Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0008633

Physical Location & Seq

Genomic Coordinates Forward (+)

68119417 .. 68124416

Gene Structure 5000 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00048100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGTCATTTCCAAGAGCCATAGTGACTCGGCCTCTGCTTCCACTACTCTTCTCAACCACTCTTACTAAACCCTTCATCAAAACCTCTCGTCCACTCCCTTCAATGCGTCCCTTCACCGCCTTTGCCTCTCTCCCTGCTTCCCGAGAAGTCGGTGAGCCGTCCACTCCGGCATTCCCAGCTCCGAAAAGGAGCGGCGAGAGGTGGAAGCCCATGTGCTTGTACTACACACAAGGGAAGTGCACCATGATGGAGGATCCTGCCCACATGGAGAAGTTCAATCATGATTGCTCCAGAGATCTTCAAGTGAAAAATTCCATGTCAAACCTCATTTGCTCTCAGCACTTGGATTATTTTCTTGTGCTTGATCTGGAGGGAAAAATTGAAATTCTTGAGTTTCCAGTTCTAATCATTGATGCAAAAACCATGAATGTCGTTGATTTTTTTCACAGGTTTGTAAGGCCAACAGAGATGAGCGAGAAAAGGATAAATGAATATATTGAAGGAAAGTATGGCAAATTTGGAGTCGACCGTGTTTGGCATGACACAGCTATACCATTTAAGGATGTTCTTCAACAATTTGAAGAATGGTTAACTCAGCATCAACTGTGGGGAGAAGAGGTGGGCGGGTGTCTTAATCAAGCAGCATTCGTAACTTGTGGAAACTGGGATTTGAAAACAAAAGTTCCTGAACAATGCAAAGTGGCAAAGGTGAAGCTTCCATCATATTTTATGGAATGGATCAATCTCAAAGATGTCTATCTAAATTTTTACAAGAGAAGGGCCACAGGAATGATGACAATGATGAAGGAACTTCACATGCCATTGTTGGGAAGTCACCATCTTGGATTTGATGACTCAAAGAACATAGCAAGGGTGTTGCAACAAATGCTTGCTGATGGTGCAATACTGCAGATTACAGCGAGGAGGGATCATAATTCTCCTGAGAAGGTTGAATTTCTATTCAAGAACAGAATAAGGTAG

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

326

Amino Acids

37.83

Weight (kDa)

8.85

Isoelectric Point (pI)

51.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_T	PF00929	122 - 293	1.1e-09	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)

