704 GO:0071826 GO:0071840 GO:0071944 GO:0080008 GO:0090304 GO:0098542 GO:0140096 GO:1901360 GO:1901564 GO:1902494 GO:1990234 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 ko04120 map03040 map04120

Pfam Domains

Protein Families

Prp19 U-box WD40

Protein Analysis

305

Amino Acids

34.67

Weight (kDa)

8.33

Isoelectric Point (pI)

45.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_Prp19	PF24814	68 - 114	5.8e-11	Prp19 WD40 domain
Beta-prop_THOC3	PF25174	81 - 195	6.7e-07	THOC3 beta-propeller domain
Beta-prop_WDR5	PF25175	83 - 212	8.8e-08	WDR5 beta-propeller domain
WD40_WDHD1_1st	PF24817	83 - 213	6.1e-08	WDHD1 first WD40 domain
WD40_Prp19	PF24814	112 - 193	2.6e-06	Prp19 WD40 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0017437)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr4g0402341 RchiOBHm_Chr4g0402351
rosa_laevigata	RLG00000009101
rosa_samantha	Rh4AG112100 Rh4BG104700 Rh4CG118900 Rh4DG101700 Rh4DG101800 Rh4DG101900 Rh4DG102000 Rh4DG102100 Rh4DG102500 Rh7DG037800

