Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0000757

Physical Location & Seq

Genomic Coordinates Reverse (-)

51468289 .. 51469347

Gene Structure 1059 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000019393

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1059 bp

ATGATGATTCTTCAGAGAGGAATTCCGATCTTCCCAATTGGGCCCGCTTCTCATTTCCACGGCGGAGCTCCGGTGGTTTTCCACCGCCGACCTATCCCTCCGATTACTCTACACCACCGCCCTATACCCCTTTATCCTCCACAATTTCAGAGCCCCGTCCCTGTTTTCCGGGTTGTCGGCGGCCCAATTTGTCATCAAGGGTCAGTCAAGAAAGCCGATCGATTCGAGGTTCGAAGAGTTTGTCGCTATAATTTCAAAGCCGAGATTGCCGTAATTCAGAGTCTAATCAGGGCCGGCTACCGATTTGCTAGTTTCGACACCGAATTCCCCGGGACAGTGGTCAAATCCGAAATTCCGAAACATCTGATATCTCAAGCTGTTCCGGTTGATGTGTATAAGATGATGAAGACCAATGTGGACCAAACCCATATTATCCAACTGGGTCTTTCCCTCTCTGACCCATTTGGGAATTTGCCGGTTTATGATGGTGCTTACTGTTGTTGGGAGTTTAATTTCAGTGATTTTGATGTAGACTGTGCCAACCATTTGCGGAATAGTGTCTCGATTGATGTCCTGAAGCGGCAAGGAATAGACTTTTCCGAAAACAAATGCACTGGTATTTGTTCTGCAGACTTTGCTGAGGAGATTGAGAGGTCTGGGCTAGTGGAGTTGCTTCCTTGCTTGACTTGGGCTACTTTCCAGAGTGCATATGATTTTGGGTACTTGATAAAGATGTTCACTGGGAAGAAGGAATTGCCAGAGGATATCAAGGAGTTCATGGGCAATGTGAAGACATATTTTGGACCGAATGTGTACGACATCAAGCACATGATGAAGTTGTGTGATGGACTGTTTGGCGGTTTGAATAGTGTGGCAGAAAACCTTGGCGTTGACCGTGCGGCTGGGAGTAGCCACCAAGCTGGTTCCGATAGCCTTTTGACACTGCAAACCTTTTTCAAGATGCTCAAGATGGAGAAGAACAAAGGGAAAGAGCTCTGGGAAGAATGTGGAGGAGTTTTGTTTGGTTTAGGAAGCTTGGATTTCTGGCATCATTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

CAF1 RVT_3

Protein Analysis

353

Amino Acids

39.51

Weight (kDa)

6.88

Isoelectric Point (pI)

46.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	80 - 208	2e-08	CAF1 family ribonuclease
CAF1	PF04857	236 - 280	9.7e-06	CAF1 family ribonuclease

