Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0006876

Physical Location & Seq

Genomic Coordinates Reverse (-)

84462650 .. 84468824

Gene Structure 6175 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG622300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 972 bp

ATGTGCATGCTGTGCTGGATGCCCGGCGAAACCGTGCTAAAACGCTGTCGTCTGATGACCCTAATTCTCCTCAGGCTCAGGCTAATAGGATTTTTGCGCGGTCAGGGACCGAGGGTGATTGTCGTGGGACCTTCGGATTCTGGGAAAAGTACATTGTCGAAAATGCTGCTTAGTTGGGCAGCTAAGCAGGGATGGAAACCTACTTTTGTCGACTTGGATATTGGACAAGGAGCTATAACAATTCCAGGATGCATTGCTGCTACTCCTATTGAAATGCCTATTGATCCGGTGGAAGGGATTCCCCTTGACATGCCCCTCGTTTATTTCTATGGGCACACAACTCCCATGAGCAATGTGGATTTGTACAGAGTGCTTGTGAAGGAGCTTTCTCAAATGGTAGAGAGACAATTTACTGGTAATGCTGAATCTCAAGCTGCTGGATTGGTCATCAACACCATGGGATGGATAGAAGGTGCTGGCTATGAGTTGCTTCTTCATGCAATTGACACATTCAATGCTAATGTTGTCTTGGTTTTGGGTCAGGAAAAGCTTTGCAGCATGCTCAGAGATGTATTAAAGAACAAGCCCAACGTGGATGTTGTTAAACTTCAAAAATCAGGGGGAGTTGTATCCAGGAATGTAAAATTCCGTCAAAAATCCAGGAGTCATAGGATAAGGGAATACTTTTATGGCCTCTCAAATGATCTCAGCCCACACTCTAATATCGCAAATTTCGGTGATTTATCCATCTTTCGAATCGGTGGTGGGCCACAGGCCCCTCGTTCAGCTTTGCCAATTGGTGCCGAGCCTGCTGCTGACCCTACAAGAGTGGTTCCTGTAAATATTAACCGTGATTTGCTCCATATGGTTCTCGCTATTTCATATGCTAAGGAGCCCGATGAAATTATCTCTAGTAATGTTGCTGGATTTGTCTTTGTCACAGACATCAACATTGAAAGGTTTGATTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000394 GO:0003006 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006378 GO:0006379 GO:0006388 GO:0006396 GO:0006397 GO:0006399 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0007275 GO:0008033 GO:0008150 GO:0008152 GO:0008380 GO:0009791 GO:0009908 GO:0009987 GO:0010228 GO:0010467 GO:0016070 GO:0016071 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019205 GO:0022414 GO:0031123 GO:0031124 GO:0032501 GO:0032502 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043631 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048367 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0051731 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090567 GO:0099402 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

CLP1_N CLP1_P Clp1

Protein Analysis

323

Amino Acids

35.6

Weight (kDa)

8.55

Isoelectric Point (pI)

