Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0008633

Physical Location & Seq

Genomic Coordinates Reverse (-)

26675966 .. 26680912

Gene Structure 4947 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG224300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGGAGGATCCTGCCCACATGGAGAAGTTCAATCATGATTGCTCCAGAGATCTTCAAGTGAAAAATTCCATGTCAAACCTCATTTGCTCTCAGCACTTGGATTATTTTCTTGTGCTTGATCTGGAGGGAAAAATTGAAATTCTTGAGTTTCCAGTTCTAATCATTGATGCAAAAACCATGAATGTCGTTGATTTTTTTCACAGGTTTGTACGGCCAACGGAGATGAGCGAGAAAAGGATAAATGAATATATTGAAGGAAAGTATGGCAAATTTGGAGTCGACCGTGTTTGGCATGACACAGCTATACCATTTAAGAATGTTCTTCAACAATTTGAAGAATGGTTAACTCAGCATCAACTGTGGAGAGAAGAGGTGGGCGGGTGTCTTAATCAAGCCGCATTCGTAACTTGTGGAAACTGGGATTTGAAAACAAAAGTTCCTGAACAATGCAAAGTGGCAAAGGTGAAGCTTCCGTCATATTTTATGGAATGGATCAATCTCAAAGATGTCTATCTAAATTTTTACAAGAGAAGGGCCACAGGAATGATGACAATGATGAAGGAACTTCACATGCCATTGTTGGGAAGTCACCATCTTGGATTTGATGACTCAAAGAACATAGCAAGGGTGTTGCAACACATGCTTGCTGATGGTGCAATACTGCAGATTACAGCTAGGAGGGATCATAATTCTCCTGAGAAGGTTGAATTTCTATTCAGGAACAGAATAAGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0016070 GO:0016441 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019219 GO:0019222 GO:0031047 GO:0031323 GO:0034641 GO:0035194 GO:0040029 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048519 GO:0048583 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060147 GO:0060255 GO:0060966 GO:0060968 GO:0065007 GO:0070920 GO:0071704 GO:0080090 GO:0090065 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0140098 GO:1900368 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RNase_T

Protein Analysis

244

Amino Acids

28.8

Weight (kDa)

6.83

Isoelectric Point (pI)

46.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_T	PF00929	40 - 211	5.4e-10	Exonuclease

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

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Publication-ready

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Orthologous Genes (Group: OG0008633)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G15140 AT3G15140
fragaria_vesca	FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250 FvH4_3g19250
malus_domestica	MD11G1255900.v1.1
prunus_persica	Prupe.4G173900_v2.0.a1
pyrus_communis	pycom11g22620
rosa_chinensis	RchiOBHm_Chr5g0032321
rosa_laevigata	RLG00000033385
rosa_roxburghii	Rroxscaffold_1G00048100
rosa_rugosa	Rorug05G0130800 Rorug05G0130900
rosa_samantha	Rh5AG224300 Rh5BG225200 Rh5CG250700 Rh5DG229900
rosa_wichuraiana	Rw5G020490