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

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

Orthologous Genes (Group: OG0000757)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06450 AT1G27820 AT1G27890 AT1G61470 AT3G44240
fragaria_vesca	FvH4_6g28110 FvH4_6g28140 FvH4_6g29280 FvH4_6g29280
malus_domestica	MD03G1041900.v1.1 MD09G1229300.v1.1 MD11G1042700.v1.1 MD12G1082100.v1.1 MD14G1080800.v1.1
prunus_persica	Prupe.1G188200_v2.0.a1 Prupe.1G190800_v2.0.a1 Prupe.1G190900_v2.0.a1 Prupe.3G105100_v2.0.a1 Prupe.7G010200_v2.0.a1
pyrus_communis	pycom09g14790 pycom14g07010
rosa_chinensis	RchiOBHm_Chr2g0132091 RchiOBHm_Chr2g0132101 RchiOBHm_Chr2g0134441 RchiOBHm_Chr2g0134461 RchiOBHm_Chr2g0136851 RchiOBHm_Chr2g0167821 RchiOBHm_Chr2g0167861 RchiOBHm_Chr2g0167901 RchiOBHm_Chr2g0167921 RchiOBHm_Chr6g0266841
rosa_laevigata	RLG00000019225 RLG00000019226 RLG00000019393
rosa_multiflora	Rmu_sc0001299.1_g000004 Rmu_sc0005571.1_g000018
rosa_roxburghii	Rroxscaffold_2G00110210 Rroxscaffold_2G00110240 Rroxscaffold_2G00112400 Rroxscaffold_3G00239330 Rroxscaffold_4G00313080
rosa_rugosa	Rorug02G0302000 Rorug02G0302200 Rorug02G0317200 Rorug02G0317200 Rorug03G0220600
rosa_samantha	Rh2AG355100 Rh2AG355200 Rh2AG369800 Rh2AG369900 Rh2AG384800 Rh2CG338700 Rh2CG338800 Rh2CG353700 Rh2CG371400 Rh2DG370100 Rh2DG377900 Rh2DG378000 Rh2DG392800 Rh2DG392900 Rh2DG408200 Rh6BG148800 Rh6BG149300 Rh6CG159200 Rh6DG133000 Rh6DG133400
rosa_wichuraiana	Rw1G013790 Rw2G028830 Rw2G028840 Rw2G031470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	531
AciI	CCGC	9 cut(s)	45, 63, 85, 118, 180, 550, 580, 858, 899
AcsI	RAATTY	4 cut(s)	21, 323, 351, 469
AcuI	CTGAAG	1 cut(s)	596
AfaI	GTAC	2 cut(s)	722, 815
AgsI	TTSAA	3 cut(s)	256, 865, 958
AluBI	AGCT	5 cut(s)	68, 377, 920, 994, 1035
AluI	AGCT	5 cut(s)	68, 377, 920, 994, 1035
Alw21I	GWGCWC	2 cut(s)	70, 996
Alw26I	GTCTC	1 cut(s)	565
Ama87I	CYCGRG	1 cut(s)	329
AoxI	GGCC	3 cut(s)	41, 181, 291
ApaI	GGGCCC	1 cut(s)	45
ApoI	RAATTY	4 cut(s)	21, 323, 351, 469
ArsI	GACNNNNNNTTYG	2 cut(s)	226, 258
AspS9I	GGNCC	6 cut(s)	41, 42, 182, 291, 418, 803
AsuC2I	CCSGG	3 cut(s)	170, 330, 331
AsuII	TTCGAA	1 cut(s)	232
AvaI	CYCGRG	1 cut(s)	329
AvaII	GGWCC	2 cut(s)	418, 803
BaeGI	GKGCMC	1 cut(s)	45
BanII	GRGCYC	4 cut(s)	45, 70, 155, 996
BbsI	GAAGAC	2 cut(s)	413, 797
Bbv12I	GWGCWC	2 cut(s)	70, 996
BbvCI	CCTCAGC	1 cut(s)	639
BccI	CCATC	3 cut(s)	479, 839, 964
