Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001506

Physical Location & Seq

Genomic Coordinates Reverse (-)

26928674 .. 26932659

Gene Structure 3986 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00021880.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGGCTGGAGCAACTCCGACCACTTACTCGCCGTCCCCTACAACCCGGAAAACCAAATCTCTCATCTTTCGAAACGACGACGTCGATTGGGTCCGAACCGATGGCCGTGATTTCCACCAATGCAGACCTGCCTTTTTCAAGATTGGTGCTGTAAATGCTGCTGCAGGATCTGCTTATGCAGAATTTGGAAACACCAAGGTCATTGTTTCTGTATTTGGGCCAAGAGAGAGTAAAAAGGCAATGTTGTACAGTGATATAGGCCGGTTGAATTGTAATGTTAGCTATACAACTTTTGCCACTCCAGTTCGTGGACAGGGGTCAGACCACAAAGAGTTTTCTTCAATGCTTCATAAAGCTTTGGAGGGTGCAATAATATTGGAAACTTTCCCCAAGACTACGGTGGATGTTTTTGCATTGGTGTTGGAATCTGGGGGCAGTGATCTTCCCGTAGTAATATCATGTGCTAGCCTTGCTTTAGCAGATGCAGGGATAATGATGTATGACCTTGTTGCCTCAGTCTCTGTGTCTTGTCTCGGAAAGAACCTTGTTATTGATCCTGTTCTGGAGGAGGAAAGCTACCAAGATGGAAGCTTAATGCTTACTTGTATGCCTTCACGCTATGAGGTCACTCAGCTAACCATAACAGGGGAATGGTCAACCCCAAAACTTAACGAGGGAATGCAGATATGCCTGGATGCCTGTGCAAAGCTCGCAACAATCATGAGGGAATGCTTGAAAGGACCTGATTCGGCTTTGGAAGAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000176 GO:0000177 GO:0000178 GO:0000291 GO:0000956 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006364 GO:0006396 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008408 GO:0009056 GO:0009057 GO:0009791 GO:0009845 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0016072 GO:0016073 GO:0016074 GO:0016075 GO:0016180 GO:0016787 GO:0016788 GO:0019222 GO:0019439 GO:0022613 GO:0031123 GO:0031125 GO:0031126 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034427 GO:0034470 GO:0034472 GO:0034475 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0042254 GO:0043144 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043628 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0048856 GO:0050789 GO:0060255 GO:0065007 GO:0070013 GO:0071025 GO:0071027 GO:0071028 GO:0071051 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0090351 GO:1901360 GO:1901361 GO:1901575 GO:1902494 GO:1905354

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

RNase_PH RNase_PH_C

Protein Analysis

254

Amino Acids

27.45

Weight (kDa)

5.09

Isoelectric Point (pI)

36.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_PH	PF01138	40 - 164	4.5e-30	3' exoribonuclease family, domain 1
RNase_PH_C	PF03725	168 - 228	1.2e-06	3' exoribonuclease family, domain 2

