Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0000757

Physical Location & Seq

Genomic Coordinates Reverse (-)

36281783 .. 36282748

Gene Structure 966 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00313080.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGCCTCCGATTCCTCTACACCACCGCCCTATACCCCTTTATCCTCCTCAATTTCAGAGCCGCGTCCCTGTTTTCCGCGTTGTCGGCGCCCCAATTTGTCGTCAAGGATCTGTGAAGAAAGCCGATCGGTTCGAGGTTCGAAGTGTTTGTCGCTATAATTACAAAGCCGAGATTGCCGTAATTCAGAGTCTAATCAGGGCCGGCTACCGATTTGCTAGTTTCGACACCGAATTCCCCGGGACAGTGGTTAAATCTGAAATTCCAAAACATCTGATATCTCAAGCCGTTCCGGTTGATGTGTATAAGATGATGAAGACCAATGTGGACCAAACCCATATTATCCAATTGGGTCTTTCACTCTCCGACCCATTTGGGAATTTGCCGGTTTACGATGGTGCTTTCTGTTGTTGGGAGTTTAATTTCAGTGATTTTGATGTGGACTGTGCTCAACATTTGCGGAATAGTGTCTCGATTGATGTCCTGAAGCGGCAAGGAATAGACTTTGCCGGAAACAAATGCACTGGTATTTGTTCTGCAGACTTTGCCGAGGAGATTGAGAGGTCTGGGCTAGTGGAGTTGCTTCCTTGCTTGACTTGGGCTACTTTCCAGAGTGCATATGATTTTGGGTACTTGATAAAGATGTTCACTGGGAACAAGGAATTGCCAGAGGATATCAAAGAGTTCATGGGCAATGTGAAGACATATTTTGGACCGAATGTGTACGACATCAAGTACATGATGAAGTTCTGTGATGGACTGTTTGGCGGTTTGAATAGCGTGGCAGAAACCCTTGGCGTTGACCGTGTGGCTGGGAGTAGCCACCAGGCTGGTTCTGATAGTCTTTTGACACTGCAAACGTTTGTCAAGATGCTCAAGATGGAGAAGAACAAAGGGAAAGAGCTCTGGGAAGAATGTGGAGGAGTTTTGTTTGGTTTAGGAAGCTTGGATTTCTGGCATCATTGTTGA

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

321

Amino Acids

36.06

Weight (kDa)

6.25

Isoelectric Point (pI)