BceAI	ACGGC	2 cut(s)	76, 254
BcnI	CCSGG	3 cut(s)	170, 330, 331
BcoDI	GTCTC	1 cut(s)	565
BfaI	CTAG	2 cut(s)	309, 662
BfmI	CTRYAG	1 cut(s)	627
BisI	GCNGC	3 cut(s)	181, 581, 900
BlsI	GCNGC	3 cut(s)	182, 582, 901
Bme1390I	CCNGG	3 cut(s)	170, 330, 331
Bme18I	GGWCC	2 cut(s)	418, 803
BmeT110I	CYCGRG	1 cut(s)	329
BmgT120I	GGNCC	6 cut(s)	41, 42, 182, 291, 418, 803
BmiI	GGNNCC	2 cut(s)	43, 925
BmrFI	CCNGG	3 cut(s)	170, 330, 331
BmrI	ACTGGG	2 cut(s)	449, 750
BmsI	GCATC	1 cut(s)	951
BmuI	ACTGGG	2 cut(s)	449, 750
BoxI	GACNNNNGTC	1 cut(s)	338
BpiI	GAAGAC	2 cut(s)	413, 797
Bpu10I	CCTNAGC	1 cut(s)	639
Bpu14I	TTCGAA	1 cut(s)	232
BpuEI	CTTGAG	2 cut(s)	357, 950
BpuMI	CCSGG	3 cut(s)	170, 330, 331
Bsa29I	ATCGAT	1 cut(s)	220
BsaJI	CCNNGG	4 cut(s)	58, 328, 329, 883
BsaWI	WCCGGW	2 cut(s)	70, 382
BsaXI	ACNNNNNCTCC	2 cut(s)	57, 87
Bse118I	RCCGGY	2 cut(s)	293, 475
Bse1I	ACTGG	3 cut(s)	444, 619, 745
Bse3DI	GCAATG	1 cut(s)	790
BseCI	ATCGAT	1 cut(s)	220
BseDI	CCNNGG	4 cut(s)	58, 328, 329, 883
BseMI	GCAATG	1 cut(s)	790
BseMII	CTCAG	1 cut(s)	630
BseNI	ACTGG	3 cut(s)	444, 619, 745
BseRI	GAGGAG	2 cut(s)	656, 1026
BseSI	GKGCMC	1 cut(s)	45
BseYI	CCCAGC	1 cut(s)	902
Bsh1285I	CGRYCG	1 cut(s)	220
BshFI	GGCC	3 cut(s)	43, 183, 293
BshVI	ATCGAT	1 cut(s)	220
BsiEI	CGRYCG	1 cut(s)	220
BsiHKAI	GWGCWC	2 cut(s)	70, 996
BsiHKCI	CYCGRG	1 cut(s)	329
BsiSI	CCGG	6 cut(s)	71, 169, 294, 330, 383, 476
BslFI	GGGAC	2 cut(s)	143, 346
BsmAI	GTCTC	1 cut(s)	565
BsmFI	GGGAC	2 cut(s)	143, 346
BsnI	GGCC	3 cut(s)	43, 183, 293
BsoBI	CYCGRG	1 cut(s)	329
Bsp119I	TTCGAA	1 cut(s)	232
Bsp120I	GGGCCC	1 cut(s)	41
Bsp1286I	GDGCHC	4 cut(s)	45, 70, 155, 996
Bsp143I	GATC	2 cut(s)	27, 217
BspACI	CCGC	9 cut(s)	45, 63, 85, 118, 180, 550, 580, 858, 899
BspANI	GGCC	3 cut(s)	43, 183, 293
BspCNI	CTCAG	1 cut(s)	631
BspDI	ATCGAT	1 cut(s)	220
BspLI	GGNNCC	2 cut(s)	43, 925
BspMAI	CTGCAG	1 cut(s)	631
BspT104I	TTCGAA	1 cut(s)	232
BsrDI	GCAATG	1 cut(s)	790
BsrFI	RCCGGY	2 cut(s)	293, 475
BsrI	ACTGG	3 cut(s)	444, 619, 745
BssAI	RCCGGY	2 cut(s)	293, 475
BssECI	CCNNGG	4 cut(s)	58, 328, 329, 883
BssMI	GATC	2 cut(s)	27, 217
BssT1I	CCWWGG	1 cut(s)	883
Bst4CI	ACNGT	5 cut(s)	337, 497, 536, 852, 896
Bst6I	CTCTTC	1 cut(s)	229
BstAPI	GCANNNNNTGC	1 cut(s)	635
BstBI	TTCGAA	1 cut(s)	232
BstC8I	GCNNGC	2 cut(s)	45, 295
BstDEI	CTNAG	1 cut(s)	639
BstDSI	CCRYGG	1 cut(s)	58
BstKTI	GATC	2 cut(s)	30, 220
BstMAI	GTCTC	1 cut(s)	565
BstMBI	GATC	2 cut(s)	27, 217
BstMCI	CGRYCG	1 cut(s)	220