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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)
AccBSI	CCGCTC	1 cut(s)	192
AccI	GTMKAC	1 cut(s)	525
AciI	CCGC	3 cut(s)	117, 192, 624
AclWI	GGATC	4 cut(s)	248, 261, 746, 936
AcsI	RAATTY	5 cut(s)	310, 384, 515, 763, 953
AfaI	GTAC	1 cut(s)	221
AfiI	CCNNNNNNNGG	1 cut(s)	827
AluBI	AGCT	3 cut(s)	179, 548, 715
AluI	AGCT	3 cut(s)	179, 548, 715
Alw21I	GWGCWC	1 cut(s)	242
Alw44I	GTGCAC	1 cut(s)	238
AlwI	GGATC	4 cut(s)	248, 261, 746, 936
Ama87I	CYCGRG	1 cut(s)	141
AoxI	GGCC	3 cut(s)	29, 458, 780
ApaLI	GTGCAC	1 cut(s)	238
ApeKI	GCWGC	1 cut(s)	641
ApoI	RAATTY	5 cut(s)	310, 384, 515, 763, 953
ArsI	GACNNNNNNTTYG	2 cut(s)	507, 539
AspS9I	GGNCC	1 cut(s)	780
AsuHPI	GGTGA	4 cut(s)	106, 164, 721, 827
AvaI	CYCGRG	1 cut(s)	141
BaeGI	GKGCMC	1 cut(s)	242
BamHI	GGATCC	1 cut(s)	253
Bbv12I	GWGCWC	1 cut(s)	242
BbvI	GCAGC	1 cut(s)	653
BccI	CCATC	4 cut(s)	241, 727, 846, 890
BceAI	ACGGC	1 cut(s)	142
BfmI	CTRYAG	1 cut(s)	908
BglII	AGATCT	1 cut(s)	295
BisI	GCNGC	2 cut(s)	193, 642
BlsI	GCNGC	2 cut(s)	194, 643
BmeT110I	CYCGRG	1 cut(s)	141
BmgT120I	GGNCC	1 cut(s)	780
BmiI	GGNNCC	1 cut(s)	255
BmrI	ACTGGG	1 cut(s)	673
BmsI	GCATC	2 cut(s)	403, 607
BmuI	ACTGGG	1 cut(s)	673
BpmI	CTGGAG	2 cut(s)	274, 389
BpuEI	CTTGAG	1 cut(s)	410
BsaBI	GATNNNNATC	1 cut(s)	756
BsaXI	ACNNNNNCTCC	2 cut(s)	603, 633
Bsc4I	CCNNNNNNNGG	1 cut(s)	827
Bse1I	ACTGG	2 cut(s)	398, 668
Bse8I	GATNNNNATC	1 cut(s)	756
BseGI	GGATG	1 cut(s)	568
BseJI	GATNNNNATC	1 cut(s)	756
BseLI	CCNNNNNNNGG	1 cut(s)	827
BseMII	CTCAG	3 cut(s)	350, 608, 933
BseNI	ACTGG	2 cut(s)	398, 668
BseRI	GAGGAG	1 cut(s)	937
BseSI	GKGCMC	1 cut(s)	242
BseXI	GCAGC	1 cut(s)	653
BseYI	CCCAGC	1 cut(s)	175
Bsh1285I	CGRYCG	1 cut(s)	529
BshFI	GGCC	3 cut(s)	31, 460, 782
BsiEI	CGRYCG	1 cut(s)	529
BsiHKAI	GWGCWC	1 cut(s)	242
BsiHKCI	CYCGRG	1 cut(s)	141
BsiSI	CCGG	1 cut(s)	167
BslFI	GGGAC	1 cut(s)	93
BslI	CCNNNNNNNGG	1 cut(s)	827
BsmFI	GGGAC	1 cut(s)	93
BsmI	GAATGC	2 cut(s)	170, 644
BsnI	GGCC	3 cut(s)	31, 460, 782
BsoBI	CYCGRG	1 cut(s)	141
Bsp1286I	GDGCHC	1 cut(s)	242
Bsp143I	GATC	5 cut(s)	253, 295, 364, 738, 928
BspACI	CCGC	3 cut(s)	117, 192, 624
BspANI	GGCC	3 cut(s)	31, 460, 782
BspCNI	CTCAG	3 cut(s)	349, 607, 934
BspHI	TCATGA	1 cut(s)	280
BspLI	GGNNCC	1 cut(s)	255
BspMAI	CTGCAG	1 cut(s)	912
BspPI	GGATC	4 cut(s)	248, 261, 746, 936
