Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0012715

Physical Location & Seq

Genomic Coordinates Reverse (-)

53726359 .. 53727183

Gene Structure 825 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG362600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 825 bp

ATGCCTCTCTTACCGAAAAGCGACTCGATCCTAATTCGGGAAGTGTGGAACGACAATCTCTACGACGAGTTTGAATTGATACGCAAAATCGTCGACGACTATCCTTATGTCGCCATGGACACCGAGTTCCCCGGCATTGTTCTTCGCCCCGTCGGCAACTTCAAGAACAGCTACGACTACCATTACCAGACCTTGAAGGACAACGTAGACATGCTCAAGTTGATTCAGTTGGGTCTTACGTTTTCGGACGAGGAAGGGAACCTGCCCACTTGCGGGACTGATCAGCAGTGTATCTGGCAGTTCAATTTCCGCGAATTCAATCTCAACGAGGATGTTTTTGCGAATGATTCGATCGAGCTGTTGCGACAGAGCGGAATTGATTTCAAGAAGAACAATGAAAGAGGTATTGATGCAAAGTTGTTTGGGGAGCTGTTGATGTCGTCGGGGATTGTGTTGAATGATAATGTGCATTGGGTTACTTTCCATAGTGGATATGATTTCGGGTACCTGCTTAAGGTCTTGACGTGCCAGAATCTGCCTGATACGCAAGTGGGGTTCTTTAACTTGATCAATATATACTTTCCGACGATATATGATATCAAGCATCTGATGAAGTTTTGCAATAGCCTTCATGGGGGACTGAACAAGCTGGCCGAGTTGTTGGAAGTGGAGAGAGTAGGGATTTGTCACCAGGCAGGTTCCGATAGTTTGCTCACTTCTTGTACATTCAGAAAATTGAAAGAGAATTTCTTTAGTGGTTCTTTGGACAAGTATGCTGGTGTCTTGTATGGTTTAGGTGTTGAGAATGGACAGAGCACTCATTAG

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

274

Amino Acids

31.38

Weight (kDa)

4.85

Isoelectric Point (pI)

28.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	15 - 136	5.9e-13	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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Orthologous Genes (Group: OG0012715)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G80780 AT1G80780 AT1G80780 AT2G32070
fragaria_vesca	FvH4_6g28750
malus_domestica	MD17G1222200.v1.1
prunus_persica	Prupe.3G097100_v2.0.a1
pyrus_communis	pycom09g14370 pycom17g22590
rosa_chinensis	RchiOBHm_Chr2g0133151
rosa_laevigata	RLG00000019312
rosa_roxburghii	Rroxscaffold_2G00111360
rosa_rugosa	Rorug02G0310300
rosa_samantha	Rh2AG362600 Rh2BG368200 Rh2CG345800 Rh2DG385500
rosa_wichuraiana	Rw2G029480