BstMWI	GCNNNNNNNGC	2 cut(s)	266, 635
BstPAI	GACNNNNGTC	1 cut(s)	338
BstSCI	CCNGG	3 cut(s)	168, 328, 329
BstSFI	CTRYAG	1 cut(s)	627
BstSLI	GKGCMC	1 cut(s)	45
BstV2I	GAAGAC	2 cut(s)	413, 797
BstXI	CCANNNNNNTGG	1 cut(s)	920
Bsu15I	ATCGAT	1 cut(s)	220
BsuRI	GGCC	3 cut(s)	43, 183, 293
BsuTUI	ATCGAT	1 cut(s)	220
BtgI	CCRYGG	1 cut(s)	58
BtsI	GCAGTG	1 cut(s)	941
BtsIMutI	CAGTG	5 cut(s)	342, 523, 612, 738, 941
Cac8I	GCNNGC	2 cut(s)	45, 295
Cfr10I	RCCGGY	2 cut(s)	293, 475
Cfr13I	GGNCC	6 cut(s)	41, 42, 182, 291, 418, 803
Cfr9I	CCCGGG	1 cut(s)	329
ClaI	ATCGAT	1 cut(s)	220
Csp6I	GTAC	2 cut(s)	721, 814
CviAII	CATG	2 cut(s)	778, 829
CviQI	GTAC	2 cut(s)	721, 814
DdeI	CTNAG	1 cut(s)	639
DpnI	GATC	2 cut(s)	29, 219
DpnII	GATC	2 cut(s)	27, 217
Eam1104I	CTCTTC	1 cut(s)	229
EarI	CTCTTC	1 cut(s)	229
EciI	GGCGGA	1 cut(s)	78
Ecl136II	GAGCTC	2 cut(s)	68, 994
Eco130I	CCWWGG	1 cut(s)	883
Eco24I	GRGCYC	4 cut(s)	45, 70, 155, 996
Eco32I	GATATC	2 cut(s)	369, 766
Eco47I	GGWCC	2 cut(s)	418, 803
Eco53kI	GAGCTC	2 cut(s)	68, 994
Eco57I	CTGAAG	1 cut(s)	596
Eco88I	CYCGRG	1 cut(s)	329
EcoICRI	GAGCTC	2 cut(s)	68, 994
EcoRI	GAATTC	2 cut(s)	21, 323
EcoRV	GATATC	2 cut(s)	369, 766
EcoT14I	CCWWGG	1 cut(s)	883
EcoT38I	GRGCYC	4 cut(s)	45, 70, 155, 996
ErhI	CCWWGG	1 cut(s)	883
FaeI	CATG	2 cut(s)	781, 832
FaqI	GGGAC	2 cut(s)	143, 346
FatI	CATG	2 cut(s)	777, 828
FauI	CCCGC	1 cut(s)	52
FauNDI	CATATG	1 cut(s)	709
FblI	GTMKAC	1 cut(s)	531
Fnu4HI	GCNGC	3 cut(s)	181, 581, 900
FriOI	GRGCYC	4 cut(s)	45, 70, 155, 996
Fsp4HI	GCNGC	3 cut(s)	181, 581, 900
FspBI	CTAG	2 cut(s)	309, 662
GluI	GCNGC	3 cut(s)	181, 581, 900
GsaI	CCCAGC	1 cut(s)	906
HaeIII	GGCC	3 cut(s)	43, 183, 293
HapII	CCGG	6 cut(s)	71, 169, 294, 330, 383, 476
Hin1II	CATG	2 cut(s)	781, 832
HincII	GTYRAC	1 cut(s)	892
HindII	GTYRAC	1 cut(s)	892
HindIII	AAGCTT	1 cut(s)	1033
HinfI	GANTC	3 cut(s)	7, 222, 280
HpaII	CCGG	6 cut(s)	71, 169, 294, 330, 383, 476
Hpy166II	GTNNAC	5 cut(s)	418, 532, 738, 814, 892
Hpy188III	TCNNGA	6 cut(s)	208, 562, 574, 700, 958, 967
Hpy8I	GTNNAC	5 cut(s)	418, 532, 738, 814, 892
HpyAV	CCTTC	1 cut(s)	742
HpyCH4III	ACNGT	5 cut(s)	337, 497, 536, 852, 896
HpyCH4V	TGCA	4 cut(s)	612, 629, 707, 946
HpyF10VI	GCNNNNNNNGC	2 cut(s)	266, 635
HpyF3I	CTNAG	1 cut(s)	639
Hsp92II	CATG	2 cut(s)	781, 832
KroI	GCCGGC	1 cut(s)	293
KroNI	GCCGGC	1 cut(s)	295
Kzo9I	GATC	2 cut(s)	27, 217
LmnI	GCTCC	2 cut(s)	65, 73
LweI	GCATC	1 cut(s)	951
MaeI	CTAG	2 cut(s)	309, 662