46.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	50 - 176	1.5e-06	CAF1 family ribonuclease
CAF1	PF04857	205 - 249	2.5e-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)
AccB1I	GGYRCC	1 cut(s)	86
AccII	CGCG	2 cut(s)	63, 78
AciI	CCGC	6 cut(s)	25, 61, 76, 457, 487, 765
AclI	AACGTT	1 cut(s)	857
AclWI	GGATC	1 cut(s)	115
AcsI	RAATTY	3 cut(s)	230, 258, 376
AcuI	CTGAAG	1 cut(s)	503
AcyI	GRCGYC	1 cut(s)	87
AfaI	GTAC	3 cut(s)	629, 722, 734
AgsI	TTSAA	1 cut(s)	772
AjnI	CCWGG	1 cut(s)	822
AluBI	AGCT	2 cut(s)	901, 942
AluI	AGCT	2 cut(s)	901, 942
Alw21I	GWGCWC	2 cut(s)	448, 903
Alw26I	GTCTC	1 cut(s)	472
AlwI	GGATC	1 cut(s)	115
Ama87I	CYCGRG	1 cut(s)	236
AoxI	GGCC	1 cut(s)	198
ApoI	RAATTY	3 cut(s)	230, 258, 376
ArsI	GACNNNNNNTTYG	2 cut(s)	133, 165
AspLEI	GCGC	1 cut(s)	89
AspS9I	GGNCC	3 cut(s)	198, 325, 710
AsuC2I	CCSGG	2 cut(s)	237, 238
AsuII	TTCGAA	1 cut(s)	139
AvaI	CYCGRG	1 cut(s)	236
AvaII	GGWCC	2 cut(s)	325, 710
BanI	GGYRCC	1 cut(s)	86
BanII	GRGCYC	1 cut(s)	903
BbsI	GAAGAC	2 cut(s)	320, 704
Bbv12I	GWGCWC	2 cut(s)	448, 903
BccI	CCATC	3 cut(s)	386, 746, 871
BceAI	ACGGC	2 cut(s)	161, 269
BciT130I	CCWGG	1 cut(s)	824
BcnI	CCSGG	2 cut(s)	237, 238
BcoDI	GTCTC	1 cut(s)	472
BfaI	CTAG	2 cut(s)	216, 569
BfmI	CTRYAG	1 cut(s)	534
BfoI	RGCGCY	1 cut(s)	90
BisI	GCNGC	2 cut(s)	61, 488
BlsI	GCNGC	2 cut(s)	62, 489
Bme1390I	CCNGG	3 cut(s)	237, 238, 824
Bme18I	GGWCC	2 cut(s)	325, 710
BmeT110I	CYCGRG	1 cut(s)	236
BmgT120I	GGNCC	3 cut(s)	198, 325, 710
BmiI	GGNNCC	1 cut(s)	88
BmrFI	CCNGG	3 cut(s)	237, 238, 824
BmrI	ACTGGG	1 cut(s)	657
BmsI	GCATC	1 cut(s)	858
BmuI	ACTGGG	1 cut(s)	657
BpiI	GAAGAC	2 cut(s)	320, 704
Bpu14I	TTCGAA	1 cut(s)	139
BpuEI	CTTGAG	2 cut(s)	264, 857
BpuMI	CCSGG	2 cut(s)	237, 238
BsaHI	GRCGYC	1 cut(s)	87
BsaJI	CCNNGG	4 cut(s)	235, 236, 546, 790
BsaWI	WCCGGW	1 cut(s)	289
Bse118I	RCCGGY	2 cut(s)	200, 382
Bse1I	ACTGG	2 cut(s)	526, 652
Bse3DI	GCAATG	1 cut(s)	697
BseBI	CCWGG	1 cut(s)	824
BseDI	CCNNGG	4 cut(s)	235, 236, 546, 790
BseMI	GCAATG	1 cut(s)	697
BseNI	ACTGG	2 cut(s)	526, 652
BseRI	GAGGAG	3 cut(s)	36, 563, 933
BseYI	CCCAGC	1 cut(s)	809
Bsh1236I	CGCG	2 cut(s)	63, 78
Bsh1285I	CGRYCG	1 cut(s)	127
BshFI	GGCC	1 cut(s)	200