BsrBI	CCGCTC	1 cut(s)	192
BsrI	ACTGG	2 cut(s)	398, 668
BssMI	GATC	5 cut(s)	253, 295, 364, 738, 928
Bst4CI	ACNGT	2 cut(s)	530, 606
Bst6I	CTCTTC	2 cut(s)	53, 609
BstAPI	GCANNNNNTGC	1 cut(s)	886
BstC8I	GCNNGC	1 cut(s)	891
BstDEI	CTNAG	3 cut(s)	336, 594, 942
BstF5I	GGATG	1 cut(s)	568
BstKTI	GATC	5 cut(s)	256, 298, 367, 741, 931
BstMBI	GATC	5 cut(s)	253, 295, 364, 738, 928
BstMCI	CGRYCG	1 cut(s)	529
BstMWI	GCNNNNNNNGC	3 cut(s)	176, 886, 899
BstNSI	RCATGY	1 cut(s)	820
BstSFI	CTRYAG	1 cut(s)	908
BstSLI	GKGCMC	1 cut(s)	242
BstV1I	GCAGC	1 cut(s)	653
BstX2I	RGATCY	2 cut(s)	253, 295
BstYI	RGATCY	2 cut(s)	253, 295
BsuRI	GGCC	3 cut(s)	31, 460, 782
BtsCI	GGATG	1 cut(s)	568
Cac8I	GCNNGC	1 cut(s)	891
CciI	TCATGA	1 cut(s)	280
Cfr13I	GGNCC	1 cut(s)	780
CseI	GACGC	1 cut(s)	95
Csp6I	GTAC	1 cut(s)	220
CviAII	CATG	8 cut(s)	211, 244, 265, 281, 316, 424, 539, 817
CviJI	RGCY	9 cut(s)	17, 31, 157, 179, 208, 460, 548, 715, 782
CviKI_1	RGCY	9 cut(s)	17, 31, 157, 179, 208, 460, 548, 715, 782
CviQI	GTAC	1 cut(s)	220
DdeI	CTNAG	3 cut(s)	336, 594, 942
DpnI	GATC	5 cut(s)	255, 297, 366, 740, 930
DpnII	GATC	5 cut(s)	253, 295, 364, 738, 928
Eam1104I	CTCTTC	2 cut(s)	53, 609
EarI	CTCTTC	2 cut(s)	53, 609
Eco88I	CYCGRG	1 cut(s)	141
FaeI	CATG	8 cut(s)	214, 247, 268, 284, 319, 427, 542, 820
FaqI	GGGAC	1 cut(s)	93
FatI	CATG	8 cut(s)	210, 243, 264, 280, 315, 423, 538, 816
FauI	CCCGC	1 cut(s)	617
FblI	GTMKAC	1 cut(s)	525
Fnu4HI	GCNGC	2 cut(s)	193, 642
FokI	GGATG	1 cut(s)	575
Fsp4HI	GCNGC	2 cut(s)	193, 642
GluI	GCNGC	2 cut(s)	193, 642
GsaI	CCCAGC	1 cut(s)	179
GsuI	CTGGAG	2 cut(s)	274, 389
HaeIII	GGCC	3 cut(s)	31, 460, 782
HapII	CCGG	1 cut(s)	167
HgaI	GACGC	1 cut(s)	95
Hin1II	CATG	8 cut(s)	214, 247, 268, 284, 319, 427, 542, 820
HincII	GTYRAC	2 cut(s)	526, 591
HindII	GTYRAC	2 cut(s)	526, 591
HindIII	AAGCTT	1 cut(s)	713
HinfI	GANTC	3 cut(s)	25, 522, 854
HpaI	GTTAAC	1 cut(s)	591
HpaII	CCGG	1 cut(s)	167
HphI	GGTGA	4 cut(s)	106, 164, 721, 827
Hpy166II	GTNNAC	5 cut(s)	92, 162, 240, 526, 591
Hpy188I	TCNGA	1 cut(s)	183
Hpy188III	TCNNGA	8 cut(s)	141, 281, 291, 368, 389, 686, 941, 964
Hpy8I	GTNNAC	5 cut(s)	92, 162, 240, 526, 591
HpyAV	CCTTC	7 cut(s)	82, 108, 121, 494, 771, 799, 940
HpyCH4III	ACNGT	2 cut(s)	530, 606
HpyCH4V	TGCA	6 cut(s)	240, 416, 696, 880, 902, 910
HpyF10VI	GCNNNNNNNGC	3 cut(s)	176, 886, 899
