Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0004233

Physical Location & Seq

Genomic Coordinates Reverse (-)

9966015 .. 9969382

Gene Structure 3368 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG068800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGAAGAATTTGTTGGAGCGGGTTGAAACCCGAGAGCAACAGTCCTCGTTTATGCGGGTTCTGAAGCGAATCATAATTCCGCTGAGCAAAACCCAGCCTGGTTATTATGTGATTCAAGTTTGCTTGAAAAATTTCTCTCATGACTGCACCAAGGGTGTTTTGGAATTAGTGCTAGATAACTGCCTTGCATTAGCAAAAGACAAATTTGGGTGTTGCTTAATGCAAAGCAGTGTGCATTATGCGTACACTGAAGCCAAGGAGCGTCTTGTGGCTGACATAACTGAGTATGCTCGAGTCCTCTCTGAAGATCCTTACCGGTTTGTCTTTCACTCTAATTTTTACATAATTGGACTAAAAATACCTCGTGTAACAGCAGACATTTTAGGTCAGCTTCAGGGGTATTTTGTTAATCTGTCGATGAACAAGCATGGAAATAATGTAGTCGAGAAAACCCTGAAAGAAGCTGGAGAAGAACATGCCAATATGATTATTAACGAGATGATTAACAGTCCTAAGTTTCTGAATGTTCTTCAAAATCCTTATGGGAATTATGTTGCTCAATCTGCTCTTGCAGTATCCAAGGGATCTGTTCACAATGCTCTTGTTAACCTCATTCGGAGCAATTACCCTCGCCATCTGTATGGGAAAAGGGTGCTCGACAAAACCAGAGGAGGCAGACATCGTGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PUF zf-CCCH

Protein Analysis

229

Amino Acids

26.09

Weight (kDa)

9.38

Isoelectric Point (pI)

36.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PUF	PF00806	60 - 93	3.4e-06	Pumilio-family RNA binding repeat
PUF	PF00806	134 - 168	1.7e-08	Pumilio-family RNA binding repeat

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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Publication-ready

