Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0014895

Physical Location & Seq

Genomic Coordinates Reverse (-)

9351112 .. 9352545

Gene Structure 1434 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00168490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1071 bp

ATGGACGATACGCGGTCGTTTCGTGTGAGCTTGATCCATTCACTTGCAGTTATCGGGCCCCCGTCCCTCACAGTCGTTAAGAACCCACCCTCCAGTAAAGGTCTGAAGCCACGTTCTTGCTCACCCTCCTCTTACTCCTCTGGGTTCGTTGACCTACAACATCCTAACCGGAGACCCCCAAATCACTGTTCCCAACTCCCAGATCCGTTATTCTCAACCCTCAAACTCACACATCCAAGATTGGAAATGTCAATTTTGCCGAAAGGGGATTCGATTCAAATCCGGGAGGTGTGGAATGATAATCTTGAGGAAGAGTTTCATATAATCCGTGGTATTGTTGACAAGTATAACTATGTTGCTATGGATACCGAGTTCCCCGGGGTGGTTCTTCGCCCCGTGGGGGCGTTTAAGAACATTAGTGATTTCAACTATCAGACCCTGAAAGACAATGTTGATATGTTGAAATTGATTCAGTTGGGCCTCACTTTCTCGGATGAGAATGGGAACCTGCCTACCTGTGGAACCGAAAACTCTTTCATTTGGCAGTTCAATTTCCGCGAGTTCAATGTCACCGAGGACATCTTTGCCAGCGATTCCATTGAGTTGTTGCGTCAATGTGGGATTGACTTCAAGAAGAACAGCGAGAAGGGTATTGATGTGAATCGGTTTGCTGAGCTTTTGATGTCTTCAGGGATTGTGTTGAATGATGCTGTGCATTGGGTCACCTTCCATAGCGGGTATGATTTCGGATACCTGCTCAAGCTATTGACTTGTAGGAGTTTGCCCGACACGCAAGCCGGTTTCTTTGATTTGATCAAGATATACTTCCCAATGGTGTATGATATCAAGCATTTGATGAAGTTTTGCAACAGCCTCCATGGTGGGTTGAACAAGCTTGCAGAACTGTTGGACGTGGAAAGAGTTGGTGTGTGCCATCAAGCAGGCTCGGACAGTTTGCTTACAGCTTGCACCTTTAGGAAATTGAGGGATACCTTCTTCAGTGGCTCTACCGAGAAATATGCAGGTGTTTTGTATGGTCTGGGTGTTGAAAATGGACAGAGTACTAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0000288 GO:0000291 GO:0000932 GO:0000956 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004535 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006401 GO:0006402 GO:0006417 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016071 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0017148 GO:0019222 GO:0019439 GO:0030014 GO:0030015 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032268 GO:0032269 GO:0032991 GO:0034248 GO:0034249 GO:0034641 GO:0034655 GO:0035770 GO:0036464 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043928 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140098 GO:1901360 GO:1901361 GO:1901575 GO:1990904 GO:2000112 GO:2000113

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

CAF1

Protein Analysis

356

Amino Acids

40.06

Weight (kDa)

5.94

Isoelectric Point (pI)

37.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	97 - 218	2.9e-12	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