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	468
AasI	GACNNNNNNGTC	1 cut(s)	30
AccB1I	GGYRCC	1 cut(s)	290
AciI	CCGC	2 cut(s)	133, 893
AclWI	GGATC	2 cut(s)	580, 898
AcoI	YGGCCR	1 cut(s)	19
AcsI	RAATTY	4 cut(s)	312, 425, 539, 837
AcuI	CTGAAG	1 cut(s)	418
AfaI	GTAC	1 cut(s)	406
AfiI	CCNNNNNNNGG	1 cut(s)	111
AflII	CTTAAG	1 cut(s)	376
AgsI	TTSAA	5 cut(s)	50, 79, 173, 425, 865
AhlI	ACTAGT	1 cut(s)	341
AjnI	CCWGG	1 cut(s)	219
AluBI	AGCT	9 cut(s)	67, 82, 95, 177, 417, 455, 488, 794, 859
AluI	AGCT	9 cut(s)	67, 82, 95, 177, 417, 455, 488, 794, 859
Alw26I	GTCTC	2 cut(s)	162, 240
AlwI	GGATC	2 cut(s)	580, 898
AoxI	GGCC	2 cut(s)	19, 255
ApeKI	GCWGC	2 cut(s)	452, 455
ApoI	RAATTY	4 cut(s)	312, 425, 539, 837
AspS9I	GGNCC	1 cut(s)	217
AsuII	TTCGAA	1 cut(s)	758
AvaII	GGWCC	1 cut(s)	217
BanI	GGYRCC	1 cut(s)	290
BbsI	GAAGAC	1 cut(s)	707
BbvCI	CCTCAGC	1 cut(s)	690
BbvI	GCAGC	2 cut(s)	442, 464
BccI	CCATC	6 cut(s)	18, 205, 263, 293, 341, 793
BceAI	ACGGC	1 cut(s)	270
BciT130I	CCWGG	1 cut(s)	221
BciVI	GTATCC	1 cut(s)	112
BcoDI	GTCTC	2 cut(s)	162, 240
BcuI	ACTAGT	1 cut(s)	341
BfaI	CTAG	3 cut(s)	342, 492, 729
BfrI	CTTAAG	1 cut(s)	376
BfuI	GTATCC	1 cut(s)	112
BisI	GCNGC	3 cut(s)	453, 456, 894
BlpI	GCTNAGC	1 cut(s)	178
BlsI	GCNGC	3 cut(s)	454, 457, 895
Bme1390I	CCNGG	1 cut(s)	221
Bme18I	GGWCC	1 cut(s)	217
BmgT120I	GGNCC	1 cut(s)	217
BmiI	GGNNCC	1 cut(s)	292
BmrFI	CCNGG	1 cut(s)	221
BmsI	GCATC	2 cut(s)	138, 541
BpiI	GAAGAC	1 cut(s)	707
BpmI	CTGGAG	1 cut(s)	518
Bpu10I	CCTNAGC	2 cut(s)	96, 690
Bpu1102I	GCTNAGC	1 cut(s)	178
Bpu14I	TTCGAA	1 cut(s)	758
BpuEI	CTTGAG	2 cut(s)	38, 222
BsaJI	CCNNGG	1 cut(s)	294
Bsc4I	CCNNNNNNNGG	1 cut(s)	111
BseBI	CCWGG	1 cut(s)	221
BseDI	CCNNGG	1 cut(s)	294
BseGI	GGATG	5 cut(s)	229, 262, 304, 325, 848
BseLI	CCNNNNNNNGG	1 cut(s)	111
BseMII	CTCAG	2 cut(s)	192, 681
BseRI	GAGGAG	2 cut(s)	150, 641
BseXI	GCAGC	2 cut(s)	442, 464
Bsh1285I	CGRYCG	1 cut(s)	643
BshFI	GGCC	2 cut(s)	21, 257
BshNI	GGYRCC	1 cut(s)	290
BsiEI	CGRYCG	1 cut(s)	643
BslFI	GGGAC	1 cut(s)	630
BslI	CCNNNNNNNGG	1 cut(s)	111
BsmAI	GTCTC	2 cut(s)	162, 240
BsmFI	GGGAC	1 cut(s)	630
BsnI	GGCC	2 cut(s)	21, 257
Bsp119I	TTCGAA	1 cut(s)	758
Bsp143I	GATC	4 cut(s)	513, 572, 640, 903
Bsp1720I	GCTNAGC	1 cut(s)	178
BspACI	CCGC	2 cut(s)	133, 893
BspANI	GGCC	2 cut(s)	21, 257
BspCNI	CTCAG	2 cut(s)	191, 682
BspLI	GGNNCC	1 cut(s)	292
BspPI	GGATC	2 cut(s)	580, 898
BspT104I	TTCGAA	1 cut(s)	758
BspT107I	GGYRCC	1 cut(s)	290