BshNI	GGYRCC	1 cut(s)	86
BsiEI	CGRYCG	1 cut(s)	127
BsiHKAI	GWGCWC	2 cut(s)	448, 903
BsiHKCI	CYCGRG	1 cut(s)	236
BsiSI	CCGG	5 cut(s)	201, 237, 290, 383, 507
BslFI	GGGAC	2 cut(s)	50, 253
BsmAI	GTCTC	1 cut(s)	472
BsmFI	GGGAC	2 cut(s)	50, 253
BsnI	GGCC	1 cut(s)	200
BsoBI	CYCGRG	1 cut(s)	236
Bsp119I	TTCGAA	1 cut(s)	139
Bsp1286I	GDGCHC	2 cut(s)	448, 903
Bsp143I	GATC	2 cut(s)	107, 124
BspACI	CCGC	6 cut(s)	25, 61, 76, 457, 487, 765
BspANI	GGCC	1 cut(s)	200
BspFNI	CGCG	2 cut(s)	63, 78
BspLI	GGNNCC	1 cut(s)	88
BspMAI	CTGCAG	1 cut(s)	538
BspPI	GGATC	1 cut(s)	115
BspT104I	TTCGAA	1 cut(s)	139
BspT107I	GGYRCC	1 cut(s)	86
BsrDI	GCAATG	1 cut(s)	697
BsrFI	RCCGGY	2 cut(s)	200, 382
BsrI	ACTGG	2 cut(s)	526, 652
BssAI	RCCGGY	2 cut(s)	200, 382
BssECI	CCNNGG	4 cut(s)	235, 236, 546, 790
BssMI	GATC	2 cut(s)	107, 124
BssNI	GRCGYC	1 cut(s)	87
BssT1I	CCWWGG	1 cut(s)	790
Bst2UI	CCWGG	1 cut(s)	824
Bst4CI	ACNGT	4 cut(s)	244, 443, 759, 803
BstACI	GRCGYC	1 cut(s)	87
BstAPI	GCANNNNNTGC	1 cut(s)	542
BstBI	TTCGAA	1 cut(s)	139
BstC8I	GCNNGC	1 cut(s)	202
BstFNI	CGCG	2 cut(s)	63, 78
BstH2I	RGCGCY	1 cut(s)	90
BstHHI	GCGC	1 cut(s)	89
BstKTI	GATC	2 cut(s)	110, 127
BstMAI	GTCTC	1 cut(s)	472
BstMBI	GATC	2 cut(s)	107, 124
BstMCI	CGRYCG	1 cut(s)	127
BstMWI	GCNNNNNNNGC	3 cut(s)	84, 173, 542
BstNI	CCWGG	1 cut(s)	824
BstSCI	CCNGG	3 cut(s)	235, 236, 822
BstSFI	CTRYAG	1 cut(s)	534
BstUI	CGCG	2 cut(s)	63, 78
BstV2I	GAAGAC	2 cut(s)	320, 704
BstX2I	RGATCY	1 cut(s)	107
BstXI	CCANNNNNNTGG	1 cut(s)	827
BstYI	RGATCY	1 cut(s)	107
BsuRI	GGCC	1 cut(s)	200
BtsI	GCAGTG	1 cut(s)	848
BtsIMutI	CAGTG	5 cut(s)	249, 430, 519, 645, 848
Cac8I	GCNNGC	1 cut(s)	202
CfoI	GCGC	1 cut(s)	89
Cfr10I	RCCGGY	2 cut(s)	200, 382
Cfr13I	GGNCC	3 cut(s)	198, 325, 710
Cfr9I	CCCGGG	1 cut(s)	236
CseI	GACGC	1 cut(s)	52
Csp6I	GTAC	3 cut(s)	628, 721, 733
CviAII	CATG	2 cut(s)	685, 736
CviQI	GTAC	3 cut(s)	628, 721, 733
DinI	GGCGCC	1 cut(s)	88
DpnI	GATC	2 cut(s)	109, 126
DpnII	GATC	2 cut(s)	107, 124
Ecl136II	GAGCTC	1 cut(s)	901
Eco130I	CCWWGG	1 cut(s)	790
Eco24I	GRGCYC	1 cut(s)	903
Eco32I	GATATC	2 cut(s)	276, 673
Eco47I	GGWCC	2 cut(s)	325, 710
Eco53kI	GAGCTC	1 cut(s)	901
Eco57I	CTGAAG	1 cut(s)	503