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Orthologous Genes (Group: OG0014895)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G10960
fragaria_vesca	FvH4_2g40930
malus_domestica	MD08G1058500.v1.1 MD15G1038000.v1.1
prunus_persica	Prupe.1G391900_v2.0.a1
pyrus_communis	pycom08g04840 pycom15g03520
rosa_chinensis	RchiOBHm_Chr6g0299631
rosa_laevigata	RLG00000011401
rosa_roxburghii	Rroxscaffold_7G00168490
rosa_rugosa	Rorug06G0291200
rosa_samantha	Rh6AG402000 Rh6BG410400 Rh6CG416100 Rh6DG403300
rosa_wichuraiana	Rw6G035180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	1013
Acc36I	ACCTGC	3 cut(s)	516, 762, 1013
AccII	CGCG	2 cut(s)	13, 558
AciI	CCGC	3 cut(s)	13, 556, 735
AclWI	GGATC	2 cut(s)	28, 197
AcuI	CTGAAG	3 cut(s)	125, 672, 982
AfaI	GTAC	1 cut(s)	1063
AfiI	CCNNNNNNNGG	3 cut(s)	382, 400, 518
AgsI	TTSAA	9 cut(s)	278, 427, 463, 550, 565, 631, 703, 889, 1049
AjiI	CACGTC	1 cut(s)	913
AjuI	GAANNNNNNNTTGG	2 cut(s)	172, 204
AloI	GAACNNNNNNTCC	4 cut(s)	74, 106, 356, 388
AluBI	AGCT	5 cut(s)	30, 676, 763, 895, 965
AluI	AGCT	5 cut(s)	30, 676, 763, 895, 965
Alw26I	GTCTC	1 cut(s)	166
AlwI	GGATC	2 cut(s)	28, 197
AlwNI	CAGNNNCTG	1 cut(s)	439
Ama87I	CYCGRG	1 cut(s)	377
AoxI	GGCC	2 cut(s)	56, 478
ApaI	GGGCCC	1 cut(s)	60
Asp700I	GAANNNNTTC	1 cut(s)	315
AspS9I	GGNCC	3 cut(s)	56, 57, 478
AsuC2I	CCSGG	3 cut(s)	284, 378, 379
AsuHPI	GGTGA	3 cut(s)	114, 562, 715
AvaI	CYCGRG	1 cut(s)	377
BaeGI	GKGCMC	1 cut(s)	60
BanII	GRGCYC	1 cut(s)	60
BbsI	GAAGAC	1 cut(s)	678
BccI	CCATC	1 cut(s)	942
BcgI	CGANNNNNNTGC	2 cut(s)	1001, 1035
BciVI	GTATCC	3 cut(s)	358, 743, 982
BclI	TGATCA	1 cut(s)	813
BcnI	CCSGG	3 cut(s)	284, 378, 379
BcoDI	GTCTC	1 cut(s)	166
BfuAI	ACCTGC	3 cut(s)	516, 762, 1013
BfuI	GTATCC	3 cut(s)	358, 743, 982
BlpI	GCTNAGC	1 cut(s)	672
BmcAI	AGTACT	1 cut(s)	1063
Bme1390I	CCNGG	3 cut(s)	284, 378, 379
BmeT110I	CYCGRG	1 cut(s)	377
BmgBI	CACGTC	1 cut(s)	913
BmgT120I	GGNCC	3 cut(s)	56, 57, 478
BmiI	GGNNCC	4 cut(s)	58, 59, 506, 523
BmrFI	CCNGG	3 cut(s)	284, 378, 379
BmsI	GCATC	1 cut(s)	697
BpiI	GAAGAC	1 cut(s)	678
BpmI	CTGGAG	1 cut(s)	76
Bpu1102I	GCTNAGC	1 cut(s)	672
BpuEI	CTTGAG	2 cut(s)	326, 743