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Orthologous Genes (Group: OG0004233)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g30780 FvH4_5g30780
malus_domestica	MD05G1093500.v1.1
prunus_persica	Prupe.8G138200_v2.0.a1 Prupe.8G138200_v2.0.a1
pyrus_communis	pycom15g06920
rosa_chinensis	RchiOBHm_Chr6g0254321 RchiOBHm_Chr6g0254351
rosa_laevigata	RLG00000014133 RLG00000014918 RLG00000014919 RLG00000014923 RLG00000014926
rosa_multiflora	Rmu_sc0006565.1_g000002 Rmu_sc0007138.1_g000009 Rmu_sc0027609.1_g000002
rosa_roxburghii	Rroxscaffold_7G00210870 Rroxscaffold_7G00210910 Rroxscaffold_7G00210930
rosa_rugosa	Rorug05G0552000
rosa_samantha	Rh6AG068500 Rh6AG068800 Rh6AG068900 Rh6BG061200 Rh6CG061000 Rh6CG061100 Rh6CG061500 Rh6DG058000 Rh6DG058300 Rh6DG058400 Rh6DG058700
rosa_wichuraiana	Rw6G006000 Rw6G006040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	19
AciI	CCGC	3 cut(s)	19, 55, 80
AclWI	GGATC	2 cut(s)	302, 592
AcsI	RAATTY	3 cut(s)	7, 130, 203
AcuI	CTGAAG	4 cut(s)	83, 270, 324, 377
AfaI	GTAC	1 cut(s)	245
AgeI	ACCGGT	1 cut(s)	315
AgsI	TTSAA	4 cut(s)	26, 116, 127, 533
AjnI	CCWGG	1 cut(s)	97
AjuI	GAANNNNNNNTTGG	1 cut(s)	28
AluBI	AGCT	2 cut(s)	391, 464
AluI	AGCT	2 cut(s)	391, 464
Alw21I	GWGCWC	1 cut(s)	657
AlwI	GGATC	2 cut(s)	302, 592
Ama87I	CYCGRG	2 cut(s)	30, 291
ApoI	RAATTY	3 cut(s)	7, 130, 203
AsiGI	ACCGGT	1 cut(s)	315
Asp700I	GAANNNNTTC	1 cut(s)	131
AvaI	CYCGRG	2 cut(s)	30, 291
BauI	CACGAG	1 cut(s)	363
Bbv12I	GWGCWC	1 cut(s)	657
BccI	CCATC	1 cut(s)	642
BciT130I	CCWGG	1 cut(s)	99
BciVI	GTATCC	1 cut(s)	586
BfaI	CTAG	1 cut(s)	173
BfuI	GTATCC	1 cut(s)	586
BlpI	GCTNAGC	1 cut(s)	83
Bme1390I	CCNGG	1 cut(s)	99
BmeT110I	CYCGRG	2 cut(s)	30, 291
BmrFI	CCNGG	1 cut(s)	99
BpmI	CTGGAG	1 cut(s)	486
Bpu1102I	GCTNAGC	1 cut(s)	83
BsaJI	CCNNGG	3 cut(s)	150, 255, 579
BsaWI	WCCGGW	1 cut(s)	315
Bse118I	RCCGGY	1 cut(s)	315
BseBI	CCWGG	1 cut(s)	99
BseDI	CCNNGG	3 cut(s)	150, 255, 579
BseMII	CTCAG	2 cut(s)	74, 273
BseRI	GAGGAG	1 cut(s)	684
BseYI	CCCAGC	1 cut(s)	93
BsgI	GTGCAG	1 cut(s)	130
BshTI	ACCGGT	1 cut(s)	315
BsiHKAI	GWGCWC	1 cut(s)	657
BsiHKCI	CYCGRG	2 cut(s)	30, 291
BsiSI	CCGG	1 cut(s)	316
BsoBI	CYCGRG	2 cut(s)	30, 291
Bsp1286I	GDGCHC	1 cut(s)	657
Bsp143I	GATC	2 cut(s)	307, 584
Bsp1720I	GCTNAGC	1 cut(s)	83
BspACI	CCGC	3 cut(s)	19, 55, 80
BspCNI	CTCAG	2 cut(s)	75, 274
BspHI	TCATGA	1 cut(s)	139
BspPI	GGATC	2 cut(s)	302, 592
BsrBI	CCGCTC	1 cut(s)	19
BsrFI	RCCGGY	1 cut(s)	315
BssAI	RCCGGY	1 cut(s)	315
BssECI	CCNNGG	3 cut(s)	150, 255, 579
BssMI	GATC	2 cut(s)	307, 584
BssSI	CACGAG	1 cut(s)	363
BssT1I	CCWWGG	3 cut(s)	150, 255, 579
Bst2BI	CACGAG	1 cut(s)	363
Bst2UI	CCWGG	1 cut(s)	99
Bst4CI	ACNGT	2 cut(s)	42, 509
BstDEI	CTNAG	3 cut(s)	83, 282, 513
BstKTI	GATC	2 cut(s)	310, 587
BstMBI	GATC	2 cut(s)	307, 584
BstMWI	GCNNNNNNNGC	1 cut(s)	563
BstNI	CCWGG	1 cut(s)	99
BstNSI	RCATGY	1 cut(s)	479
BstSCI	CCNGG	1 cut(s)	97
BstX2I	RGATCY	2 cut(s)	307, 584
BstXI	CCANNNNNNTGG	1 cut(s)	641
BstYI	RGATCY	2 cut(s)	307, 584
BsuI	GTATCC	1 cut(s)	586
BtsI	GCAGTG	1 cut(s)	235
BtsIMutI	CAGTG	2 cut(s)	235, 246
CciI	TCATGA	1 cut(s)	139
Cfr10I	RCCGGY	1 cut(s)	315
CseI	GACGC	1 cut(s)	251
Csp6I	GTAC	1 cut(s)	244
CspAI	ACCGGT	1 cut(s)	315
CviAII	CATG	3 cut(s)	140, 428, 476
CviJI	RGCY	5 cut(s)	97, 254, 272, 391, 464
CviKI_1	RGCY	5 cut(s)	97, 254, 272, 391, 464
CviQI	GTAC	1 cut(s)	244