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	279
AciI	CCGC	2 cut(s)	378, 396
AclWI	GGATC	4 cut(s)	2, 15, 500, 690
AcoI	YGGCCR	1 cut(s)	212
AcsI	RAATTY	5 cut(s)	64, 138, 269, 517, 707
AfaI	GTAC	1 cut(s)	210
AfiI	CCNNNNNNNGG	1 cut(s)	581
AgsI	TTSAA	8 cut(s)	31, 56, 137, 254, 326, 335, 427, 707
AluBI	AGCT	3 cut(s)	302, 469, 674
AluI	AGCT	3 cut(s)	302, 469, 674
AlwI	GGATC	4 cut(s)	2, 15, 500, 690
AoxI	GGCC	2 cut(s)	212, 534
ApoI	RAATTY	5 cut(s)	64, 138, 269, 517, 707
ArsI	GACNNNNNNTTYG	2 cut(s)	261, 293
AspS9I	GGNCC	1 cut(s)	534
AsuHPI	GGTGA	2 cut(s)	475, 581
BamHI	GGATCC	1 cut(s)	7
BccI	CCATC	2 cut(s)	600, 644
BceAI	ACGGC	1 cut(s)	227
BfaI	CTAG	1 cut(s)	675
BfmI	CTRYAG	1 cut(s)	662
BglII	AGATCT	1 cut(s)	49
BisI	GCNGC	1 cut(s)	396
BlsI	GCNGC	1 cut(s)	397
BmgT120I	GGNCC	1 cut(s)	534
BmiI	GGNNCC	1 cut(s)	9
BmrI	ACTGGG	1 cut(s)	427
BmsI	GCATC	2 cut(s)	157, 361
BmuI	ACTGGG	1 cut(s)	427
BpmI	CTGGAG	2 cut(s)	28, 143
BpuEI	CTTGAG	1 cut(s)	164
BsaBI	GATNNNNATC	1 cut(s)	510
Bsc4I	CCNNNNNNNGG	1 cut(s)	581
Bse1I	ACTGG	2 cut(s)	152, 422
Bse8I	GATNNNNATC	1 cut(s)	510
BseJI	GATNNNNATC	1 cut(s)	510
BseLI	CCNNNNNNNGG	1 cut(s)	581
BseMII	CTCAG	3 cut(s)	104, 362, 687
BseNI	ACTGG	2 cut(s)	152, 422
Bsh1285I	CGRYCG	1 cut(s)	283
BshFI	GGCC	2 cut(s)	214, 536
BsiEI	CGRYCG	1 cut(s)	283
BslI	CCNNNNNNNGG	1 cut(s)	581
BsmI	GAATGC	1 cut(s)	398
BsnI	GGCC	2 cut(s)	214, 536
Bsp143I	GATC	5 cut(s)	7, 49, 118, 492, 682
BspACI	CCGC	2 cut(s)	378, 396
BspANI	GGCC	2 cut(s)	214, 536
BspCNI	CTCAG	3 cut(s)	103, 361, 688
BspHI	TCATGA	1 cut(s)	34
BspLI	GGNNCC	1 cut(s)	9
BspMAI	CTGCAG	1 cut(s)	666
BspPI	GGATC	4 cut(s)	2, 15, 500, 690
BsrI	ACTGG	2 cut(s)	152, 422
BssMI	GATC	5 cut(s)	7, 49, 118, 492, 682
Bst4CI	ACNGT	2 cut(s)	284, 360
Bst6I	CTCTTC	1 cut(s)	363
BstAPI	GCANNNNNTGC	1 cut(s)	640
BstC8I	GCNNGC	1 cut(s)	645
BstDEI	CTNAG	3 cut(s)	90, 348, 696
BstKTI	GATC	5 cut(s)	10, 52, 121, 495, 685
BstMBI	GATC	5 cut(s)	7, 49, 118, 492, 682
BstMCI	CGRYCG	1 cut(s)	283
BstMWI	GCNNNNNNNGC	2 cut(s)	640, 653
BstNSI	RCATGY	2 cut(s)	574, 643
BstSFI	CTRYAG	1 cut(s)	662
BstX2I	RGATCY	2 cut(s)	7, 49
BstYI	RGATCY	2 cut(s)	7, 49
BsuRI	GGCC	2 cut(s)	214, 536
Cac8I	GCNNGC	1 cut(s)	645
CciI	TCATGA	1 cut(s)	34
Cfr13I	GGNCC	1 cut(s)	534
Csp6I	GTAC	1 cut(s)	209
CviAII	CATG	7 cut(s)	19, 35, 70, 178, 293, 571, 640
CviJI	RGCY	6 cut(s)	214, 302, 395, 469, 536, 674
CviKI_1	RGCY	6 cut(s)	214, 302, 395, 469, 536, 674
CviQI	GTAC	1 cut(s)	209
DdeI	CTNAG	3 cut(s)	90, 348, 696
DpnI	GATC	5 cut(s)	9, 51, 120, 494, 684
DpnII	GATC	5 cut(s)	7, 49, 118, 492, 682
EaeI	YGGCCR	1 cut(s)	212
Eam1104I	CTCTTC	1 cut(s)	363
EarI	CTCTTC	1 cut(s)	363
FaeI	CATG	7 cut(s)	22, 38, 73, 181, 296, 574, 643
FatI	CATG	7 cut(s)	18, 34, 69, 177, 292, 570, 639
FauI	CCCGC	1 cut(s)	371
FblI	GTMKAC	1 cut(s)	279
Fnu4HI	GCNGC	1 cut(s)	396