BspTI	CTTAAG	1 cut(s)	376
BssECI	CCNNGG	1 cut(s)	294
BssMI	GATC	4 cut(s)	513, 572, 640, 903
BssT1I	CCWWGG	1 cut(s)	294
Bst2UI	CCWGG	1 cut(s)	221
Bst4CI	ACNGT	3 cut(s)	17, 752, 820
BstAFI	CTTAAG	1 cut(s)	376
BstAPI	GCANNNNNTGC	1 cut(s)	606
BstBI	TTCGAA	1 cut(s)	758
BstC8I	GCNNGC	4 cut(s)	7, 69, 460, 857
BstDEI	CTNAG	3 cut(s)	96, 178, 690
BstF5I	GGATG	5 cut(s)	229, 262, 304, 325, 848
BstKTI	GATC	4 cut(s)	516, 575, 643, 906
BstMAI	GTCTC	2 cut(s)	162, 240
BstMBI	GATC	4 cut(s)	513, 572, 640, 903
BstMCI	CGRYCG	1 cut(s)	643
BstMWI	GCNNNNNNNGC	2 cut(s)	141, 606
BstNI	CCWGG	1 cut(s)	221
BstNSI	RCATGY	1 cut(s)	462
BstSCI	CCNGG	1 cut(s)	219
BstV1I	GCAGC	2 cut(s)	442, 464
BstV2I	GAAGAC	1 cut(s)	707
BstXI	CCANNNNNNTGG	1 cut(s)	17
BsuI	GTATCC	1 cut(s)	112
BsuRI	GGCC	2 cut(s)	21, 257
BtsCI	GGATG	5 cut(s)	229, 262, 304, 325, 848
BtsIMutI	CAGTG	3 cut(s)	13, 442, 526
Cac8I	GCNNGC	4 cut(s)	7, 69, 460, 857
Cfr13I	GGNCC	1 cut(s)	217
Csp6I	GTAC	1 cut(s)	405
CviAII	CATG	2 cut(s)	459, 911
CviQI	GTAC	1 cut(s)	405
DdeI	CTNAG	3 cut(s)	96, 178, 690
DpnI	GATC	4 cut(s)	515, 574, 642, 905
DpnII	GATC	4 cut(s)	513, 572, 640, 903
DrdI	GACNNNNNNGTC	1 cut(s)	30
DseDI	GACNNNNNNGTC	1 cut(s)	30
EaeI	YGGCCR	1 cut(s)	19
EciI	GGCGGA	1 cut(s)	122
Eco130I	CCWWGG	1 cut(s)	294
Eco47I	GGWCC	1 cut(s)	217
Eco57I	CTGAAG	1 cut(s)	418
EcoRI	GAATTC	1 cut(s)	425
EcoRII	CCWGG	1 cut(s)	219
EcoT14I	CCWWGG	1 cut(s)	294
ErhI	CCWWGG	1 cut(s)	294
FaeI	CATG	2 cut(s)	462, 914
FalI	AAGNNNNNCTT	2 cut(s)	359, 391
FaqI	GGGAC	1 cut(s)	630
FatI	CATG	2 cut(s)	458, 910
FauNDI	CATATG	1 cut(s)	389
Fnu4HI	GCNGC	3 cut(s)	453, 456, 894
FokI	GGATG	5 cut(s)	236, 249, 311, 332, 835
Fsp4HI	GCNGC	3 cut(s)	453, 456, 894
FspBI	CTAG	3 cut(s)	342, 492, 729
GluI	GCNGC	3 cut(s)	453, 456, 894
GsuI	CTGGAG	1 cut(s)	518
HaeIII	GGCC	2 cut(s)	21, 257
Hin1II	CATG	2 cut(s)	462, 914
HindIII	AAGCTT	1 cut(s)	857
HinfI	GANTC	4 cut(s)	115, 500, 743, 755
Hpy166II	GTNNAC	2 cut(s)	407, 524
Hpy188I	TCNGA	5 cut(s)	284, 333, 485, 748, 774
Hpy188III	TCNNGA	3 cut(s)	55, 266, 497
Hpy8I	GTNNAC	2 cut(s)	407, 524
HpyAV	CCTTC	3 cut(s)	179, 733, 859
HpyCH4III	ACNGT	3 cut(s)	17, 752, 820
HpyCH4V	TGCA	5 cut(s)	387, 452, 458, 600, 843
HpyF10VI	GCNNNNNNNGC	2 cut(s)	141, 606
HpyF3I	CTNAG	3 cut(s)	96, 178, 690
Hsp92II	CATG	2 cut(s)	462, 914
Kzo9I	GATC	4 cut(s)	513, 572, 640, 903
LmnI	GCTCC	2 cut(s)	42, 802
Lsp1109I	GCAGC	2 cut(s)	442, 464
LweI	GCATC	2 cut(s)	138, 541