DdeI	CTNAG	3 cut(s)	83, 282, 513
DpnI	GATC	2 cut(s)	309, 586
DpnII	GATC	2 cut(s)	307, 584
Eco130I	CCWWGG	3 cut(s)	150, 255, 579
Eco57I	CTGAAG	4 cut(s)	83, 270, 324, 377
Eco88I	CYCGRG	2 cut(s)	30, 291
EcoRII	CCWGG	1 cut(s)	97
EcoT14I	CCWWGG	3 cut(s)	150, 255, 579
ErhI	CCWWGG	3 cut(s)	150, 255, 579
FaeI	CATG	3 cut(s)	143, 431, 479
FatI	CATG	3 cut(s)	139, 427, 475
FauI	CCCGC	2 cut(s)	12, 48
FspBI	CTAG	1 cut(s)	173
GsaI	CCCAGC	1 cut(s)	97
GsuI	CTGGAG	1 cut(s)	486
HapII	CCGG	1 cut(s)	316
HgaI	GACGC	1 cut(s)	251
Hin1II	CATG	3 cut(s)	143, 431, 479
HincII	GTYRAC	1 cut(s)	607
HindII	GTYRAC	1 cut(s)	607
HinfI	GANTC	3 cut(s)	69, 112, 294
HpaI	GTTAAC	1 cut(s)	607
HpaII	CCGG	1 cut(s)	316
Hpy166II	GTNNAC	3 cut(s)	246, 592, 607
Hpy188I	TCNGA	4 cut(s)	63, 304, 522, 618
Hpy188III	TCNNGA	2 cut(s)	140, 445
Hpy8I	GTNNAC	3 cut(s)	246, 592, 607
HpyCH4III	ACNGT	2 cut(s)	42, 509
HpyCH4V	TGCA	6 cut(s)	147, 188, 223, 235, 572, 686
HpyF10VI	GCNNNNNNNGC	1 cut(s)	563
HpyF3I	CTNAG	3 cut(s)	83, 282, 513
Hsp92II	CATG	3 cut(s)	143, 431, 479
KspAI	GTTAAC	1 cut(s)	607
Kzo9I	GATC	2 cut(s)	307, 584
LmnI	GCTCC	3 cut(s)	16, 259, 618
LpnPI	CCDG	8 cut(s)	84, 107, 111, 329, 380, 450, 467, 679
MaeI	CTAG	1 cut(s)	173
MaeIII	GTNAC	1 cut(s)	367
MalI	GATC	2 cut(s)	309, 586
MbiI	CCGCTC	1 cut(s)	19
MboI	GATC	2 cut(s)	307, 584
MboII	GAAGA	4 cut(s)	16, 317, 482, 521
MflI	RGATCY	2 cut(s)	307, 584
MhlI	GDGCHC	1 cut(s)	657
MluCI	AATT	9 cut(s)	7, 75, 130, 164, 203, 334, 345, 547, 622
MlyI	GAGTC	1 cut(s)	303
MnlI	CCTC	7 cut(s)	55, 308, 372, 620, 639, 662, 665
MroXI	GAANNNNTTC	1 cut(s)	131
MseI	TTAA	5 cut(s)	218, 408, 492, 504, 606
MslI	CAYNNNNRTG	1 cut(s)	639
MspA1I	CMGCKG	1 cut(s)	82
MspI	CCGG	1 cut(s)	316
MspR9I	CCNGG	1 cut(s)	99
MvaI	CCWGG	1 cut(s)	99
MwoI	GCNNNNNNNGC	1 cut(s)	563
NdeII	GATC	2 cut(s)	307, 584
NlaIII	CATG	3 cut(s)	143, 431, 479
NspI	RCATGY	1 cut(s)	479
PaeR7I	CTCGAG	1 cut(s)	291
PagI	TCATGA	1 cut(s)	139
PdmI	GAANNNNTTC	1 cut(s)	131
PfeI	GAWTC	2 cut(s)	69, 112
PinAI	ACCGGT	1 cut(s)	315
PleI	GAGTC	1 cut(s)	302
PpsI	GAGTC	1 cut(s)	302
Psp6I	CCWGG	1 cut(s)	97
PspFI	CCCAGC	1 cut(s)	93
PspGI	CCWGG	1 cut(s)	97
PspXI	VCTCGAGB	1 cut(s)	291
PsuI	RGATCY	2 cut(s)	307, 584
RsaI	GTAC	1 cut(s)	245
RsaNI	GTAC	1 cut(s)	244
RseI	CAYNNNNRTG	1 cut(s)	639
SaqAI	TTAA	5 cut(s)	218, 408, 492, 504, 606
Sau3AI	GATC	2 cut(s)	307, 584
SchI	GAGTC	1 cut(s)	303
ScrFI	CCNGG	1 cut(s)	99
SduI	GDGCHC	1 cut(s)	657
SetI	ASST	5 cut(s)	364, 388, 393, 466, 612
Sfr274I	CTCGAG	1 cut(s)	291
SlaI	CTCGAG	1 cut(s)	291
SmiMI	CAYNNNNRTG	1 cut(s)	639
SmlI	CTYRAG	1 cut(s)	291
SmoI	CTYRAG	1 cut(s)	291
Sse9I	AATT	9 cut(s)	7, 75, 130, 164, 203, 334, 345, 547, 622
SsiI	CCGC	3 cut(s)	19, 55, 80
SspMI	CTAG	1 cut(s)	173
StyD4I	CCNGG	1 cut(s)	97
StyI	CCWWGG	3 cut(s)	150, 255, 579
TaaI	ACNGT	2 cut(s)	42, 509
TaqI	TCGA	4 cut(s)	292, 416, 444, 657
TasI	AATT	9 cut(s)	7, 75, 130, 164, 203, 334, 345, 547, 622
TfiI	GAWTC	2 cut(s)	69, 112
Tru1I	TTAA	5 cut(s)	218, 408, 492, 504, 606
Tru9I	TTAA	5 cut(s)	218, 408, 492, 504, 606
TscAI	CASTG	2 cut(s)	235, 253
TspDTI	ATGAA	2 cut(s)	17, 434
TspRI	CASTG	2 cut(s)	235, 253
XapI	RAATTY	3 cut(s)	7, 130, 203
XceI	RCATGY	1 cut(s)	479
XcmI	CCANNNNNNNNNTGG	1 cut(s)	157
XhoI	CTCGAG	1 cut(s)	291
XmnI	GAANNNNTTC	1 cut(s)	131
XspI	CTAG	1 cut(s)	173

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