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	3 cut(s)	270, 516, 686
Acc65I	GGTACC	1 cut(s)	504
AccB1I	GGYRCC	1 cut(s)	504
AccBSI	CCGCTC	1 cut(s)	372
AccI	GTMKAC	2 cut(s)	93, 207
AccII	CGCG	1 cut(s)	312
AciI	CCGC	3 cut(s)	273, 310, 372
AclWI	GGATC	1 cut(s)	22
AcoI	YGGCCR	1 cut(s)	651
AcsI	RAATTY	2 cut(s)	314, 745
AfaI	GTAC	2 cut(s)	506, 724
AfiI	CCNNNNNNNGG	5 cut(s)	37, 272, 273, 514, 634
AflII	CTTAAG	1 cut(s)	512
AgsI	TTSAA	8 cut(s)	74, 163, 196, 304, 319, 385, 457, 739
AjiI	CACGTC	1 cut(s)	525
AjnI	CCWGG	1 cut(s)	690
AloI	GAACNNNNNNTCC	2 cut(s)	110, 142
AluBI	AGCT	4 cut(s)	171, 358, 430, 649
AluI	AGCT	4 cut(s)	171, 358, 430, 649
Alw21I	GWGCWC	1 cut(s)	818
AlwI	GGATC	1 cut(s)	22
AlwNI	CAGNNNCTG	1 cut(s)	535
AoxI	GGCC	1 cut(s)	651
ApoI	RAATTY	2 cut(s)	314, 745
Asp718I	GGTACC	1 cut(s)	504
AsuC2I	CCSGG	1 cut(s)	132
AsuHPI	GGTGA	1 cut(s)	680
BaeI	ACNNNNGTAYC	2 cut(s)	534, 567
BanI	GGYRCC	1 cut(s)	504
Bbv12I	GWGCWC	1 cut(s)	818
BcgI	CGANNNNNNTGC	2 cut(s)	73, 107
BciT130I	CCWGG	1 cut(s)	692
BclI	TGATCA	2 cut(s)	280, 567
BcnI	CCSGG	1 cut(s)	132
BfrI	CTTAAG	1 cut(s)	512
BfuAI	ACCTGC	3 cut(s)	270, 516, 686
BglI	GCCNNNNNGGC	1 cut(s)	153
Bme1390I	CCNGG	2 cut(s)	132, 692
BmgBI	CACGTC	1 cut(s)	525
BmiI	GGNNCC	3 cut(s)	260, 506, 700
BmrFI	CCNGG	2 cut(s)	132, 692
BmsI	GCATC	2 cut(s)	400, 613
BpuEI	CTTGAG	1 cut(s)	200
BpuMI	CCSGG	1 cut(s)	132
BsaJI	CCNNGG	2 cut(s)	114, 130
Bsc4I	CCNNNNNNNGG	5 cut(s)	37, 272, 273, 514, 634
BseBI	CCWGG	1 cut(s)	692
BseDI	CCNNGG	2 cut(s)	114, 130
BseGI	GGATG	1 cut(s)	337
BseLI	CCNNNNNNNGG	5 cut(s)	37, 272, 273, 514, 634
Bsh1236I	CGCG	1 cut(s)	312
Bsh1285I	CGRYCG	1 cut(s)	354
BshFI	GGCC	1 cut(s)	653
BshNI	GGYRCC	1 cut(s)	504
BsiEI	CGRYCG	1 cut(s)	354
BsiHKAI	GWGCWC	1 cut(s)	818
BsiSI	CCGG	1 cut(s)	132
BslFI	GGGAC	2 cut(s)	289, 651
BslI	CCNNNNNNNGG	5 cut(s)	37, 272, 273, 514, 634
BsmFI	GGGAC	2 cut(s)	289, 651
BsnI	GGCC	1 cut(s)	653
Bsp1286I	GDGCHC	1 cut(s)	818
Bsp1407I	TGTACA	1 cut(s)	722
Bsp143I	GATC	4 cut(s)	27, 280, 351, 567
Bsp19I	CCATGG	1 cut(s)	114
BspACI	CCGC	3 cut(s)	273, 310, 372
BspANI	GGCC	1 cut(s)	653
BspFNI	CGCG	1 cut(s)	312
BspLI	GGNNCC	3 cut(s)	260, 506, 700
BspMI	ACCTGC	3 cut(s)	270, 516, 686
BspPI	GGATC	1 cut(s)	22
BspT107I	GGYRCC	1 cut(s)	504
