Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0003980

Physical Location & Seq

Genomic Coordinates Forward (+)

19792902 .. 19793761

Gene Structure 860 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G017960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 831 bp

ATGTCGTCCTCCTCCTCCTCCTCATCATCAGAACCCCCGCCGCCTTCTTCAGAAATCCGAATCCGATCGGTATGGGCCGATAACCTCGACGACGAGTTCGACAAGATCCGATCCGTGATCGACGAATTCCCGATGATCTCCATGGACACGGAGTTTCCCGGCGTCGTTTTCCGGCCCAACGCCGAGGATCCGAATTTCCGGCACCTGGATCGCCCCGAAGCGAACTACCTCGTTCTCAAGGCGAACGTGGACCGGCTGAATCTGATCCAGGTCGGGCTGACTCTCTCGGACCGCGGCGGGAATTTGCCGGATTTAGGATCGGAGAACAAGTATATTTGGGAATTCAATTTCAGAGACTTCGACGTGGGGCGTGACCCCCACGCGCACGACTCCATCGAGTTGCTGCGGCGGCAGGGTATCGATTTCGAGCGCAACCGGGACAGAGGGATCGACTCGTACAAATTCGCCCAGCTGATGATGTCATCGTCGGGCCTCGTGTGCAACGAGGACGTGACGTGGATCACGTTTCACAGCGCGTACGATTTCGGATACCTGGTCAAGCTGTTGACGCAGCAAGCCTTGCCGGAGGAGCTGCCGGGATTCTTGAACCGGGTGAAGGTGTTCTTTGGTTCCGGAGGGTACGACGTGAAGCACCTGACCAAGTTCTGTGCTCATCTCTATGGTGGATTGGACCGGGTTTGCCAGGCCTTAAATGCCGGGTCGGATAGCCTCCTGACTTTGCATGCGTTCCAGAGGATCAAAGAGCTCTTCTTTAGCAAAGATGGAATAGAGCAGTACGCTGGCGTTTTGTATGGTCTAGAGGTTTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0000288 GO:0000289 GO:0000291 GO:0000932 GO:0000956 GO:0002213 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:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009605 GO:0009607 GO:0009611 GO:0009617 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:0042742 GO:0043170 GO:0043207 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:0050896 GO:0051171 GO:0051172 GO:0051246 GO:0051248 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0098542 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

276

Amino Acids

31.26

Weight (kDa)

4.96

Isoelectric Point (pI)

42.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	24 - 150	1.1e-10	CAF1 family ribonuclease