44.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP1_P	PF16575	43 - 231	1.8e-70	mRNA cleavage and polyadenylation factor CLP1 P-loop
Clp1	PF06807	236 - 320	2.4e-21	Pre-mRNA cleavage complex II protein Clp1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0006876)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04680 AT3G04680 AT3G04680
fragaria_vesca	FvH4_6g49260 FvH4_6g49260
malus_domestica	MD09G1046200.v1.1 MD09G1046500.v1.1 MD17G1047000.v1.1
prunus_persica	Prupe.3G272100_v2.0.a1
pyrus_communis	pycom09g03810 pycom09g04270 pycom111g03580 pycom111g03600 pycom111g03650 pycom17g04190
rosa_chinensis	RchiOBHm_Chr2g0169161
rosa_laevigata	RLG00000021838
rosa_multiflora	Rmu_ssc0000440.1_g000003
rosa_roxburghii	Rroxscaffold_2G00082380
rosa_rugosa	Rorug02G0537700 Rorug02G0537800
rosa_samantha	Rh2AG609300 Rh2BG622300 Rh2CG591000 Rh2DG633000
rosa_wichuraiana	Rw2G050540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	800
AccB7I	CCANNNNNTGG	1 cut(s)	462
AccI	GTMKAC	1 cut(s)	210
AccII	CGCG	1 cut(s)	99
AciI	CCGC	1 cut(s)	99
AclWI	GGATC	1 cut(s)	278
AcsI	RAATTY	2 cut(s)	644, 730
AfaI	GTAC	2 cut(s)	151, 365
AfiI	CCNNNNNNNGG	2 cut(s)	293, 462
AgsI	TTSAA	4 cut(s)	272, 514, 611, 956
AjnI	CCWGG	3 cut(s)	244, 632, 659
AluBI	AGCT	6 cut(s)	182, 233, 385, 434, 550, 788
AluI	AGCT	6 cut(s)	182, 233, 385, 434, 550, 788
Alw26I	GTCTC	1 cut(s)	397
AlwI	GGATC	1 cut(s)	278
AoxI	GGCC	3 cut(s)	691, 767, 774
ApeKI	GCWGC	6 cut(s)	166, 179, 257, 434, 555, 812
ApoI	RAATTY	2 cut(s)	644, 730
Asp700I	GAANNNNTTC	1 cut(s)	297
AspLEI	GCGC	1 cut(s)	99
AspS9I	GGNCC	4 cut(s)	107, 128, 767, 775
AsuC2I	CCSGG	1 cut(s)	24
AsuHPI	GGTGA	2 cut(s)	127, 749
AsuII	TTCGAA	1 cut(s)	754
AvaII	GGWCC	2 cut(s)	107, 128
AxyI	CCTNAGG	1 cut(s)	71
BaeGI	GKGCMC	1 cut(s)	336
BanI	GGYRCC	1 cut(s)	800
BanII	GRGCYC	1 cut(s)	897
BbvI	GCAGC	6 cut(s)	153, 191, 244, 421, 567, 799
BccI	CCATC	3 cut(s)	186, 456, 755
BcgI	CGANNNNNNTGC	4 cut(s)	148, 182, 794, 828
BciT130I	CCWGG	3 cut(s)	246, 634, 661
BciVI	GTATCC	1 cut(s)	640
BcnI	CCSGG	1 cut(s)	24
BcoDI	GTCTC	1 cut(s)	397
BfaI	CTAG	1 cut(s)	912
BfuI	GTATCC	1 cut(s)	640
BisI	GCNGC	6 cut(s)	167, 180, 258, 435, 556, 813
BlpI	GCTNAGC	1 cut(s)	183
BlsI	GCNGC	6 cut(s)	168, 181, 259, 436, 557, 814
Bme1390I	CCNGG	4 cut(s)	24, 246, 634, 661
Bme18I	GGWCC	2 cut(s)	107, 128
BmgT120I	GGNCC	4 cut(s)	107, 128, 767, 775
BmiI	GGNNCC	6 cut(s)	108, 129, 777, 802, 834, 894
BmrFI	CCNGG	4 cut(s)	24, 246, 634, 661
BmsI	GCATC	2 cut(s)	9, 239