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001506)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G27490 AT4G27490 AT4G27490 AT4G27490 AT4G27490 AT4G27490 AT4G27490
fragaria_vesca	FvH4_1g26690 FvH4_3g31780 FvH4_3g31780
malus_domestica	MD02G1274400.v1.1 MD03G1120700.v1.1 MD09G1244800.v1.1 MD11G1139300.v1.1
prunus_persica	Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104100_v2.0.a1 Prupe.6G104200_v2.0.a1
pyrus_communis	pycom11g11520
rosa_chinensis	RchiOBHm_Chr1g0339161 RchiOBHm_Chr1g0339211 RchiOBHm_Chr1g0339271 RchiOBHm_Chr5g0058571
rosa_laevigata	RLG00000029217 RLG00000029222 RLG00000035234
rosa_multiflora	Rmu_sc0000367.1_g000149 Rmu_sc0001248.1_g000001 Rmu_sc0019779.1_g000001 Rmu_sc0022251.1_g000002
rosa_roxburghii	Rroxscaffold_1G00021880 Rroxscaffold_4G00313400
rosa_rugosa	Rorug01G0143400.1 Rorug01G0143500.1 Rorug05G0316000
rosa_samantha	Rh1AG160200 Rh1BG127000 Rh1BG127200 Rh1CG149500 Rh1CG149900 Rh5AG382300 Rh5BG394100 Rh5CG418000 Rh5DG409300
rosa_wichuraiana	Rw1G013490 Rw5G036000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	84
Acc36I	ACCTGC	1 cut(s)	136
AccB7I	CCANNNNNTGG	1 cut(s)	308
AclWI	GGATC	2 cut(s)	175, 548
AcoI	YGGCCR	1 cut(s)	103
AcsI	RAATTY	1 cut(s)	182
AcyI	GRCGYC	1 cut(s)	81
AfaI	GTAC	1 cut(s)	248
AfiI	CCNNNNNNNGG	2 cut(s)	308, 645
AgsI	TTSAA	4 cut(s)	139, 268, 342, 736
AjnI	CCWGG	1 cut(s)	690
AluBI	AGCT	6 cut(s)	282, 356, 576, 591, 634, 709
AluI	AGCT	6 cut(s)	282, 356, 576, 591, 634, 709
Alw26I	GTCTC	2 cut(s)	523, 536
AlwI	GGATC	2 cut(s)	175, 548
AlwNI	CAGNNNCTG	2 cut(s)	170, 521
AoxI	GGCC	3 cut(s)	103, 218, 259
ApeKI	GCWGC	2 cut(s)	158, 161
ApoI	RAATTY	1 cut(s)	182
AspS9I	GGNCC	3 cut(s)	91, 218, 740
AsuC2I	CCSGG	1 cut(s)	46
AsuII	TTCGAA	1 cut(s)	70
AsuNHI	GCTAGC	1 cut(s)	464
AvaII	GGWCC	2 cut(s)	91, 740
BbvI	GCAGC	2 cut(s)	145, 148
BccI	CCATC	2 cut(s)	95, 578
BceAI	ACGGC	2 cut(s)	16, 90
BciT130I	CCWGG	1 cut(s)	692
BcnI	CCSGG	1 cut(s)	46
BcoDI	GTCTC	2 cut(s)	523, 536
BfaI	CTAG	1 cut(s)	465
BfmI	CTRYAG	1 cut(s)	162
BfuAI	ACCTGC	1 cut(s)	136
BisI	GCNGC	2 cut(s)	159, 162
BlsI	GCNGC	2 cut(s)	160, 163