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0003980)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G44260 AT5G22250
fragaria_vesca	FvH4_3g25960 FvH4_6g19860
malus_domestica	MD03G1152000.v1.1 MD03G1152100.v1.1 MD11G1172400.v1.1 MD12G1034100.v1.1
prunus_persica	Prupe.6G139200_v2.0.a1 Prupe.6G139300_v2.0.a1 Prupe.6G139800_v2.0.a1 Prupe.7G098700_v2.0.a1
pyrus_communis	pycom03g10580 pycom05g09910 pycom11g14510 pycom12g03160 pycom14g03120
rosa_chinensis	RchiOBHm_Chr3g0475261 RchiOBHm_Chr5g0047241
rosa_laevigata	RLG00000023855 RLG00000034481
rosa_roxburghii	Rroxscaffold_1G00034130 Rroxscaffold_6G00406420
rosa_rugosa	Rorug03G0147600 Rorug05G0235200
rosa_samantha	Rh3AG197500 Rh3BG227800 Rh3DG223000 Rh5AG314100 Rh5CG349900 Rh5DG333600
rosa_wichuraiana	Rw3G017960 Rw5G029350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	201
AccII	CGCG	3 cut(s)	294, 383, 536
AccIII	TCCGGA	1 cut(s)	632
AciI	CCGC	7 cut(s)	38, 41, 292, 294, 297, 406, 409
AcsI	RAATTY	5 cut(s)	125, 193, 301, 341, 461
AcuI	CTGAAG	1 cut(s)	33
AcyI	GRCGYC	1 cut(s)	162
AfaI	GTAC	4 cut(s)	458, 539, 641, 797
AfiI	CCNNNNNNNGG	3 cut(s)	205, 314, 616
AgsI	TTSAA	2 cut(s)	346, 607
AjiI	CACGTC	4 cut(s)	364, 511, 516, 646
AjnI	CCWGG	4 cut(s)	204, 267, 552, 702
AluBI	AGCT	4 cut(s)	472, 562, 592, 766
AluI	AGCT	4 cut(s)	472, 562, 592, 766
Alw21I	GWGCWC	2 cut(s)	673, 768
Alw26I	GTCTC	1 cut(s)	348
Aor13HI	TCCGGA	1 cut(s)	632
AoxI	GGCC	4 cut(s)	75, 173, 490, 705
ApeKI	GCWGC	3 cut(s)	403, 571, 592
ApoI	RAATTY	5 cut(s)	125, 193, 301, 341, 461
ArsI	GACNNNNNNTTYG	2 cut(s)	80, 112
Asp700I	GAANNNNTTC	1 cut(s)	620
AspLEI	GCGC	3 cut(s)	385, 432, 536
AspS9I	GGNCC	6 cut(s)	75, 174, 250, 289, 490, 691
AsuC2I	CCSGG	6 cut(s)	159, 437, 597, 611, 695, 718
AsuHPI	GGTGA	1 cut(s)	625
AvaII	GGWCC	3 cut(s)	250, 289, 691
BamHI	GGATCC	1 cut(s)	187
BanI	GGYRCC	1 cut(s)	201
BanII	GRGCYC	1 cut(s)	768
BauI	CACGAG	1 cut(s)	494
Bbv12I	GWGCWC	2 cut(s)	673, 768
BbvI	GCAGC	3 cut(s)	390, 579, 583
BccI	CCATC	2 cut(s)	401, 776
BcgI	CGANNNNNNTGC	2 cut(s)	191, 225
BciT130I	CCWGG	4 cut(s)	206, 269, 554, 704
BciVI	GTATCC	1 cut(s)	542
BcnI	CCSGG	6 cut(s)	159, 437, 597, 611, 695, 718
BcoDI	GTCTC	1 cut(s)	348
BfaI	CTAG	1 cut(s)	818
BfuI	GTATCC	1 cut(s)	542
BisI	GCNGC	7 cut(s)	41, 295, 404, 407, 410, 572, 593
BlsI	GCNGC	7 cut(s)	42, 296, 405, 408, 411, 573, 594
Bme18I	GGWCC	3 cut(s)	250, 289, 691
BmgBI	CACGTC	4 cut(s)	364, 511, 516, 646
BmgT120I	GGNCC	6 cut(s)	75, 174, 250, 289, 490, 691
BmiI	GGNNCC	3 cut(s)	189, 203, 631
BpuEI	CTTGAG	1 cut(s)	221