Eco88I	CYCGRG	1 cut(s)	236
EcoICRI	GAGCTC	1 cut(s)	901
EcoRI	GAATTC	1 cut(s)	230
EcoRII	CCWGG	1 cut(s)	822
EcoRV	GATATC	2 cut(s)	276, 673
EcoT14I	CCWWGG	1 cut(s)	790
EcoT38I	GRGCYC	1 cut(s)	903
EgeI	GGCGCC	1 cut(s)	88
EheI	GGCGCC	1 cut(s)	88
ErhI	CCWWGG	1 cut(s)	790
FaeI	CATG	2 cut(s)	688, 739
FaiI	YATR	9 cut(s)	32, 156, 303, 336, 616, 618, 686, 703, 737
FaqI	GGGAC	2 cut(s)	50, 253
FatI	CATG	2 cut(s)	684, 735
FauNDI	CATATG	1 cut(s)	616
Fnu4HI	GCNGC	2 cut(s)	61, 488
FriOI	GRGCYC	1 cut(s)	903
Fsp4HI	GCNGC	2 cut(s)	61, 488
FspBI	CTAG	2 cut(s)	216, 569
GlaI	GCGC	1 cut(s)	88
GluI	GCNGC	2 cut(s)	61, 488
GsaI	CCCAGC	1 cut(s)	813
HaeII	RGCGCY	1 cut(s)	90
HaeIII	GGCC	1 cut(s)	200
HapII	CCGG	5 cut(s)	201, 237, 290, 383, 507
HgaI	GACGC	1 cut(s)	52
HhaI	GCGC	1 cut(s)	89
Hin1I	GRCGYC	1 cut(s)	87
Hin1II	CATG	2 cut(s)	688, 739
Hin6I	GCGC	1 cut(s)	87
HinP1I	GCGC	1 cut(s)	87
HincII	GTYRAC	1 cut(s)	799
HindII	GTYRAC	1 cut(s)	799
HindIII	AAGCTT	1 cut(s)	940
HinfI	GANTC	2 cut(s)	10, 187
HpaII	CCGG	5 cut(s)	201, 237, 290, 383, 507
Hpy166II	GTNNAC	6 cut(s)	325, 388, 439, 645, 721, 799
Hpy188I	TCNGA	7 cut(s)	9, 57, 186, 256, 273, 364, 835
Hpy188III	TCNNGA	5 cut(s)	469, 481, 607, 865, 874
Hpy8I	GTNNAC	6 cut(s)	325, 388, 439, 645, 721, 799
HpyCH4III	ACNGT	4 cut(s)	244, 443, 759, 803
HpyCH4IV	ACGT	1 cut(s)	857
HpyCH4V	TGCA	4 cut(s)	519, 536, 614, 853
HpyF10VI	GCNNNNNNNGC	3 cut(s)	84, 173, 542
HpySE526I	ACGT	1 cut(s)	857
Hsp92I	GRCGYC	1 cut(s)	87
Hsp92II	CATG	2 cut(s)	688, 739
HspAI	GCGC	1 cut(s)	87
KasI	GGCGCC	1 cut(s)	86
KroI	GCCGGC	1 cut(s)	200
KroNI	GCCGGC	1 cut(s)	202
Kzo9I	GATC	2 cut(s)	107, 124
LweI	GCATC	1 cut(s)	858
MaeI	CTAG	2 cut(s)	216, 569
MaeII	ACGT	1 cut(s)	857
MalI	GATC	2 cut(s)	109, 126
MboI	GATC	2 cut(s)	107, 124
MboII	GAAGA	5 cut(s)	127, 325, 709, 895, 920
MfeI	CAATTG	1 cut(s)	344
MflI	RGATCY	1 cut(s)	107
MhlI	GDGCHC	2 cut(s)	448, 903
Mly113I	GGCGCC	1 cut(s)	87
MlyI	GAGTC	1 cut(s)	196
MmeI	TCCRAC	1 cut(s)	387
MnlI	CCTC	9 cut(s)	15, 24, 54, 57, 127, 541, 552, 661, 911
MroNI	GCCGGC	1 cut(s)	200
MseI	TTAA	2 cut(s)	249, 417
MspI	CCGG	5 cut(s)	201, 237, 290, 383, 507
MspR9I	CCNGG	3 cut(s)	237, 238, 824
MunI	CAATTG	1 cut(s)	344
