Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0014895

Physical Location & Seq

Genomic Coordinates Forward (+)

63645296 .. 63647880

Gene Structure 2585 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG410400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 825 bp

ATGTCAATTTTGCCGAAAGGGGATTCGATTCAAATCCGGGAGGTGTGGAATGATAATCTTGAGGAAGAGTTTCATATAATCCGTGGTATTGTTGACAAGTATAACTATGTTGCTATGGATACCGAGTTCCCTGGGGTGGTTCTTCGCCCTGTGGGGGCCTTTAAGAACATCAGTGATTACAACTATCAGACCCTGAAAGACAATGTTGATATGTTGAAATTGATTCAGTTGGGCCTCACTTTCTCGGATGAGAATGGGAACCTGCCTACTTGTGGAACCGAAAACTTTTTCATTTGGCAGTTCAATTTCCGCGAGTTCAATGTCACCGAGGACATCTTTGCCAGCGATTCCATTGAGTTGTTGCGTCAATGTGGGATTGACTTCAAGAAGAACAGCGAGAAGGGTATTGATGTGAATCGGTTTGCTGAGCTTTTGATGTCTTCAGGGATTGTGTTGAATGATGCTGTGCATTGGGTCACCTTCCATAGCGGGTATGATTTTGGATACCTGCTCAAGCTATTGACTTGTAGGAGTTTGCCCGACACGCAAGCCGGTTTCTTTGATTTGATCAAGATATACTTCCCAATGGTGTATGATATCAAGCATTTGATGAAGTTTTGCAACAGCCTCCATGGTGGGTTGAACAAGCTTGCAGAACTGTTGGATGTGGAAAGAGTTGGTGTGTGCCATCAAGCAGGCTCGGACAGTTTGCTTACAGCTTGCACCTTTAGGAAATTGAGGGATACCTTCTTCAGTGGCTCTACCGAGAAATATGCAGGTGTTTTGTATGGTCTGGGTGTTGAAAATGGACAGAGTACTAATTGA

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

31.12

Weight (kDa)

5.0

Isoelectric Point (pI)

30.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CAF1	PF04857	15 - 136	4.3e-14	CAF1 family ribonuclease
CAF1	PF04857	157 - 243	8.3e-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)