BpuMI	CCSGG	3 cut(s)	284, 378, 379
BsaBI	GATNNNNATC	2 cut(s)	278, 660
BsaI	GGTCTC	1 cut(s)	166
BsaJI	CCNNGG	7 cut(s)	328, 376, 377, 378, 396, 573, 877
BsaWI	WCCGGW	1 cut(s)	168
BsaXI	ACNNNNNCTCC	2 cut(s)	74, 104
Bsc4I	CCNNNNNNNGG	3 cut(s)	382, 400, 518
Bse118I	RCCGGY	1 cut(s)	797
Bse1I	ACTGG	1 cut(s)	93
Bse8I	GATNNNNATC	2 cut(s)	278, 660
BseDI	CCNNGG	7 cut(s)	328, 376, 377, 378, 396, 573, 877
BseGI	GGATG	3 cut(s)	160, 232, 499
BseJI	GATNNNNATC	2 cut(s)	278, 660
BseLI	CCNNNNNNNGG	3 cut(s)	382, 400, 518
BseMII	CTCAG	1 cut(s)	663
BseNI	ACTGG	1 cut(s)	93
BseRI	GAGGAG	2 cut(s)	118, 127
BseSI	GKGCMC	1 cut(s)	60
Bsh1236I	CGCG	2 cut(s)	13, 558
Bsh1285I	CGRYCG	1 cut(s)	17
BshFI	GGCC	2 cut(s)	58, 480
BsiEI	CGRYCG	1 cut(s)	17
BsiHKCI	CYCGRG	1 cut(s)	377
BsiSI	CCGG	4 cut(s)	169, 283, 378, 798
BslFI	GGGAC	1 cut(s)	49
BslI	CCNNNNNNNGG	3 cut(s)	382, 400, 518
BsmAI	GTCTC	1 cut(s)	166
BsmFI	GGGAC	1 cut(s)	49
BsnI	GGCC	2 cut(s)	58, 480
Bso31I	GGTCTC	1 cut(s)	166
BsoBI	CYCGRG	1 cut(s)	377
Bsp120I	GGGCCC	1 cut(s)	56
Bsp1286I	GDGCHC	1 cut(s)	60
Bsp143I	GATC	3 cut(s)	33, 202, 813
Bsp1720I	GCTNAGC	1 cut(s)	672
Bsp19I	CCATGG	1 cut(s)	877
BspACI	CCGC	3 cut(s)	13, 556, 735
BspANI	GGCC	2 cut(s)	58, 480
BspCNI	CTCAG	1 cut(s)	664
BspFNI	CGCG	2 cut(s)	13, 558
BspLI	GGNNCC	4 cut(s)	58, 59, 506, 523
BspMI	ACCTGC	3 cut(s)	516, 762, 1013
BspPI	GGATC	2 cut(s)	28, 197
BspTNI	GGTCTC	1 cut(s)	166
BsrFI	RCCGGY	1 cut(s)	797
BsrI	ACTGG	1 cut(s)	93
BssAI	RCCGGY	1 cut(s)	797
BssECI	CCNNGG	7 cut(s)	328, 376, 377, 378, 396, 573, 877
BssMI	GATC	3 cut(s)	33, 202, 813
BssT1I	CCWWGG	1 cut(s)	877
Bst4CI	ACNGT	4 cut(s)	73, 188, 906, 953
Bst6I	CTCTTC	1 cut(s)	306
BstC8I	GCNNGC	5 cut(s)	589, 795, 897, 943, 967
BstDEI	CTNAG	1 cut(s)	672
BstDSI	CCRYGG	3 cut(s)	328, 396, 877
BstEII	GGTNACC	1 cut(s)	721
BstF5I	GGATG	3 cut(s)	160, 232, 499
BstFNI	CGCG	2 cut(s)	13, 558
BstKTI	GATC	3 cut(s)	36, 205, 816
BstMAI	GTCTC	1 cut(s)	166
BstMBI	GATC	3 cut(s)	33, 202, 813
BstMCI	CGRYCG	1 cut(s)	17
BstMWI	GCNNNNNNNGC	1 cut(s)	790
BstPI	GGTNACC	1 cut(s)	721
BstSCI	CCNGG	3 cut(s)	282, 376, 377
BstSLI	GKGCMC	1 cut(s)	60
BstUI	CGCG	2 cut(s)	13, 558