Fsp4HI	GCNGC	1 cut(s)	396
FspBI	CTAG	1 cut(s)	675
GluI	GCNGC	1 cut(s)	396
GsuI	CTGGAG	2 cut(s)	28, 143
HaeIII	GGCC	2 cut(s)	214, 536
Hin1II	CATG	7 cut(s)	22, 38, 73, 181, 296, 574, 643
HincII	GTYRAC	2 cut(s)	280, 345
HindII	GTYRAC	2 cut(s)	280, 345
HindIII	AAGCTT	1 cut(s)	467
HinfI	GANTC	2 cut(s)	276, 608
HpaI	GTTAAC	1 cut(s)	345
HphI	GGTGA	2 cut(s)	475, 581
Hpy166II	GTNNAC	2 cut(s)	280, 345
Hpy188III	TCNNGA	7 cut(s)	35, 45, 122, 143, 440, 695, 718
Hpy8I	GTNNAC	2 cut(s)	280, 345
HpyAV	CCTTC	4 cut(s)	248, 525, 553, 694
HpyCH4III	ACNGT	2 cut(s)	284, 360
HpyCH4V	TGCA	5 cut(s)	170, 450, 634, 656, 664
HpyF10VI	GCNNNNNNNGC	2 cut(s)	640, 653
HpyF3I	CTNAG	3 cut(s)	90, 348, 696
Hsp92II	CATG	7 cut(s)	22, 38, 73, 181, 296, 574, 643
KspAI	GTTAAC	1 cut(s)	345
Kzo9I	GATC	5 cut(s)	7, 49, 118, 492, 682
LmnI	GCTCC	1 cut(s)	47
LweI	GCATC	2 cut(s)	157, 361
MaeI	CTAG	1 cut(s)	675
MaeIII	GTNAC	2 cut(s)	403, 587
MalI	GATC	5 cut(s)	9, 51, 120, 494, 684
MboI	GATC	5 cut(s)	7, 49, 118, 492, 682
MboII	GAAGA	4 cut(s)	44, 314, 347, 380
MflI	RGATCY	2 cut(s)	7, 49
MluCI	AATT	8 cut(s)	64, 132, 138, 269, 329, 517, 688, 707
MlyI	GAGTC	2 cut(s)	285, 602
MnlI	CCTC	4 cut(s)	89, 118, 364, 672
MseI	TTAA	3 cut(s)	312, 344, 387
MslI	CAYNNNNRTG	1 cut(s)	542
Mva1269I	GAATGC	1 cut(s)	398
MwoI	GCNNNNNNNGC	2 cut(s)	640, 653
NdeII	GATC	5 cut(s)	7, 49, 118, 492, 682
NlaIII	CATG	7 cut(s)	22, 38, 73, 181, 296, 574, 643
NlaIV	GGNNCC	1 cut(s)	9
NmuCI	GTSAC	1 cut(s)	587
NspI	RCATGY	2 cut(s)	574, 643
PagI	TCATGA	1 cut(s)	34
PctI	GAATGC	1 cut(s)	398
PkrI	GCNGC	1 cut(s)	397
PleI	GAGTC	2 cut(s)	284, 602
PpsI	GAGTC	2 cut(s)	284, 602
PspN4I	GGNNCC	1 cut(s)	9
PspPI	GGNCC	1 cut(s)	534
PstI	CTGCAG	1 cut(s)	666
PsuI	RGATCY	2 cut(s)	7, 49
RsaI	GTAC	1 cut(s)	210
RsaNI	GTAC	1 cut(s)	209
RseI	CAYNNNNRTG	1 cut(s)	542
SalI	GTCGAC	1 cut(s)	278
SaqAI	TTAA	3 cut(s)	312, 344, 387
SatI	GCNGC	1 cut(s)	396
Sau3AI	GATC	5 cut(s)	7, 49, 118, 492, 682
Sau96I	GGNCC	1 cut(s)	534
SchI	GAGTC	2 cut(s)	285, 602
SetI	ASST	9 cut(s)	81, 206, 304, 375, 465, 471, 676, 705, 734
SfaNI	GCATC	2 cut(s)	157, 361
SfcI	CTRYAG	1 cut(s)	662
SmiMI	CAYNNNNRTG	1 cut(s)	542
SmlI	CTYRAG	1 cut(s)	143
SmoI	CTYRAG	1 cut(s)	143
Sse9I	AATT	8 cut(s)	64, 132, 138, 269, 329, 517, 688, 707
SsiI	CCGC	2 cut(s)	378, 396
SspMI	CTAG	1 cut(s)	675
TaaI	ACNGT	2 cut(s)	284, 360
TaqI	TCGA	1 cut(s)	279
TasI	AATT	8 cut(s)	64, 132, 138, 269, 329, 517, 688, 707
TauI	GCSGC	1 cut(s)	398
Tru1I	TTAA	3 cut(s)	312, 344, 387
Tru9I	TTAA	3 cut(s)	312, 344, 387
TseFI	GTSAC	1 cut(s)	587
Tsp45I	GTSAC	1 cut(s)	587
TspDTI	ATGAA	3 cut(s)	194, 258, 572
TspGWI	ACGGA	2 cut(s)	233, 462
XapI	RAATTY	5 cut(s)	64, 138, 269, 517, 707
XceI	RCATGY	2 cut(s)	574, 643
XmiI	GTMKAC	1 cut(s)	279
XspI	CTAG	1 cut(s)	675

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