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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)	767
Acc36I	ACCTGC	3 cut(s)	270, 516, 767
AccII	CGCG	1 cut(s)	312
AciI	CCGC	2 cut(s)	310, 489
AcuI	CTGAAG	2 cut(s)	426, 736
AfaI	GTAC	1 cut(s)	817
AfiI	CCNNNNNNNGG	3 cut(s)	136, 154, 272
AgsI	TTSAA	8 cut(s)	32, 217, 304, 319, 385, 457, 643, 803
AjnI	CCWGG	1 cut(s)	130
AloI	GAACNNNNNNTCC	2 cut(s)	110, 142
AluBI	AGCT	4 cut(s)	430, 517, 649, 719
AluI	AGCT	4 cut(s)	430, 517, 649, 719
AlwNI	CAGNNNCTG	1 cut(s)	193
AoxI	GGCC	2 cut(s)	156, 232
Asp700I	GAANNNNTTC	1 cut(s)	69
AspS9I	GGNCC	2 cut(s)	156, 232
AsuC2I	CCSGG	1 cut(s)	38
AsuHPI	GGTGA	2 cut(s)	316, 469
BbsI	GAAGAC	1 cut(s)	432
BccI	CCATC	1 cut(s)	696
BcgI	CGANNNNNNTGC	2 cut(s)	755, 789
BciT130I	CCWGG	1 cut(s)	132
BciVI	GTATCC	3 cut(s)	112, 497, 736
BclI	TGATCA	1 cut(s)	567
BcnI	CCSGG	1 cut(s)	38
BfuAI	ACCTGC	3 cut(s)	270, 516, 767
BfuI	GTATCC	3 cut(s)	112, 497, 736
BlpI	GCTNAGC	1 cut(s)	426
BmcAI	AGTACT	1 cut(s)	817
Bme1390I	CCNGG	2 cut(s)	38, 132
BmgT120I	GGNCC	2 cut(s)	156, 232
BmiI	GGNNCC	3 cut(s)	157, 260, 277
BmrFI	CCNGG	2 cut(s)	38, 132
BmsI	GCATC	1 cut(s)	451
BpiI	GAAGAC	1 cut(s)	432
Bpu1102I	GCTNAGC	1 cut(s)	426
BpuEI	CTTGAG	2 cut(s)	80, 497
BpuMI	CCSGG	1 cut(s)	38
BsaBI	GATNNNNATC	2 cut(s)	32, 414
BsaJI	CCNNGG	5 cut(s)	82, 130, 131, 327, 631
Bsc4I	CCNNNNNNNGG	3 cut(s)	136, 154, 272
Bse118I	RCCGGY	1 cut(s)	551
Bse8I	GATNNNNATC	2 cut(s)	32, 414
BseBI	CCWGG	1 cut(s)	132
BseDI	CCNNGG	5 cut(s)	82, 130, 131, 327, 631
BseGI	GGATG	2 cut(s)	253, 670
BseJI	GATNNNNATC	2 cut(s)	32, 414
BseLI	CCNNNNNNNGG	3 cut(s)	136, 154, 272
BseMII	CTCAG	1 cut(s)	417
Bsh1236I	CGCG	1 cut(s)	312
BshFI	GGCC	2 cut(s)	158, 234
BsiSI	CCGG	2 cut(s)	37, 552
BslI	CCNNNNNNNGG	3 cut(s)	136, 154, 272
BsnI	GGCC	2 cut(s)	158, 234
Bsp143I	GATC	1 cut(s)	567
Bsp1720I	GCTNAGC	1 cut(s)	426
Bsp19I	CCATGG	1 cut(s)	631
BspACI	CCGC	2 cut(s)	310, 489
BspANI	GGCC	2 cut(s)	158, 234
BspCNI	CTCAG	1 cut(s)	418
BspFNI	CGCG	1 cut(s)	312
BspLI	GGNNCC	3 cut(s)	157, 260, 277
BspMI	ACCTGC	3 cut(s)	270, 516, 767
BsrFI	RCCGGY	1 cut(s)	551
BssAI	RCCGGY	1 cut(s)	551
BssECI	CCNNGG	5 cut(s)	82, 130, 131, 327, 631
BssMI	GATC	1 cut(s)	567
BssT1I	CCWWGG	1 cut(s)	631
Bst2UI	CCWGG	1 cut(s)	132
Bst4CI	ACNGT	2 cut(s)	660, 707
Bst6I	CTCTTC	1 cut(s)	60
BstC8I	GCNNGC	5 cut(s)	343, 549, 651, 697, 721
BstDEI	CTNAG	1 cut(s)	426
BstDSI	CCRYGG	2 cut(s)	82, 631
BstEII	GGTNACC	1 cut(s)	475
BstF5I	GGATG	2 cut(s)	253, 670
BstFNI	CGCG	1 cut(s)	312
BstKTI	GATC	1 cut(s)	570
BstMBI	GATC	1 cut(s)	567
BstMWI	GCNNNNNNNGC	1 cut(s)	544
BstNI	CCWGG	1 cut(s)	132
BstPI	GGTNACC	1 cut(s)	475
BstSCI	CCNGG	2 cut(s)	36, 130
BstUI	CGCG	1 cut(s)	312
BstV2I	GAAGAC	1 cut(s)	432
BsuI	GTATCC	3 cut(s)	112, 497, 736
BsuRI	GGCC	2 cut(s)	158, 234
BtgI	CCRYGG	2 cut(s)	82, 631
BtsCI	GGATG	2 cut(s)	253, 670
BtsIMutI	CAGTG	2 cut(s)	178, 760
BveI	ACCTGC	3 cut(s)	270, 516, 767
Cac8I	GCNNGC	5 cut(s)	343, 549, 651, 697, 721
CaiI	CAGNNNCTG	1 cut(s)	193
Cfr10I	RCCGGY	1 cut(s)	551
Cfr13I	GGNCC	2 cut(s)	156, 232
CseI	GACGC	1 cut(s)	353
Csp6I	GTAC	1 cut(s)	816
CviAII	CATG	1 cut(s)	632