BspTI	CTTAAG	1 cut(s)	512
BsrBI	CCGCTC	1 cut(s)	372
BsrGI	TGTACA	1 cut(s)	722
BssECI	CCNNGG	2 cut(s)	114, 130
BssMI	GATC	4 cut(s)	27, 280, 351, 567
BssT1I	CCWWGG	1 cut(s)	114
Bst2UI	CCWGG	1 cut(s)	692
BstAFI	CTTAAG	1 cut(s)	512
BstAUI	TGTACA	1 cut(s)	722
BstC8I	GCNNGC	1 cut(s)	651
BstDSI	CCRYGG	1 cut(s)	114
BstENI	CCTNNNNNAGG	1 cut(s)	512
BstF5I	GGATG	1 cut(s)	337
BstFNI	CGCG	1 cut(s)	312
BstKTI	GATC	4 cut(s)	30, 283, 354, 570
BstMBI	GATC	4 cut(s)	27, 280, 351, 567
BstMCI	CGRYCG	1 cut(s)	354
BstMWI	GCNNNNNNNGC	2 cut(s)	153, 544
BstNI	CCWGG	1 cut(s)	692
BstNSI	RCATGY	1 cut(s)	214
BstSCI	CCNGG	2 cut(s)	130, 690
BstUI	CGCG	1 cut(s)	312
BsuRI	GGCC	1 cut(s)	653
BtgI	CCRYGG	1 cut(s)	114
BtrI	CACGTC	1 cut(s)	525
BtsCI	GGATG	1 cut(s)	337
BtsI	GCAGTG	1 cut(s)	293
BtsIMutI	CAGTG	1 cut(s)	293
BveI	ACCTGC	3 cut(s)	270, 516, 686
Cac8I	GCNNGC	1 cut(s)	651
CaiI	CAGNNNCTG	1 cut(s)	535
Csp6I	GTAC	2 cut(s)	505, 723
CviAII	CATG	3 cut(s)	115, 211, 632
CviJI	RGCY	6 cut(s)	171, 358, 430, 627, 649, 653
CviKI_1	RGCY	6 cut(s)	171, 358, 430, 627, 649, 653
CviQI	GTAC	2 cut(s)	505, 723
DpnI	GATC	4 cut(s)	29, 282, 353, 569
DpnII	GATC	4 cut(s)	27, 280, 351, 567
EaeI	YGGCCR	1 cut(s)	651
Eco130I	CCWWGG	1 cut(s)	114
Eco32I	GATATC	1 cut(s)	598
EcoNI	CCTNNNNNAGG	1 cut(s)	512
EcoRI	GAATTC	1 cut(s)	314
EcoRII	CCWGG	1 cut(s)	690
EcoRV	GATATC	1 cut(s)	598
EcoT14I	CCWWGG	1 cut(s)	114
ErhI	CCWWGG	1 cut(s)	114
FaeI	CATG	3 cut(s)	118, 214, 635
FaqI	GGGAC	2 cut(s)	289, 651
FatI	CATG	3 cut(s)	114, 210, 631
FauI	CCCGC	1 cut(s)	266
FbaI	TGATCA	2 cut(s)	280, 567
FblI	GTMKAC	2 cut(s)	93, 207
FokI	GGATG	1 cut(s)	344
HaeIII	GGCC	1 cut(s)	653
HapII	CCGG	1 cut(s)	132
Hin1II	CATG	3 cut(s)	118, 214, 635
HincII	GTYRAC	1 cut(s)	94
HindII	GTYRAC	1 cut(s)	94
HinfI	GANTC	4 cut(s)	23, 223, 347, 532
HpaII	CCGG	1 cut(s)	132
HphI	GGTGA	1 cut(s)	680
Hpy166II	GTNNAC	2 cut(s)	94, 208
Hpy188I	TCNGA	5 cut(s)	247, 585, 609, 703, 731
Hpy188III	TCNNGA	4 cut(s)	38, 163, 385, 520
Hpy8I	GTNNAC	2 cut(s)	94, 208
Hpy99I	CGWCG	6 cut(s)	68, 95, 98, 155, 445, 589
HpyAV	CCTTC	3 cut(s)	190, 248, 638
HpyCH4IV	ACGT	3 cut(s)	204, 239, 524
HpyCH4V	TGCA	3 cut(s)	413, 469, 621
HpyF10VI	GCNNNNNNNGC	2 cut(s)	153, 544
HpySE526I	ACGT	3 cut(s)	204, 239, 524
Hsp92II	CATG	3 cut(s)	118, 214, 635