MalI	GATC	2 cut(s)	29, 219
MboI	GATC	2 cut(s)	27, 217
MboII	GAAGA	7 cut(s)	22, 246, 418, 757, 802, 988, 1013
MfeI	CAATTG	1 cut(s)	36
MhlI	GDGCHC	4 cut(s)	45, 70, 155, 996
MlyI	GAGTC	1 cut(s)	289
MmeI	TCCRAC	1 cut(s)	460
MnlI	CCTC	9 cut(s)	11, 108, 147, 220, 461, 634, 645, 754, 1004
MroNI	GCCGGC	1 cut(s)	293
MseI	TTAA	1 cut(s)	510
MspI	CCGG	6 cut(s)	71, 169, 294, 330, 383, 476
MspR9I	CCNGG	3 cut(s)	170, 330, 331
MunI	CAATTG	1 cut(s)	36
MwoI	GCNNNNNNNGC	2 cut(s)	266, 635
NaeI	GCCGGC	1 cut(s)	295
NciI	CCSGG	3 cut(s)	170, 330, 331
NdeI	CATATG	1 cut(s)	709
NdeII	GATC	2 cut(s)	27, 217
NgoMIV	GCCGGC	1 cut(s)	293
NlaIII	CATG	2 cut(s)	781, 832
NlaIV	GGNNCC	2 cut(s)	43, 925
NmeAIII	GCCGAG	1 cut(s)	286
NspV	TTCGAA	1 cut(s)	232
PdiI	GCCGGC	1 cut(s)	295
PfeI	GAWTC	2 cut(s)	7, 222
PkrI	GCNGC	3 cut(s)	182, 582, 901
Ple19I	CGATCG	1 cut(s)	220
PleI	GAGTC	1 cut(s)	288
PpsI	GAGTC	1 cut(s)	288
PshAI	GACNNNNGTC	1 cut(s)	338
Psp124BI	GAGCTC	2 cut(s)	70, 996
PspFI	CCCAGC	1 cut(s)	902
PspN4I	GGNNCC	2 cut(s)	43, 925
PspOMI	GGGCCC	1 cut(s)	41
PspPI	GGNCC	6 cut(s)	41, 42, 182, 291, 418, 803
PstI	CTGCAG	1 cut(s)	631
PvuI	CGATCG	1 cut(s)	220
RsaI	GTAC	2 cut(s)	722, 815
RsaNI	GTAC	2 cut(s)	721, 814
SacI	GAGCTC	2 cut(s)	70, 996
SaqAI	TTAA	1 cut(s)	510
SatI	GCNGC	3 cut(s)	181, 581, 900
Sau3AI	GATC	2 cut(s)	27, 217
Sau96I	GGNCC	6 cut(s)	41, 42, 182, 291, 418, 803
SchI	GAGTC	1 cut(s)	289
ScrFI	CCNGG	3 cut(s)	170, 330, 331
SduI	GDGCHC	4 cut(s)	45, 70, 155, 996
SfaNI	GCATC	1 cut(s)	951
SfcI	CTRYAG	1 cut(s)	627
SfuI	TTCGAA	1 cut(s)	232
SinI	GGWCC	2 cut(s)	418, 803
SmaI	CCCGGG	1 cut(s)	331
SmlI	CTYRAG	2 cut(s)	372, 965
SmoI	CTYRAG	2 cut(s)	372, 965
SsiI	CCGC	9 cut(s)	45, 63, 85, 118, 180, 550, 580, 858, 899
SspMI	CTAG	2 cut(s)	309, 662
SstI	GAGCTC	2 cut(s)	70, 996
StyD4I	CCNGG	3 cut(s)	168, 328, 329
StyI	CCWWGG	1 cut(s)	883
TaaI	ACNGT	5 cut(s)	337, 497, 536, 852, 896
TaqI	TCGA	5 cut(s)	220, 225, 232, 315, 563
TaqII	GACCGA	1 cut(s)	820
TauI	GCSGC	3 cut(s)	183, 583, 902
TfiI	GAWTC	2 cut(s)	7, 222
Tru1I	TTAA	1 cut(s)	510
Tru9I	TTAA	1 cut(s)	510
TscAI	CASTG	5 cut(s)	342, 523, 619, 745, 948
TspDTI	ATGAA	3 cut(s)	419, 766, 848
TspMI	CCCGGG	1 cut(s)	329
TspRI	CASTG	5 cut(s)	342, 523, 619, 745, 948
VpaK11BI	GGWCC	2 cut(s)	418, 803
XapI	RAATTY	4 cut(s)	21, 323, 351, 469
XmaI	CCCGGG	1 cut(s)	329
XmiI	GTMKAC	1 cut(s)	531
XspI	CTAG	2 cut(s)	309, 662

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