Bme1390I	CCNGG	2 cut(s)	46, 692
Bme18I	GGWCC	2 cut(s)	91, 740
BmgT120I	GGNCC	3 cut(s)	91, 218, 740
BmiI	GGNNCC	1 cut(s)	92
BmrFI	CCNGG	2 cut(s)	46, 692
BmsI	GCATC	2 cut(s)	472, 685
BmtI	GCTAGC	1 cut(s)	468
BoxI	GACNNNNGTC	1 cut(s)	316
BpmI	CTGGAG	3 cut(s)	27, 285, 584
Bpu14I	TTCGAA	1 cut(s)	70
BpuMI	CCSGG	1 cut(s)	46
BsaHI	GRCGYC	1 cut(s)	81
BsaJI	CCNNGG	1 cut(s)	195
Bsc4I	CCNNNNNNNGG	2 cut(s)	308, 645
Bse118I	RCCGGY	1 cut(s)	261
Bse1I	ACTGG	1 cut(s)	302
Bse3DI	GCAATG	1 cut(s)	246
BseBI	CCWGG	1 cut(s)	692
BseDI	CCNNGG	1 cut(s)	195
BseGI	GGATG	2 cut(s)	409, 700
BseLI	CCNNNNNNNGG	2 cut(s)	308, 645
BseMI	GCAATG	1 cut(s)	246
BseMII	CTCAG	2 cut(s)	528, 644
BseNI	ACTGG	1 cut(s)	302
BseRI	GAGGAG	1 cut(s)	581
BseXI	GCAGC	2 cut(s)	145, 148
BshFI	GGCC	3 cut(s)	105, 220, 261
BsiSI	CCGG	2 cut(s)	46, 262
BslFI	GGGAC	1 cut(s)	19
BslI	CCNNNNNNNGG	2 cut(s)	308, 645
BsmAI	GTCTC	2 cut(s)	523, 536
BsmFI	GGGAC	1 cut(s)	19
BsmI	GAATGC	2 cut(s)	684, 734
BsnI	GGCC	3 cut(s)	105, 220, 261
Bsp119I	TTCGAA	1 cut(s)	70
Bsp1407I	TGTACA	1 cut(s)	246
Bsp143I	GATC	3 cut(s)	167, 439, 553
BspANI	GGCC	3 cut(s)	105, 220, 261
BspCNI	CTCAG	2 cut(s)	527, 643
BspHI	TCATGA	1 cut(s)	720
BspLI	GGNNCC	1 cut(s)	92
BspMAI	CTGCAG	1 cut(s)	166
BspMI	ACCTGC	1 cut(s)	136
BspOI	GCTAGC	1 cut(s)	468
BspPI	GGATC	2 cut(s)	175, 548
BspT104I	TTCGAA	1 cut(s)	70
BsrDI	GCAATG	1 cut(s)	246
BsrFI	RCCGGY	1 cut(s)	261
BsrGI	TGTACA	1 cut(s)	246
BsrI	ACTGG	1 cut(s)	302
BssAI	RCCGGY	1 cut(s)	261
BssECI	CCNNGG	1 cut(s)	195
BssMI	GATC	3 cut(s)	167, 439, 553
BssNI	GRCGYC	1 cut(s)	81
BssT1I	CCWWGG	1 cut(s)	195
Bst2UI	CCWGG	1 cut(s)	692
Bst4CI	ACNGT	2 cut(s)	251, 400
BstACI	GRCGYC	1 cut(s)	81
BstAPI	GCANNNNNTGC	1 cut(s)	170
BstAUI	TGTACA	1 cut(s)	246
BstBI	TTCGAA	1 cut(s)	70
BstC8I	GCNNGC	2 cut(s)	466, 711
BstDEI	CTNAG	2 cut(s)	514, 630
BstF5I	GGATG	2 cut(s)	409, 700
BstKTI	GATC	3 cut(s)	170, 442, 556
BstMAI	GTCTC	2 cut(s)	523, 536
BstMBI	GATC	3 cut(s)	167, 439, 553
BstMWI	GCNNNNNNNGC	4 cut(s)	155, 170, 470, 710
BstNI	CCWGG	1 cut(s)	692
BstPAI	GACNNNNGTC	1 cut(s)	316
BstSCI	CCNGG	2 cut(s)	44, 690
BstSFI	CTRYAG	1 cut(s)	162