MaeI	CTAG	3 cut(s)	342, 492, 729
MaeIII	GTNAC	3 cut(s)	32, 443, 831
MalI	GATC	4 cut(s)	515, 574, 642, 905
MboI	GATC	4 cut(s)	513, 572, 640, 903
MboII	GAAGA	3 cut(s)	523, 712, 796
MluCI	AATT	6 cut(s)	312, 382, 425, 539, 601, 837
MlyI	GAGTC	2 cut(s)	509, 752
MnlI	CCTC	9 cut(s)	51, 115, 171, 208, 605, 619, 685, 805, 917
MseI	TTAA	1 cut(s)	377
MslI	CAYNNNNRTG	2 cut(s)	15, 267
MspA1I	CMGCKG	2 cut(s)	455, 893
MspCI	CTTAAG	1 cut(s)	376
MspR9I	CCNGG	1 cut(s)	221
MvaI	CCWGG	1 cut(s)	221
MwoI	GCNNNNNNNGC	2 cut(s)	141, 606
NdeI	CATATG	1 cut(s)	389
NdeII	GATC	4 cut(s)	513, 572, 640, 903
NlaIII	CATG	2 cut(s)	462, 914
NlaIV	GGNNCC	1 cut(s)	292
NmuCI	GTSAC	1 cut(s)	32
NspI	RCATGY	1 cut(s)	462
NspV	TTCGAA	1 cut(s)	758
PaeI	GCATGC	1 cut(s)	462
PfeI	GAWTC	2 cut(s)	115, 755
PfoI	TCCNGGA	1 cut(s)	219
PkrI	GCNGC	3 cut(s)	454, 457, 895
Ple19I	CGATCG	1 cut(s)	643
PleI	GAGTC	2 cut(s)	508, 751
PpsI	GAGTC	2 cut(s)	508, 751
PsiI	TTATAA	1 cut(s)	468
Psp6I	CCWGG	1 cut(s)	219
PspGI	CCWGG	1 cut(s)	219
PspN4I	GGNNCC	1 cut(s)	292
PspPI	GGNCC	1 cut(s)	217
PvuI	CGATCG	1 cut(s)	643
PvuII	CAGCTG	1 cut(s)	455
RsaI	GTAC	1 cut(s)	406
RsaNI	GTAC	1 cut(s)	405
RseI	CAYNNNNRTG	2 cut(s)	15, 267
SaqAI	TTAA	1 cut(s)	377
SatI	GCNGC	3 cut(s)	453, 456, 894
Sau3AI	GATC	4 cut(s)	513, 572, 640, 903
Sau96I	GGNCC	1 cut(s)	217
SchI	GAGTC	2 cut(s)	509, 752
ScrFI	CCNGG	1 cut(s)	221
SfaNI	GCATC	2 cut(s)	138, 541
SfuI	TTCGAA	1 cut(s)	758
SinI	GGWCC	1 cut(s)	217
SmiMI	CAYNNNNRTG	2 cut(s)	15, 267
SmlI	CTYRAG	3 cut(s)	53, 237, 376
SmoI	CTYRAG	3 cut(s)	53, 237, 376
SpeI	ACTAGT	1 cut(s)	341
SphI	GCATGC	1 cut(s)	462
Sse9I	AATT	6 cut(s)	312, 382, 425, 539, 601, 837
SsiI	CCGC	2 cut(s)	133, 893
SspI	AATATT	1 cut(s)	191
SspMI	CTAG	3 cut(s)	342, 492, 729
StyD4I	CCNGG	1 cut(s)	219
StyI	CCWWGG	1 cut(s)	294
TaaI	ACNGT	3 cut(s)	17, 752, 820
TaqI	TCGA	3 cut(s)	429, 758, 810
TasI	AATT	6 cut(s)	312, 382, 425, 539, 601, 837
TauI	GCSGC	1 cut(s)	896
TfiI	GAWTC	2 cut(s)	115, 755
Tru1I	TTAA	1 cut(s)	377
Tru9I	TTAA	1 cut(s)	377
TscAI	CASTG	3 cut(s)	20, 442, 526
TseFI	GTSAC	1 cut(s)	32
TseI	GCWGC	2 cut(s)	452, 455
Tsp45I	GTSAC	1 cut(s)	32
TspDTI	ATGAA	2 cut(s)	251, 713
TspGWI	ACGGA	2 cut(s)	20, 597
TspRI	CASTG	3 cut(s)	20, 442, 526
Vha464I	CTTAAG	1 cut(s)	376
VpaK11BI	GGWCC	1 cut(s)	217
XapI	RAATTY	4 cut(s)	312, 425, 539, 837
XceI	RCATGY	1 cut(s)	462
XspI	CTAG	3 cut(s)	342, 492, 729

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