BstV2I	GAAGAC	1 cut(s)	678
BstX2I	RGATCY	1 cut(s)	202
BstYI	RGATCY	1 cut(s)	202
BsuI	GTATCC	3 cut(s)	358, 743, 982
BsuRI	GGCC	2 cut(s)	58, 480
BtgI	CCRYGG	3 cut(s)	328, 396, 877
BtrI	CACGTC	1 cut(s)	913
BtsCI	GGATG	3 cut(s)	160, 232, 499
BtsIMutI	CAGTG	2 cut(s)	184, 1006
BveI	ACCTGC	3 cut(s)	516, 762, 1013
Cac8I	GCNNGC	5 cut(s)	589, 795, 897, 943, 967
CaiI	CAGNNNCTG	1 cut(s)	439
Cfr10I	RCCGGY	1 cut(s)	797
Cfr13I	GGNCC	3 cut(s)	56, 57, 478
Cfr9I	CCCGGG	1 cut(s)	377
CseI	GACGC	1 cut(s)	599
Csp6I	GTAC	1 cut(s)	1062
CviAII	CATG	1 cut(s)	878
CviQI	GTAC	1 cut(s)	1062
DdeI	CTNAG	1 cut(s)	672
DpnI	GATC	3 cut(s)	35, 204, 815
DpnII	GATC	3 cut(s)	33, 202, 813
Eam1104I	CTCTTC	1 cut(s)	306
EarI	CTCTTC	1 cut(s)	306
Eco130I	CCWWGG	1 cut(s)	877
Eco24I	GRGCYC	1 cut(s)	60
Eco31I	GGTCTC	1 cut(s)	166
Eco32I	GATATC	1 cut(s)	844
Eco57I	CTGAAG	3 cut(s)	125, 672, 982
Eco88I	CYCGRG	1 cut(s)	377
Eco91I	GGTNACC	1 cut(s)	721
EcoO109I	RGGNCCY	1 cut(s)	57
EcoO65I	GGTNACC	1 cut(s)	721
EcoRV	GATATC	1 cut(s)	844
EcoT14I	CCWWGG	1 cut(s)	877
EcoT38I	GRGCYC	1 cut(s)	60
ErhI	CCWWGG	1 cut(s)	877
FaeI	CATG	1 cut(s)	881
FalI	AAGNNNNNCTT	2 cut(s)	809, 841
FaqI	GGGAC	1 cut(s)	49
FatI	CATG	1 cut(s)	877
FauI	CCCGC	1 cut(s)	728
FbaI	TGATCA	1 cut(s)	813
FokI	GGATG	3 cut(s)	147, 219, 506
FriOI	GRGCYC	1 cut(s)	60
GsuI	CTGGAG	1 cut(s)	76
HaeIII	GGCC	2 cut(s)	58, 480
HapII	CCGG	4 cut(s)	169, 283, 378, 798
HgaI	GACGC	1 cut(s)	599
Hin1II	CATG	1 cut(s)	881
HincII	GTYRAC	2 cut(s)	151, 340
HindII	GTYRAC	2 cut(s)	151, 340
HindIII	AAGCTT	1 cut(s)	893
HinfI	GANTC	5 cut(s)	269, 274, 469, 593, 661
HpaII	CCGG	4 cut(s)	169, 283, 378, 798
HphI	GGTGA	3 cut(s)	114, 562, 715
Hpy166II	GTNNAC	2 cut(s)	151, 340
Hpy188I	TCNGA	5 cut(s)	105, 435, 493, 749, 949
Hpy188III	TCNNGA	3 cut(s)	305, 631, 817
Hpy8I	GTNNAC	2 cut(s)	151, 340
HpyAV	CCTTC	3 cut(s)	640, 736, 1003
HpyCH4III	ACNGT	4 cut(s)	73, 188, 906, 953
HpyCH4IV	ACGT	2 cut(s)	112, 912
HpyCH4V	TGCA	6 cut(s)	47, 715, 867, 899, 969, 1022
HpyF10VI	GCNNNNNNNGC	1 cut(s)	790
HpyF3I	CTNAG	1 cut(s)	672
HpySE526I	ACGT	2 cut(s)	112, 912
Hsp92II	CATG	1 cut(s)	881
Ksp22I	TGATCA	1 cut(s)	813