CviQI	GTAC	1 cut(s)	816
DdeI	CTNAG	1 cut(s)	426
DpnI	GATC	1 cut(s)	569
DpnII	GATC	1 cut(s)	567
Eam1104I	CTCTTC	1 cut(s)	60
EarI	CTCTTC	1 cut(s)	60
Eco130I	CCWWGG	1 cut(s)	631
Eco32I	GATATC	1 cut(s)	598
Eco57I	CTGAAG	2 cut(s)	426, 736
Eco91I	GGTNACC	1 cut(s)	475
EcoO109I	RGGNCCY	1 cut(s)	156
EcoO65I	GGTNACC	1 cut(s)	475
EcoRII	CCWGG	1 cut(s)	130
EcoRV	GATATC	1 cut(s)	598
EcoT14I	CCWWGG	1 cut(s)	631
ErhI	CCWWGG	1 cut(s)	631
FaeI	CATG	1 cut(s)	635
FalI	AAGNNNNNCTT	2 cut(s)	563, 595
FatI	CATG	1 cut(s)	631
FauI	CCCGC	1 cut(s)	482
FbaI	TGATCA	1 cut(s)	567
FokI	GGATG	2 cut(s)	260, 677
HaeIII	GGCC	2 cut(s)	158, 234
HapII	CCGG	2 cut(s)	37, 552
HgaI	GACGC	1 cut(s)	353
Hin1II	CATG	1 cut(s)	635
HincII	GTYRAC	1 cut(s)	94
HindII	GTYRAC	1 cut(s)	94
HindIII	AAGCTT	1 cut(s)	647
HinfI	GANTC	5 cut(s)	23, 28, 223, 347, 415
HpaII	CCGG	2 cut(s)	37, 552
HphI	GGTGA	2 cut(s)	316, 469
Hpy166II	GTNNAC	1 cut(s)	94
Hpy188I	TCNGA	3 cut(s)	189, 247, 703
Hpy188III	TCNNGA	3 cut(s)	59, 385, 571
Hpy8I	GTNNAC	1 cut(s)	94
HpyAV	CCTTC	3 cut(s)	394, 490, 757
HpyCH4III	ACNGT	2 cut(s)	660, 707
HpyCH4V	TGCA	5 cut(s)	469, 621, 653, 723, 776
HpyF10VI	GCNNNNNNNGC	1 cut(s)	544
HpyF3I	CTNAG	1 cut(s)	426
Hsp92II	CATG	1 cut(s)	635
Ksp22I	TGATCA	1 cut(s)	567
Kzo9I	GATC	1 cut(s)	567
LweI	GCATC	1 cut(s)	451
MaeIII	GTNAC	2 cut(s)	322, 475
MalI	GATC	1 cut(s)	569
MboI	GATC	1 cut(s)	567
MboII	GAAGA	5 cut(s)	77, 134, 400, 432, 742
MluCI	AATT	5 cut(s)	6, 218, 304, 734, 820
MmeI	TCCRAC	1 cut(s)	642
MnlI	CCTC	6 cut(s)	34, 55, 245, 322, 638, 732
MroXI	GAANNNNTTC	1 cut(s)	69
MseI	TTAA	1 cut(s)	162
MspI	CCGG	2 cut(s)	37, 552
MspR9I	CCNGG	2 cut(s)	38, 132
MvaI	CCWGG	1 cut(s)	132
MvnI	CGCG	1 cut(s)	312
MwoI	GCNNNNNNNGC	1 cut(s)	544
NciI	CCSGG	1 cut(s)	38
NcoI	CCATGG	1 cut(s)	631
NdeII	GATC	1 cut(s)	567
NlaIII	CATG	1 cut(s)	635
NlaIV	GGNNCC	3 cut(s)	157, 260, 277
NmuCI	GTSAC	2 cut(s)	322, 475
PaqCI	CACCTGC	1 cut(s)	767
PasI	CCCWGGG	1 cut(s)	131
PdmI	GAANNNNTTC	1 cut(s)	69
PfeI	GAWTC	5 cut(s)	23, 28, 223, 347, 415
PfoI	TCCNGGA	1 cut(s)	36
Psp6I	CCWGG	1 cut(s)	130
PspEI	GGTNACC	1 cut(s)	475
PspGI	CCWGG	1 cut(s)	130
PspN4I	GGNNCC	3 cut(s)	157, 260, 277
PspPI	GGNCC	2 cut(s)	156, 232
PstNI	CAGNNNCTG	1 cut(s)	193
RsaI	GTAC	1 cut(s)	817
RsaNI	GTAC	1 cut(s)	816
SaqAI	TTAA	1 cut(s)	162
Sau3AI	GATC	1 cut(s)	567
Sau96I	GGNCC	2 cut(s)	156, 232
ScaI	AGTACT	1 cut(s)	817
ScrFI	CCNGG	2 cut(s)	38, 132
SfaNI	GCATC	1 cut(s)	451
SmlI	CTYRAG	2 cut(s)	59, 512
SmoI	CTYRAG	2 cut(s)	59, 512
Sse9I	AATT	5 cut(s)	6, 218, 304, 734, 820
SsiI	CCGC	2 cut(s)	310, 489
StyD4I	CCNGG	2 cut(s)	36, 130
StyI	CCWWGG	1 cut(s)	631
TaaI	ACNGT	2 cut(s)	660, 707
TaqI	TCGA	1 cut(s)	26
TasI	AATT	5 cut(s)	6, 218, 304, 734, 820
TatI	WGTACW	1 cut(s)	815
TfiI	GAWTC	5 cut(s)	23, 28, 223, 347, 415
Tru1I	TTAA	1 cut(s)	162
Tru9I	TTAA	1 cut(s)	162
TscAI	CASTG	2 cut(s)	178, 760
TseFI	GTSAC	2 cut(s)	322, 475
Tsp45I	GTSAC	2 cut(s)	322, 475
TspDTI	ATGAA	3 cut(s)	62, 280, 626
TspGWI	ACGGA	1 cut(s)	71
TspRI	CASTG	2 cut(s)	178, 760
XmnI	GAANNNNTTC	1 cut(s)	69
ZrmI	AGTACT	1 cut(s)	817

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