BstV1I	GCAGC	2 cut(s)	145, 148
BstX2I	RGATCY	1 cut(s)	167
BstYI	RGATCY	1 cut(s)	167
BsuRI	GGCC	3 cut(s)	105, 220, 261
BtsCI	GGATG	2 cut(s)	409, 700
BtsI	GCAGTG	1 cut(s)	442
BtsIMutI	CAGTG	2 cut(s)	256, 442
BveI	ACCTGC	1 cut(s)	136
Cac8I	GCNNGC	2 cut(s)	466, 711
CaiI	CAGNNNCTG	2 cut(s)	170, 521
CciI	TCATGA	1 cut(s)	720
Cfr10I	RCCGGY	1 cut(s)	261
Cfr13I	GGNCC	3 cut(s)	91, 218, 740
Csp6I	GTAC	1 cut(s)	247
CviAII	CATG	2 cut(s)	459, 721
CviQI	GTAC	1 cut(s)	247
DdeI	CTNAG	2 cut(s)	514, 630
DpnI	GATC	3 cut(s)	169, 441, 555
DpnII	GATC	3 cut(s)	167, 439, 553
EaeI	YGGCCR	1 cut(s)	103
Eco130I	CCWWGG	1 cut(s)	195
Eco47I	GGWCC	2 cut(s)	91, 740
EcoO109I	RGGNCCY	1 cut(s)	740
EcoRII	CCWGG	1 cut(s)	690
EcoT14I	CCWWGG	1 cut(s)	195
ErhI	CCWWGG	1 cut(s)	195
FaeI	CATG	2 cut(s)	462, 724
FaqI	GGGAC	1 cut(s)	19
FatI	CATG	2 cut(s)	458, 720
Fnu4HI	GCNGC	2 cut(s)	159, 162
FokI	GGATG	2 cut(s)	416, 707
Fsp4HI	GCNGC	2 cut(s)	159, 162
FspBI	CTAG	1 cut(s)	465
GluI	GCNGC	2 cut(s)	159, 162
GsuI	CTGGAG	3 cut(s)	27, 285, 584
HaeIII	GGCC	3 cut(s)	105, 220, 261
HapII	CCGG	2 cut(s)	46, 262
Hin1I	GRCGYC	1 cut(s)	81
Hin1II	CATG	2 cut(s)	462, 724
HincII	GTYRAC	1 cut(s)	657
HindII	GTYRAC	1 cut(s)	657
HindIII	AAGCTT	2 cut(s)	354, 589
HinfI	GANTC	2 cut(s)	425, 746
HpaII	CCGG	2 cut(s)	46, 262
Hpy166II	GTNNAC	2 cut(s)	311, 657
Hpy188I	TCNGA	4 cut(s)	18, 95, 322, 536
Hpy188III	TCNNGA	3 cut(s)	139, 563, 721
Hpy8I	GTNNAC	2 cut(s)	311, 657
Hpy99I	CGWCG	3 cut(s)	80, 83, 86
HpyAV	CCTTC	1 cut(s)	621
HpyCH4III	ACNGT	2 cut(s)	251, 400
HpyCH4IV	ACGT	1 cut(s)	81
HpyCH4V	TGCA	8 cut(s)	123, 164, 179, 368, 413, 485, 682, 704
HpyF10VI	GCNNNNNNNGC	4 cut(s)	155, 170, 470, 710
HpyF3I	CTNAG	2 cut(s)	514, 630
HpySE526I	ACGT	1 cut(s)	81
Hsp92I	GRCGYC	1 cut(s)	81
Hsp92II	CATG	2 cut(s)	462, 724
Kzo9I	GATC	3 cut(s)	167, 439, 553
LmnI	GCTCC	1 cut(s)	8
Lsp1109I	GCAGC	2 cut(s)	145, 148
LweI	GCATC	2 cut(s)	472, 685
MaeI	CTAG	1 cut(s)	465
MaeII	ACGT	1 cut(s)	81
MaeIII	GTNAC	1 cut(s)	625
MalI	GATC	3 cut(s)	169, 441, 555
MboI	GATC	3 cut(s)	167, 439, 553
MboII	GAAGA	2 cut(s)	330, 434
MflI	RGATCY	1 cut(s)	167
MluCI	AATT	2 cut(s)	182, 268