Bpu10I	CCTNAGC	2 cut(s)	77, 888
Bpu1102I	GCTNAGC	1 cut(s)	183
Bpu14I	TTCGAA	1 cut(s)	754
BpuEI	CTTGAG	1 cut(s)	414
BpuMI	CCSGG	1 cut(s)	24
BsaJI	CCNNGG	2 cut(s)	110, 456
BsaWI	WCCGGW	1 cut(s)	286
Bsc4I	CCNNNNNNNGG	2 cut(s)	293, 462
Bse1I	ACTGG	1 cut(s)	418
Bse21I	CCTNAGG	1 cut(s)	71
Bse3DI	GCAATG	2 cut(s)	252, 358
BseBI	CCWGG	3 cut(s)	246, 634, 661
BseDI	CCNNGG	2 cut(s)	110, 456
BseGI	GGATG	5 cut(s)	24, 197, 254, 467, 601
BseLI	CCNNNNNNNGG	2 cut(s)	293, 462
BseMI	GCAATG	2 cut(s)	252, 358
BseMII	CTCAG	4 cut(s)	85, 91, 577, 721
BseNI	ACTGG	1 cut(s)	418
BseRI	GAGGAG	1 cut(s)	59
BseSI	GKGCMC	1 cut(s)	336
BseXI	GCAGC	6 cut(s)	153, 191, 244, 421, 567, 799
Bsh1236I	CGCG	1 cut(s)	99
BshFI	GGCC	3 cut(s)	693, 769, 776
BshNI	GGYRCC	1 cut(s)	800
BsiSI	CCGG	2 cut(s)	24, 287
BslFI	GGGAC	2 cut(s)	120, 141
BslI	CCNNNNNNNGG	2 cut(s)	293, 462
BsmAI	GTCTC	1 cut(s)	397
BsmFI	GGGAC	2 cut(s)	120, 141
BsnI	GGCC	3 cut(s)	693, 769, 776
Bsp119I	TTCGAA	1 cut(s)	754
Bsp1286I	GDGCHC	2 cut(s)	336, 897
Bsp1407I	TGTACA	1 cut(s)	363
Bsp143I	GATC	2 cut(s)	283, 703
Bsp1720I	GCTNAGC	1 cut(s)	183
Bsp19I	CCATGG	1 cut(s)	456
BspACI	CCGC	1 cut(s)	99
BspANI	GGCC	3 cut(s)	693, 769, 776
BspCNI	CTCAG	4 cut(s)	84, 90, 576, 720
BspFNI	CGCG	1 cut(s)	99
BspLI	GGNNCC	6 cut(s)	108, 129, 777, 802, 834, 894
BspPI	GGATC	1 cut(s)	278
BspT104I	TTCGAA	1 cut(s)	754
BspT107I	GGYRCC	1 cut(s)	800
BsrDI	GCAATG	2 cut(s)	252, 358
BsrGI	TGTACA	1 cut(s)	363
BsrI	ACTGG	1 cut(s)	418
BssECI	CCNNGG	2 cut(s)	110, 456
BssMI	GATC	2 cut(s)	283, 703
BssT1I	CCWWGG	1 cut(s)	456
Bst2UI	CCWGG	3 cut(s)	246, 634, 661
Bst4CI	ACNGT	2 cut(s)	34, 851
BstAPI	GCANNNNNTGC	1 cut(s)	12
BstAUI	TGTACA	1 cut(s)	363
BstBI	TTCGAA	1 cut(s)	754
BstC8I	GCNNGC	4 cut(s)	8, 478, 560, 810
BstDEI	CTNAG	7 cut(s)	71, 77, 170, 183, 563, 707, 888
BstDSI	CCRYGG	1 cut(s)	456
BstF5I	GGATG	5 cut(s)	24, 197, 254, 467, 601
BstFNI	CGCG	1 cut(s)	99
BstHHI	GCGC	1 cut(s)	99
BstKTI	GATC	2 cut(s)	286, 706
BstMAI	GTCTC	1 cut(s)	397
BstMBI	GATC	2 cut(s)	283, 703
BstMWI	GCNNNNNNNGC	2 cut(s)	12, 809
BstNI	CCWGG	3 cut(s)	246, 634, 661
BstNSI	RCATGY	3 cut(s)	10, 313, 562
BstSCI	CCNGG	4 cut(s)	22, 244, 632, 659
BstSLI	GKGCMC	1 cut(s)	336
BstUI	CGCG	1 cut(s)	99
BstV1I	GCAGC	6 cut(s)	153, 191, 244, 421, 567, 799
Bsu36I	CCTNAGG	1 cut(s)	71
BsuI	GTATCC	1 cut(s)	640
BsuRI	GGCC	3 cut(s)	693, 769, 776
BtgI	CCRYGG	1 cut(s)	456
BtsCI	GGATG	5 cut(s)	24, 197, 254, 467, 601
Cac8I	GCNNGC	4 cut(s)	8, 478, 560, 810
CfoI	GCGC	1 cut(s)	99