KpnI	GGTACC	1 cut(s)	508
Ksp22I	TGATCA	2 cut(s)	280, 567
Kzo9I	GATC	4 cut(s)	27, 280, 351, 567
LmnI	GCTCC	1 cut(s)	427
LweI	GCATC	2 cut(s)	400, 613
MaeII	ACGT	3 cut(s)	204, 239, 524
MaeIII	GTNAC	2 cut(s)	475, 686
MalI	GATC	4 cut(s)	29, 282, 353, 569
MbiI	CCGCTC	1 cut(s)	372
MboI	GATC	4 cut(s)	27, 280, 351, 567
MboII	GAAGA	2 cut(s)	134, 400
MhlI	GDGCHC	1 cut(s)	818
MluCI	AATT	7 cut(s)	33, 74, 304, 314, 375, 734, 745
MlyI	GAGTC	1 cut(s)	17
MmeI	TCCRAC	2 cut(s)	608, 642
MnlI	CCTC	4 cut(s)	15, 244, 322, 395
MseI	TTAA	2 cut(s)	513, 561
MspCI	CTTAAG	1 cut(s)	512
MspI	CCGG	1 cut(s)	132
MspR9I	CCNGG	2 cut(s)	132, 692
MvaI	CCWGG	1 cut(s)	692
MvnI	CGCG	1 cut(s)	312
MwoI	GCNNNNNNNGC	2 cut(s)	153, 544
NciI	CCSGG	1 cut(s)	132
NcoI	CCATGG	1 cut(s)	114
NdeII	GATC	4 cut(s)	27, 280, 351, 567
NlaIII	CATG	3 cut(s)	118, 214, 635
NlaIV	GGNNCC	3 cut(s)	260, 506, 700
NmeAIII	GCCGAG	1 cut(s)	679
NmuCI	GTSAC	1 cut(s)	686
NspI	RCATGY	1 cut(s)	214
PfeI	GAWTC	3 cut(s)	223, 347, 532
Ple19I	CGATCG	1 cut(s)	354
PleI	GAGTC	1 cut(s)	17
PpsI	GAGTC	1 cut(s)	17
Psp6I	CCWGG	1 cut(s)	690
PspGI	CCWGG	1 cut(s)	690
PspN4I	GGNNCC	3 cut(s)	260, 506, 700
PstNI	CAGNNNCTG	1 cut(s)	535
PvuI	CGATCG	1 cut(s)	354
RsaI	GTAC	2 cut(s)	506, 724
RsaNI	GTAC	2 cut(s)	505, 723
SalI	GTCGAC	1 cut(s)	92
SaqAI	TTAA	2 cut(s)	513, 561
Sau3AI	GATC	4 cut(s)	27, 280, 351, 567
SchI	GAGTC	1 cut(s)	17
ScrFI	CCNGG	2 cut(s)	132, 692
SduI	GDGCHC	1 cut(s)	818
SfaNI	GCATC	2 cut(s)	400, 613
SgrDI	CGTCGACG	1 cut(s)	92
SmlI	CTYRAG	2 cut(s)	215, 512
SmoI	CTYRAG	2 cut(s)	215, 512
Sse9I	AATT	7 cut(s)	33, 74, 304, 314, 375, 734, 745
SsiI	CCGC	3 cut(s)	273, 310, 372
StyD4I	CCNGG	2 cut(s)	130, 690
StyI	CCWWGG	1 cut(s)	114
TaiI	ACGT	3 cut(s)	207, 242, 527
TaqI	TCGA	4 cut(s)	26, 93, 350, 354
TasI	AATT	7 cut(s)	33, 74, 304, 314, 375, 734, 745
TatI	WGTACW	1 cut(s)	722
TfiI	GAWTC	3 cut(s)	223, 347, 532
Tru1I	TTAA	2 cut(s)	513, 561
Tru9I	TTAA	2 cut(s)	513, 561
TscAI	CASTG	1 cut(s)	293
TseFI	GTSAC	1 cut(s)	686
Tsp45I	GTSAC	1 cut(s)	686
TspDTI	ATGAA	3 cut(s)	411, 620, 626
TspRI	CASTG	1 cut(s)	293
Vha464I	CTTAAG	1 cut(s)	512
XagI	CCTNNNNNAGG	1 cut(s)	512
XapI	RAATTY	2 cut(s)	314, 745
XceI	RCATGY	1 cut(s)	214
XmiI	GTMKAC	2 cut(s)	93, 207

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