MmeI	TCCRAC	2 cut(s)	41, 402
MnlI	CCTC	7 cut(s)	355, 523, 559, 562, 616, 667, 717
MseI	TTAA	2 cut(s)	593, 669
MspI	CCGG	2 cut(s)	46, 262
MspR9I	CCNGG	2 cut(s)	46, 692
Mva1269I	GAATGC	2 cut(s)	684, 734
MvaI	CCWGG	1 cut(s)	692
MwoI	GCNNNNNNNGC	4 cut(s)	155, 170, 470, 710
NciI	CCSGG	1 cut(s)	46
NdeII	GATC	3 cut(s)	167, 439, 553
NheI	GCTAGC	1 cut(s)	464
NlaIII	CATG	2 cut(s)	462, 724
NlaIV	GGNNCC	1 cut(s)	92
NmuCI	GTSAC	1 cut(s)	625
NspV	TTCGAA	1 cut(s)	70
PagI	TCATGA	1 cut(s)	720
PcsI	WCGNNNNNNNCGW	1 cut(s)	81
PctI	GAATGC	2 cut(s)	684, 734
PfeI	GAWTC	2 cut(s)	425, 746
PflFI	GACNNNGTC	1 cut(s)	80
PflMI	CCANNNNNTGG	1 cut(s)	308
PkrI	GCNGC	2 cut(s)	160, 163
PpuMI	RGGWCCY	1 cut(s)	740
PshAI	GACNNNNGTC	1 cut(s)	316
Psp5II	RGGWCCY	1 cut(s)	740
Psp6I	CCWGG	1 cut(s)	690
PspGI	CCWGG	1 cut(s)	690
PspN4I	GGNNCC	1 cut(s)	92
PspPI	GGNCC	3 cut(s)	91, 218, 740
PspPPI	RGGWCCY	1 cut(s)	740
PstI	CTGCAG	1 cut(s)	166
PstNI	CAGNNNCTG	2 cut(s)	170, 521
PsuI	RGATCY	1 cut(s)	167
PsyI	GACNNNGTC	1 cut(s)	80
RsaI	GTAC	1 cut(s)	248
RsaNI	GTAC	1 cut(s)	247
SaqAI	TTAA	2 cut(s)	593, 669
SatI	GCNGC	2 cut(s)	159, 162
Sau3AI	GATC	3 cut(s)	167, 439, 553
Sau96I	GGNCC	3 cut(s)	91, 218, 740
ScrFI	CCNGG	2 cut(s)	46, 692
SfaNI	GCATC	2 cut(s)	472, 685
SfcI	CTRYAG	1 cut(s)	162
SfuI	TTCGAA	1 cut(s)	70
SinI	GGWCC	2 cut(s)	91, 740
Sse9I	AATT	2 cut(s)	182, 268
SspI	AATATT	1 cut(s)	375
SspMI	CTAG	1 cut(s)	465
StyD4I	CCNGG	2 cut(s)	44, 690
StyI	CCWWGG	1 cut(s)	195
TaaI	ACNGT	2 cut(s)	251, 400
TaiI	ACGT	1 cut(s)	84
TaqI	TCGA	2 cut(s)	70, 84
TasI	AATT	2 cut(s)	182, 268
TatI	WGTACW	1 cut(s)	246
TfiI	GAWTC	2 cut(s)	425, 746
Tru1I	TTAA	2 cut(s)	593, 669
Tru9I	TTAA	2 cut(s)	593, 669
TscAI	CASTG	2 cut(s)	256, 442
TseFI	GTSAC	1 cut(s)	625
TseI	GCWGC	2 cut(s)	158, 161
Tsp45I	GTSAC	1 cut(s)	625
TspDTI	ATGAA	1 cut(s)	338
TspRI	CASTG	2 cut(s)	256, 442
Tth111I	GACNNNGTC	1 cut(s)	80
Van91I	CCANNNNNTGG	1 cut(s)	308
VpaK11BI	GGWCC	2 cut(s)	91, 740
XapI	RAATTY	1 cut(s)	182
XcmI	CCANNNNNNNNNTGG	1 cut(s)	397
XspI	CTAG	1 cut(s)	465
ZraI	GACGTC	1 cut(s)	82

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