MvaI	CCWGG	1 cut(s)	824
MvnI	CGCG	2 cut(s)	63, 78
MwoI	GCNNNNNNNGC	3 cut(s)	84, 173, 542
NaeI	GCCGGC	1 cut(s)	202
NarI	GGCGCC	1 cut(s)	87
NciI	CCSGG	2 cut(s)	237, 238
NdeI	CATATG	1 cut(s)	616
NdeII	GATC	2 cut(s)	107, 124
NgoMIV	GCCGGC	1 cut(s)	200
NlaIII	CATG	2 cut(s)	688, 739
NlaIV	GGNNCC	1 cut(s)	88
NmeAIII	GCCGAG	2 cut(s)	193, 571
NspV	TTCGAA	1 cut(s)	139
PdiI	GCCGGC	1 cut(s)	202
PfeI	GAWTC	1 cut(s)	10
PkrI	GCNGC	2 cut(s)	62, 489
Ple19I	CGATCG	1 cut(s)	127
PleI	GAGTC	1 cut(s)	195
PluTI	GGCGCC	1 cut(s)	90
PpsI	GAGTC	1 cut(s)	195
Psp124BI	GAGCTC	1 cut(s)	903
Psp1406I	AACGTT	1 cut(s)	857
Psp6I	CCWGG	1 cut(s)	822
PspFI	CCCAGC	1 cut(s)	809
PspGI	CCWGG	1 cut(s)	822
PspN4I	GGNNCC	1 cut(s)	88
PspPI	GGNCC	3 cut(s)	198, 325, 710
PstI	CTGCAG	1 cut(s)	538
PsuI	RGATCY	1 cut(s)	107
PvuI	CGATCG	1 cut(s)	127
RsaI	GTAC	3 cut(s)	629, 722, 734
RsaNI	GTAC	3 cut(s)	628, 721, 733
SacI	GAGCTC	1 cut(s)	903
SaqAI	TTAA	2 cut(s)	249, 417
SatI	GCNGC	2 cut(s)	61, 488
Sau3AI	GATC	2 cut(s)	107, 124
Sau96I	GGNCC	3 cut(s)	198, 325, 710
SchI	GAGTC	1 cut(s)	196
ScrFI	CCNGG	3 cut(s)	237, 238, 824
SduI	GDGCHC	2 cut(s)	448, 903
SetI	ASST	5 cut(s)	138, 563, 860, 903, 944
SfaNI	GCATC	1 cut(s)	858
SfcI	CTRYAG	1 cut(s)	534
SfoI	GGCGCC	1 cut(s)	88
SfuI	TTCGAA	1 cut(s)	139
SinI	GGWCC	2 cut(s)	325, 710
SmaI	CCCGGG	1 cut(s)	238
SmlI	CTYRAG	2 cut(s)	279, 872
SmoI	CTYRAG	2 cut(s)	279, 872
SsiI	CCGC	6 cut(s)	25, 61, 76, 457, 487, 765
SspDI	GGCGCC	1 cut(s)	86
SspMI	CTAG	2 cut(s)	216, 569
SstI	GAGCTC	1 cut(s)	903
StyD4I	CCNGG	3 cut(s)	235, 236, 822
StyI	CCWWGG	1 cut(s)	790
TaaI	ACNGT	4 cut(s)	244, 443, 759, 803
TaiI	ACGT	1 cut(s)	860
TaqI	TCGA	4 cut(s)	132, 139, 222, 470
TaqII	GACCGA	1 cut(s)	727
TatI	WGTACW	1 cut(s)	732
TauI	GCSGC	2 cut(s)	63, 490
TfiI	GAWTC	1 cut(s)	10
Tru1I	TTAA	2 cut(s)	249, 417
Tru9I	TTAA	2 cut(s)	249, 417
TscAI	CASTG	5 cut(s)	249, 430, 526, 652, 855
TspDTI	ATGAA	3 cut(s)	326, 673, 755
TspMI	CCCGGG	1 cut(s)	236
TspRI	CASTG	5 cut(s)	249, 430, 526, 652, 855
VpaK11BI	GGWCC	2 cut(s)	325, 710
XapI	RAATTY	3 cut(s)	230, 258, 376
XmaI	CCCGGG	1 cut(s)	236
XspI	CTAG	2 cut(s)	216, 569

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