Cfr13I	GGNCC	4 cut(s)	107, 128, 767, 775
Csp6I	GTAC	2 cut(s)	150, 364
CviAII	CATG	6 cut(s)	7, 310, 346, 457, 497, 559
CviQI	GTAC	2 cut(s)	150, 364
DdeI	CTNAG	7 cut(s)	71, 77, 170, 183, 563, 707, 888
DpnI	GATC	2 cut(s)	285, 705
DpnII	GATC	2 cut(s)	283, 703
Eco130I	CCWWGG	1 cut(s)	456
Eco24I	GRGCYC	1 cut(s)	897
Eco47I	GGWCC	2 cut(s)	107, 128
Eco81I	CCTNAGG	1 cut(s)	71
EcoO109I	RGGNCCY	2 cut(s)	128, 775
EcoRII	CCWGG	3 cut(s)	244, 632, 659
EcoT14I	CCWWGG	1 cut(s)	456
EcoT22I	ATGCAT	1 cut(s)	254
EcoT38I	GRGCYC	1 cut(s)	897
ErhI	CCWWGG	1 cut(s)	456
FaeI	CATG	6 cut(s)	10, 313, 349, 460, 500, 562
FaqI	GGGAC	2 cut(s)	120, 141
FatI	CATG	6 cut(s)	6, 309, 345, 456, 496, 558
FauNDI	CATATG	2 cut(s)	864, 883
FblI	GTMKAC	1 cut(s)	210
Fnu4HI	GCNGC	6 cut(s)	167, 180, 258, 435, 556, 813
FokI	GGATG	5 cut(s)	31, 204, 261, 474, 608
FriOI	GRGCYC	1 cut(s)	897
Fsp4HI	GCNGC	6 cut(s)	167, 180, 258, 435, 556, 813
FspBI	CTAG	1 cut(s)	912
GlaI	GCGC	1 cut(s)	98
GluI	GCNGC	6 cut(s)	167, 180, 258, 435, 556, 813
HaeIII	GGCC	3 cut(s)	693, 769, 776
HapII	CCGG	2 cut(s)	24, 287
HhaI	GCGC	1 cut(s)	99
Hin1II	CATG	6 cut(s)	10, 313, 349, 460, 500, 562
Hin6I	GCGC	1 cut(s)	97
HinP1I	GCGC	1 cut(s)	97
HincII	GTYRAC	1 cut(s)	211
HindII	GTYRAC	1 cut(s)	211
HindIII	AAGCTT	1 cut(s)	548
HinfI	GANTC	5 cut(s)	137, 298, 425, 664, 756
HpaII	CCGG	2 cut(s)	24, 287
HphI	GGTGA	2 cut(s)	127, 749
Hpy166II	GTNNAC	1 cut(s)	211
Hpy188I	TCNGA	4 cut(s)	54, 136, 566, 971
Hpy188III	TCNNGA	1 cut(s)	542
Hpy8I	GTNNAC	1 cut(s)	211
HpyAV	CCTTC	4 cut(s)	141, 287, 373, 464
HpyCH4III	ACNGT	2 cut(s)	34, 851
HpyCH4IV	ACGT	1 cut(s)	591
HpyCH4V	TGCA	4 cut(s)	6, 252, 500, 555
HpyF10VI	GCNNNNNNNGC	2 cut(s)	12, 809
HpyF3I	CTNAG	7 cut(s)	71, 77, 170, 183, 563, 707, 888
HpySE526I	ACGT	1 cut(s)	591
Hsp92II	CATG	6 cut(s)	10, 313, 349, 460, 500, 562
HspAI	GCGC	1 cut(s)	97
Kzo9I	GATC	2 cut(s)	283, 703
LmnI	GCTCC	4 cut(s)	230, 382, 864, 892
Lsp1109I	GCAGC	6 cut(s)	153, 191, 244, 421, 567, 799
LweI	GCATC	2 cut(s)	9, 239
MaeI	CTAG	1 cut(s)	912
MaeII	ACGT	1 cut(s)	591
MaeIII	GTNAC	1 cut(s)	937
MalI	GATC	2 cut(s)	285, 705
MboI	GATC	2 cut(s)	283, 703
MboII	GAAGA	1 cut(s)	485
MfeI	CAATTG	2 cut(s)	501, 795
MhlI	GDGCHC	2 cut(s)	336, 897
MluCI	AATT	8 cut(s)	63, 240, 407, 501, 644, 730, 795, 903
MlyI	GAGTC	1 cut(s)	673
MnlI	CCTC	5 cut(s)	80, 105, 326, 704, 789
Mph1103I	ATGCAT	1 cut(s)	254
MroXI	GAANNNNTTC	1 cut(s)	297
MseI	TTAA	3 cut(s)	575, 603, 846
MspI	CCGG	2 cut(s)	24, 287
MspR9I	CCNGG	4 cut(s)	24, 246, 634, 661