Kzo9I	GATC	3 cut(s)	33, 202, 813
LweI	GCATC	1 cut(s)	697
MaeII	ACGT	2 cut(s)	112, 912
MaeIII	GTNAC	2 cut(s)	568, 721
MalI	GATC	3 cut(s)	35, 204, 815
MboI	GATC	3 cut(s)	33, 202, 813
MboII	GAAGA	5 cut(s)	323, 380, 646, 678, 988
MflI	RGATCY	1 cut(s)	202
MhlI	GDGCHC	1 cut(s)	60
MluCI	AATT	5 cut(s)	252, 464, 550, 980, 1066
MmeI	TCCRAC	1 cut(s)	888
MroXI	GAANNNNTTC	1 cut(s)	315
MseI	TTAA	2 cut(s)	78, 408
MspI	CCGG	4 cut(s)	169, 283, 378, 798
MspR9I	CCNGG	3 cut(s)	284, 378, 379
MvnI	CGCG	2 cut(s)	13, 558
MwoI	GCNNNNNNNGC	1 cut(s)	790
NciI	CCSGG	3 cut(s)	284, 378, 379
NcoI	CCATGG	1 cut(s)	877
NdeII	GATC	3 cut(s)	33, 202, 813
NlaIII	CATG	1 cut(s)	881
NlaIV	GGNNCC	4 cut(s)	58, 59, 506, 523
NmuCI	GTSAC	2 cut(s)	568, 721
PaqCI	CACCTGC	1 cut(s)	1013
PdmI	GAANNNNTTC	1 cut(s)	315
PfeI	GAWTC	5 cut(s)	269, 274, 469, 593, 661
PfoI	TCCNGGA	1 cut(s)	282
PspEI	GGTNACC	1 cut(s)	721
PspN4I	GGNNCC	4 cut(s)	58, 59, 506, 523
PspOMI	GGGCCC	1 cut(s)	56
PspPI	GGNCC	3 cut(s)	56, 57, 478
PstNI	CAGNNNCTG	1 cut(s)	439
PsuI	RGATCY	1 cut(s)	202
RsaI	GTAC	1 cut(s)	1063
RsaNI	GTAC	1 cut(s)	1062
SaqAI	TTAA	2 cut(s)	78, 408
Sau3AI	GATC	3 cut(s)	33, 202, 813
Sau96I	GGNCC	3 cut(s)	56, 57, 478
ScaI	AGTACT	1 cut(s)	1063
ScrFI	CCNGG	3 cut(s)	284, 378, 379
SduI	GDGCHC	1 cut(s)	60
SfaNI	GCATC	1 cut(s)	697
SmaI	CCCGGG	1 cut(s)	379
SmlI	CTYRAG	2 cut(s)	305, 758
SmoI	CTYRAG	2 cut(s)	305, 758
Sse9I	AATT	5 cut(s)	252, 464, 550, 980, 1066
SsiI	CCGC	3 cut(s)	13, 556, 735
StyD4I	CCNGG	3 cut(s)	282, 376, 377
StyI	CCWWGG	1 cut(s)	877
TaaI	ACNGT	4 cut(s)	73, 188, 906, 953
TaiI	ACGT	2 cut(s)	115, 915
TaqI	TCGA	1 cut(s)	272
TasI	AATT	5 cut(s)	252, 464, 550, 980, 1066
TatI	WGTACW	1 cut(s)	1061
TfiI	GAWTC	5 cut(s)	269, 274, 469, 593, 661
Tru1I	TTAA	2 cut(s)	78, 408
Tru9I	TTAA	2 cut(s)	78, 408
TscAI	CASTG	2 cut(s)	191, 1006
TseFI	GTSAC	2 cut(s)	568, 721
Tsp45I	GTSAC	2 cut(s)	568, 721
TspDTI	ATGAA	3 cut(s)	308, 526, 872
TspGWI	ACGGA	2 cut(s)	195, 317
TspMI	CCCGGG	1 cut(s)	377
TspRI	CASTG	2 cut(s)	191, 1006
XmaI	CCCGGG	1 cut(s)	377
XmnI	GAANNNNTTC	1 cut(s)	315
ZrmI	AGTACT	1 cut(s)	1063

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