BpuMI	CCSGG	6 cut(s)	159, 437, 597, 611, 695, 718
Bsa29I	ATCGAT	1 cut(s)	420
BsaHI	GRCGYC	1 cut(s)	162
BsaJI	CCNNGG	3 cut(s)	141, 183, 292
BsaWI	WCCGGW	1 cut(s)	632
BsaXI	ACNNNNNCTCC	2 cut(s)	314, 344
Bsc4I	CCNNNNNNNGG	3 cut(s)	205, 314, 616
Bse118I	RCCGGY	1 cut(s)	252
BseAI	TCCGGA	1 cut(s)	632
BseBI	CCWGG	4 cut(s)	206, 269, 554, 704
BseCI	ATCGAT	1 cut(s)	420
BseDI	CCNNGG	3 cut(s)	141, 183, 292
BseLI	CCNNNNNNNGG	3 cut(s)	205, 314, 616
BseRI	GAGGAG	4 cut(s)	4, 7, 10, 602
BseXI	GCAGC	3 cut(s)	390, 579, 583
BseYI	CCCAGC	1 cut(s)	468
Bsh1236I	CGCG	3 cut(s)	294, 383, 536
Bsh1285I	CGRYCG	1 cut(s)	68
BshFI	GGCC	4 cut(s)	77, 175, 492, 707
BshNI	GGYRCC	1 cut(s)	201
BshVI	ATCGAT	1 cut(s)	420
BsiEI	CGRYCG	1 cut(s)	68
BsiHKAI	GWGCWC	2 cut(s)	673, 768
BsiWI	CGTACG	1 cut(s)	537
BslFI	GGGAC	1 cut(s)	452
BslI	CCNNNNNNNGG	3 cut(s)	205, 314, 616
BsmAI	GTCTC	1 cut(s)	348
BsmFI	GGGAC	1 cut(s)	452
BsnI	GGCC	4 cut(s)	77, 175, 492, 707
Bsp1286I	GDGCHC	2 cut(s)	673, 768
Bsp13I	TCCGGA	1 cut(s)	632
Bsp19I	CCATGG	1 cut(s)	141
BspACI	CCGC	7 cut(s)	38, 41, 292, 294, 297, 406, 409
BspANI	GGCC	4 cut(s)	77, 175, 492, 707
BspDI	ATCGAT	1 cut(s)	420
BspEI	TCCGGA	1 cut(s)	632
BspFNI	CGCG	3 cut(s)	294, 383, 536
BspLI	GGNNCC	3 cut(s)	189, 203, 631
BspQI	GCTCTTC	1 cut(s)	773
BspT107I	GGYRCC	1 cut(s)	201
BsrFI	RCCGGY	1 cut(s)	252
BssAI	RCCGGY	1 cut(s)	252
BssECI	CCNNGG	3 cut(s)	141, 183, 292
BssNI	GRCGYC	1 cut(s)	162
BssSI	CACGAG	1 cut(s)	494
BssT1I	CCWWGG	1 cut(s)	141
Bst2BI	CACGAG	1 cut(s)	494
Bst2UI	CCWGG	4 cut(s)	206, 269, 554, 704
Bst6I	CTCTTC	1 cut(s)	773
BstACI	GRCGYC	1 cut(s)	162
BstAPI	GCANNNNNTGC	1 cut(s)	580
BstC8I	GCNNGC	3 cut(s)	576, 744, 802
BstDSI	CCRYGG	2 cut(s)	141, 292
BstFNI	CGCG	3 cut(s)	294, 383, 536
BstHHI	GCGC	3 cut(s)	385, 432, 536
BstMAI	GTCTC	1 cut(s)	348
BstMCI	CGRYCG	1 cut(s)	68
BstMWI	GCNNNNNNNGC	6 cut(s)	409, 498, 568, 580, 589, 713
BstNI	CCWGG	4 cut(s)	206, 269, 554, 704
BstNSI	RCATGY	1 cut(s)	746
BstUI	CGCG	3 cut(s)	294, 383, 536
BstV1I	GCAGC	3 cut(s)	390, 579, 583
BstX2I	RGATCY	2 cut(s)	105, 187
BstYI	RGATCY	2 cut(s)	105, 187
Bsu15I	ATCGAT	1 cut(s)	420
BsuI	GTATCC	1 cut(s)	542
BsuRI	GGCC	4 cut(s)	77, 175, 492, 707
BsuTUI	ATCGAT	1 cut(s)	420
BtgI	CCRYGG	2 cut(s)	141, 292
BtrI	CACGTC	4 cut(s)	364, 511, 516, 646
Cac8I	GCNNGC	3 cut(s)	576, 744, 802
CfoI	GCGC	3 cut(s)	385, 432, 536
Cfr10I	RCCGGY	1 cut(s)	252
Cfr13I	GGNCC	6 cut(s)	75, 174, 250, 289, 490, 691
Cfr42I	CCGCGG	1 cut(s)	295
ClaI	ATCGAT	1 cut(s)	420
CpoI	CGGWCCG	1 cut(s)	289
CseI	GACGC	2 cut(s)	151, 577
CsiI	ACCWGGT	1 cut(s)	552