HpyF3I	CTNAG	3 cut(s)	336, 594, 942
Hsp92II	CATG	8 cut(s)	214, 247, 268, 284, 319, 427, 542, 820
KspAI	GTTAAC	1 cut(s)	591
Kzo9I	GATC	5 cut(s)	253, 295, 364, 738, 928
LmnI	GCTCC	3 cut(s)	184, 189, 293
Lsp1109I	GCAGC	1 cut(s)	653
LweI	GCATC	2 cut(s)	403, 607
MaeIII	GTNAC	3 cut(s)	22, 649, 833
MalI	GATC	5 cut(s)	255, 297, 366, 740, 930
MbiI	CCGCTC	1 cut(s)	192
MboI	GATC	5 cut(s)	253, 295, 364, 738, 928
MboII	GAAGA	5 cut(s)	40, 290, 560, 593, 626
MflI	RGATCY	2 cut(s)	253, 295
MhlI	GDGCHC	1 cut(s)	242
MluCI	AATT	8 cut(s)	310, 378, 384, 515, 575, 763, 934, 953
MlyI	GAGTC	3 cut(s)	19, 531, 848
MseI	TTAA	3 cut(s)	558, 590, 633
MslI	CAYNNNNRTG	2 cut(s)	245, 788
MspI	CCGG	1 cut(s)	167
Mva1269I	GAATGC	2 cut(s)	170, 644
MwoI	GCNNNNNNNGC	3 cut(s)	176, 886, 899
NdeII	GATC	5 cut(s)	253, 295, 364, 738, 928
NlaIII	CATG	8 cut(s)	214, 247, 268, 284, 319, 427, 542, 820
NlaIV	GGNNCC	1 cut(s)	255
NmeAIII	GCCGAG	1 cut(s)	7
NmuCI	GTSAC	2 cut(s)	22, 833
NspI	RCATGY	1 cut(s)	820
PagI	TCATGA	1 cut(s)	280
PctI	GAATGC	2 cut(s)	170, 644
PkrI	GCNGC	2 cut(s)	194, 643
PleI	GAGTC	3 cut(s)	19, 530, 848
PpsI	GAGTC	3 cut(s)	19, 530, 848
PspFI	CCCAGC	1 cut(s)	175
PspN4I	GGNNCC	1 cut(s)	255
PspPI	GGNCC	1 cut(s)	780
PstI	CTGCAG	1 cut(s)	912
PsuI	RGATCY	2 cut(s)	253, 295
RsaI	GTAC	1 cut(s)	221
RsaNI	GTAC	1 cut(s)	220
RseI	CAYNNNNRTG	2 cut(s)	245, 788
SalI	GTCGAC	1 cut(s)	524
SaqAI	TTAA	3 cut(s)	558, 590, 633
SatI	GCNGC	2 cut(s)	193, 642
Sau3AI	GATC	5 cut(s)	253, 295, 364, 738, 928
Sau96I	GGNCC	1 cut(s)	780
SchI	GAGTC	3 cut(s)	19, 531, 848
SduI	GDGCHC	1 cut(s)	242
SfaNI	GCATC	2 cut(s)	403, 607
SfcI	CTRYAG	1 cut(s)	908
SmiMI	CAYNNNNRTG	2 cut(s)	245, 788
SmlI	CTYRAG	1 cut(s)	389
SmoI	CTYRAG	1 cut(s)	389
Sse9I	AATT	8 cut(s)	310, 378, 384, 515, 575, 763, 934, 953
SsiI	CCGC	3 cut(s)	117, 192, 624
TaaI	ACNGT	2 cut(s)	530, 606
TaqI	TCGA	1 cut(s)	525
TasI	AATT	8 cut(s)	310, 378, 384, 515, 575, 763, 934, 953
TatI	WGTACW	1 cut(s)	219
TauI	GCSGC	1 cut(s)	195
Tru1I	TTAA	3 cut(s)	558, 590, 633
Tru9I	TTAA	3 cut(s)	558, 590, 633
TseFI	GTSAC	2 cut(s)	22, 833
TseI	GCWGC	1 cut(s)	641
Tsp45I	GTSAC	2 cut(s)	22, 833
TspDTI	ATGAA	4 cut(s)	64, 440, 504, 818
VneI	GTGCAC	1 cut(s)	238
XapI	RAATTY	5 cut(s)	310, 384, 515, 763, 953
XceI	RCATGY	1 cut(s)	820
XmiI	GTMKAC	1 cut(s)	525

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