MunI	CAATTG	2 cut(s)	501, 795
MvaI	CCWGG	3 cut(s)	246, 634, 661
MvnI	CGCG	1 cut(s)	99
MwoI	GCNNNNNNNGC	2 cut(s)	12, 809
NciI	CCSGG	1 cut(s)	24
NcoI	CCATGG	1 cut(s)	456
NdeI	CATATG	2 cut(s)	864, 883
NdeII	GATC	2 cut(s)	283, 703
NlaIII	CATG	6 cut(s)	10, 313, 349, 460, 500, 562
NlaIV	GGNNCC	6 cut(s)	108, 129, 777, 802, 834, 894
NmeAIII	GCCGAG	1 cut(s)	829
NmuCI	GTSAC	1 cut(s)	937
NsiI	ATGCAT	1 cut(s)	254
NspI	RCATGY	3 cut(s)	10, 313, 562
NspV	TTCGAA	1 cut(s)	754
PaeI	GCATGC	2 cut(s)	10, 562
PdmI	GAANNNNTTC	1 cut(s)	297
PfeI	GAWTC	4 cut(s)	137, 298, 425, 756
PflMI	CCANNNNNTGG	1 cut(s)	462
PfoI	TCCNGGA	3 cut(s)	244, 632, 659
PkrI	GCNGC	6 cut(s)	168, 181, 259, 436, 557, 814
PleI	GAGTC	1 cut(s)	672
PpsI	GAGTC	1 cut(s)	672
PpuMI	RGGWCCY	1 cut(s)	128
Psp5II	RGGWCCY	1 cut(s)	128
Psp6I	CCWGG	3 cut(s)	244, 632, 659
PspGI	CCWGG	3 cut(s)	244, 632, 659
PspN4I	GGNNCC	6 cut(s)	108, 129, 777, 802, 834, 894
PspPI	GGNCC	4 cut(s)	107, 128, 767, 775
PspPPI	RGGWCCY	1 cut(s)	128
RsaI	GTAC	2 cut(s)	151, 365
RsaNI	GTAC	2 cut(s)	150, 364
SalI	GTCGAC	1 cut(s)	209
SaqAI	TTAA	3 cut(s)	575, 603, 846
SatI	GCNGC	6 cut(s)	167, 180, 258, 435, 556, 813
Sau3AI	GATC	2 cut(s)	283, 703
Sau96I	GGNCC	4 cut(s)	107, 128, 767, 775
SchI	GAGTC	1 cut(s)	673
ScrFI	CCNGG	4 cut(s)	24, 246, 634, 661
SduI	GDGCHC	2 cut(s)	336, 897
SfaNI	GCATC	2 cut(s)	9, 239
SfuI	TTCGAA	1 cut(s)	754
SinI	GGWCC	2 cut(s)	107, 128
SmlI	CTYRAG	1 cut(s)	429
SmoI	CTYRAG	1 cut(s)	429
SphI	GCATGC	2 cut(s)	10, 562
Sse9I	AATT	8 cut(s)	63, 240, 407, 501, 644, 730, 795, 903
SsiI	CCGC	1 cut(s)	99
SspI	AATATT	1 cut(s)	844
SspMI	CTAG	1 cut(s)	912
StyD4I	CCNGG	4 cut(s)	22, 244, 632, 659
StyI	CCWWGG	1 cut(s)	456
TaaI	ACNGT	2 cut(s)	34, 851
TaiI	ACGT	1 cut(s)	594
TaqI	TCGA	3 cut(s)	158, 210, 754
TaqII	GACCGA	1 cut(s)	124
TasI	AATT	8 cut(s)	63, 240, 407, 501, 644, 730, 795, 903
TatI	WGTACW	2 cut(s)	149, 363
TfiI	GAWTC	4 cut(s)	137, 298, 425, 756
Tru1I	TTAA	3 cut(s)	575, 603, 846
Tru9I	TTAA	3 cut(s)	575, 603, 846
TseFI	GTSAC	1 cut(s)	937
TseI	GCWGC	6 cut(s)	166, 179, 257, 434, 555, 812
Tsp45I	GTSAC	1 cut(s)	937
TspDTI	ATGAA	3 cut(s)	485, 870, 915
TspGWI	ACGGA	1 cut(s)	638
Van91I	CCANNNNNTGG	1 cut(s)	462
VpaK11BI	GGWCC	2 cut(s)	107, 128
XapI	RAATTY	2 cut(s)	644, 730
XceI	RCATGY	3 cut(s)	10, 313, 562
XcmI	CCANNNNNNNNNTGG	1 cut(s)	352
XmiI	GTMKAC	1 cut(s)	210
XmnI	GAANNNNTTC	1 cut(s)	297
XspI	CTAG	1 cut(s)	912
Zsp2I	ATGCAT	1 cut(s)	254

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