Csp6I	GTAC	4 cut(s)	457, 538, 640, 796
CspI	CGGWCCG	1 cut(s)	289
CviAII	CATG	2 cut(s)	142, 743
CviQI	GTAC	4 cut(s)	457, 538, 640, 796
Eam1104I	CTCTTC	1 cut(s)	773
EarI	CTCTTC	1 cut(s)	773
Ecl136II	GAGCTC	1 cut(s)	766
Eco130I	CCWWGG	1 cut(s)	141
Eco147I	AGGCCT	1 cut(s)	707
Eco24I	GRGCYC	1 cut(s)	768
Eco47I	GGWCC	3 cut(s)	250, 289, 691
Eco53kI	GAGCTC	1 cut(s)	766
Eco57I	CTGAAG	1 cut(s)	33
EcoICRI	GAGCTC	1 cut(s)	766
EcoRI	GAATTC	2 cut(s)	125, 341
EcoRII	CCWGG	4 cut(s)	204, 267, 552, 702
EcoT14I	CCWWGG	1 cut(s)	141
EcoT38I	GRGCYC	1 cut(s)	768
ErhI	CCWWGG	1 cut(s)	141
FaeI	CATG	2 cut(s)	145, 746
FaiI	YATR	6 cut(s)	73, 143, 333, 681, 744, 813
FalI	AAGNNNNNCTT	2 cut(s)	608, 640
FaqI	GGGAC	1 cut(s)	452
FatI	CATG	2 cut(s)	141, 742
FauI	CCCGC	2 cut(s)	45, 290
Fnu4HI	GCNGC	7 cut(s)	41, 295, 404, 407, 410, 572, 593
FriOI	GRGCYC	1 cut(s)	768
Fsp4HI	GCNGC	7 cut(s)	41, 295, 404, 407, 410, 572, 593
FspBI	CTAG	1 cut(s)	818
GlaI	GCGC	3 cut(s)	384, 431, 535
GluI	GCNGC	7 cut(s)	41, 295, 404, 407, 410, 572, 593
GsaI	CCCAGC	1 cut(s)	472
HaeIII	GGCC	4 cut(s)	77, 175, 492, 707
HgaI	GACGC	2 cut(s)	151, 577
HhaI	GCGC	3 cut(s)	385, 432, 536
Hin1I	GRCGYC	1 cut(s)	162
Hin1II	CATG	2 cut(s)	145, 746
Hin6I	GCGC	3 cut(s)	383, 430, 534
HinP1I	GCGC	3 cut(s)	383, 430, 534
HincII	GTYRAC	1 cut(s)	567
HindII	GTYRAC	1 cut(s)	567
HinfI	GANTC	6 cut(s)	60, 259, 280, 389, 452, 600
HphI	GGTGA	1 cut(s)	625
Hpy166II	GTNNAC	2 cut(s)	250, 567
Hpy188III	TCNNGA	7 cut(s)	130, 604, 633, 733, 751, 818, 828
Hpy8I	GTNNAC	2 cut(s)	250, 567
Hpy99I	CGWCG	7 cut(s)	92, 95, 125, 167, 365, 490, 647
HpyAV	CCTTC	2 cut(s)	54, 610
HpyCH4IV	ACGT	6 cut(s)	246, 363, 510, 515, 524, 645
HpyCH4V	TGCA	2 cut(s)	501, 742
HpyF10VI	GCNNNNNNNGC	6 cut(s)	409, 498, 568, 580, 589, 713
HpySE526I	ACGT	6 cut(s)	246, 363, 510, 515, 524, 645
Hsp92I	GRCGYC	1 cut(s)	162
Hsp92II	CATG	2 cut(s)	145, 746
HspAI	GCGC	3 cut(s)	383, 430, 534
Kpn2I	TCCGGA	1 cut(s)	632
KspI	CCGCGG	1 cut(s)	295
LguI	GCTCTTC	1 cut(s)	773
LmnI	GCTCC	1 cut(s)	589
Lsp1109I	GCAGC	3 cut(s)	390, 579, 583
MabI	ACCWGGT	1 cut(s)	552
MaeI	CTAG	1 cut(s)	818
MaeII	ACGT	6 cut(s)	246, 363, 510, 515, 524, 645
MaeIII	GTNAC	2 cut(s)	371, 511
MboII	GAAGA	2 cut(s)	39, 760
MflI	RGATCY	2 cut(s)	105, 187
MhlI	GDGCHC	2 cut(s)	673, 768
MluCI	AATT	6 cut(s)	125, 193, 301, 341, 346, 461
MlyI	GAGTC	3 cut(s)	274, 383, 446
MmeI	TCCRAC	1 cut(s)	702
MroI	TCCGGA	1 cut(s)	632
MroXI	GAANNNNTTC	1 cut(s)	620
MseI	TTAA	1 cut(s)	710
MslI	CAYNNNNRTG	1 cut(s)	678
MspA1I	CMGCKG	2 cut(s)	294, 472
MvaI	CCWGG	4 cut(s)	206, 269, 554, 704
MvnI	CGCG	3 cut(s)	294, 383, 536
MwoI	GCNNNNNNNGC	6 cut(s)	409, 498, 568, 580, 589, 713
NciI	CCSGG	6 cut(s)	159, 437, 597, 611, 695, 718
NcoI	CCATGG	1 cut(s)	141
NlaIII	CATG	2 cut(s)	145, 746
NlaIV	GGNNCC	3 cut(s)	189, 203, 631
NmeAIII	GCCGAG	1 cut(s)	208
NmuCI	GTSAC	2 cut(s)	371, 511
NspI	RCATGY	1 cut(s)	746
PaeI	GCATGC	1 cut(s)	746
PceI	AGGCCT	1 cut(s)	707
PciSI	GCTCTTC	1 cut(s)	773
PcsI	WCGNNNNNNNCGW	4 cut(s)	96, 393, 501, 521
PdmI	GAANNNNTTC	1 cut(s)	620
PfeI	GAWTC	3 cut(s)	60, 259, 600
Pfl23II	CGTACG	1 cut(s)	537
PkrI	GCNGC	7 cut(s)	42, 296, 405, 408, 411, 573, 594
Ple19I	CGATCG	1 cut(s)	68
PleI	GAGTC	3 cut(s)	274, 383, 446
PpsI	GAGTC	3 cut(s)	274, 383, 446
Psp124BI	GAGCTC	1 cut(s)	768
Psp6I	CCWGG	4 cut(s)	204, 267, 552, 702
PspFI	CCCAGC	1 cut(s)	468
PspGI	CCWGG	4 cut(s)	204, 267, 552, 702
PspLI	CGTACG	1 cut(s)	537
PspN4I	GGNNCC	3 cut(s)	189, 203, 631
PspPI	GGNCC	6 cut(s)	75, 174, 250, 289, 490, 691
PsuI	RGATCY	2 cut(s)	105, 187
PvuI	CGATCG	1 cut(s)	68
PvuII	CAGCTG	1 cut(s)	472
RsaI	GTAC	4 cut(s)	458, 539, 641, 797
RsaNI	GTAC	4 cut(s)	457, 538, 640, 796
RseI	CAYNNNNRTG	1 cut(s)	678
Rsr2I	CGGWCCG	1 cut(s)	289
RsrII	CGGWCCG	1 cut(s)	289
SacI	GAGCTC	1 cut(s)	768
SacII	CCGCGG	1 cut(s)	295
SapI	GCTCTTC	1 cut(s)	773
SaqAI	TTAA	1 cut(s)	710
SatI	GCNGC	7 cut(s)	41, 295, 404, 407, 410, 572, 593
Sau96I	GGNCC	6 cut(s)	75, 174, 250, 289, 490, 691
SchI	GAGTC	3 cut(s)	274, 383, 446
SduI	GDGCHC	2 cut(s)	673, 768
SexAI	ACCWGGT	1 cut(s)	552
Sfr303I	CCGCGG	1 cut(s)	295
SgrBI	CCGCGG	1 cut(s)	295
SinI	GGWCC	3 cut(s)	250, 289, 691
SmiMI	CAYNNNNRTG	1 cut(s)	678
SmlI	CTYRAG	1 cut(s)	236
SmoI	CTYRAG	1 cut(s)	236
SphI	GCATGC	1 cut(s)	746
Sse9I	AATT	6 cut(s)	125, 193, 301, 341, 346, 461
SseBI	AGGCCT	1 cut(s)	707
SsiI	CCGC	7 cut(s)	38, 41, 292, 294, 297, 406, 409
SspMI	CTAG	1 cut(s)	818
SstI	GAGCTC	1 cut(s)	768
StuI	AGGCCT	1 cut(s)	707
StyI	CCWWGG	1 cut(s)	141
TaiI	ACGT	6 cut(s)	249, 366, 513, 518, 527, 648
TaqI	TCGA	8 cut(s)	87, 99, 120, 360, 396, 420, 426, 450
TasI	AATT	6 cut(s)	125, 193, 301, 341, 346, 461
TauI	GCSGC	4 cut(s)	43, 297, 409, 412
TfiI	GAWTC	3 cut(s)	60, 259, 600
Tru1I	TTAA	1 cut(s)	710
Tru9I	TTAA	1 cut(s)	710
TseFI	GTSAC	2 cut(s)	371, 511
TseI	GCWGC	3 cut(s)	403, 571, 592
Tsp45I	GTSAC	2 cut(s)	371, 511
TspGWI	ACGGA	2 cut(s)	103, 164
VpaK11BI	GGWCC	3 cut(s)	250, 289, 691
XapI	RAATTY	5 cut(s)	125, 193, 301, 341, 461
XbaI	TCTAGA	1 cut(s)	817
XceI	RCATGY	1 cut(s)	746
XmnI	GAANNNNTTC	1 cut(s)	620
XspI	CTAG	1 cut(s)	818

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