Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001141

Physical Location & Seq

Genomic Coordinates Forward (+)

34107654 .. 34111676

Gene Structure 4023 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG308900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1098 bp

ATGTTCCTACGGATTCTCCAAAACTTTTCCACCAGAATCTTTTGCAAGATGAACCCCCGATCGAACGAGAAAATCCCCACCGTGGCACCACTCCGCCTGCCGGAAATGAAAAACTCGGTGGACGCCGTGGAGCGGATCCTAGACTATGACTTCAAGAACAAGAGGCTTCTAGAGGAAGCTCTCATCCACCCCTCCTGCCGAATAAGCGACGCCGTTTCGTATCAGCGGCTCGCGTTCCTCGGCGACACCGTTCTTGACCTCGCTGTAAGTAAAGACCTCTTCCTTGCTTACCCTGTAATTGACCAAGGCGACCTCACTCGGCTACGCTCCGCTAACGTCAGCAACGAGAAGTTCGCACGTGTGGCTGTGAGACATGGGCTTTATACCTACCTTCGCTGCACTGCAACTCGTGCTCTCGATGATCAGGTTAGGGAGTTTACTGAAGCTATAAGACGAGAAGAGGAGAAGACGCCTGTATTTGGACGGTCTGTAGAAGCCCCTAAAGTTCTTGCAGATATTGTGGAGTCTGTGGCTGGTGCTATTTATTTTGACTTGAATTTTGATCTGGAACTACTTTGGATGAAATTTAAGCATGTTTTGGAGCCCATAGACACAACTCCTTCAATAGTTACTCTTGAAGAGTTGCAGCAACAACCTCATCCTGTGACAGAGTTGCAGCAACAACCTCGTCCTGTGACAGAGTTGCAGCAACAACCTCGTCCTGTGACAGAGTTGCAGCAACAACTTTATCCTGTTCAACAACCTCATCCTGTGACAGAGTTGCATCAACTTTGCCAGAAGCAGGGGAAGAATGTCAGTATCGAGAACGGGAGAGGTAAGATGAAGAGTAATATTGATGGGAAGTGTGTTGCCTTGGGTTCGGCTGAACAGAAAGGAAGTGCTAAGGTCAATGCTGCTGAGATGGCTCTAAGGAAGTTGATTTATGATGCGCTGGTTGAAGTTATTGCTGAAATCGATCAGCCATTTTCTGTTAAAAAAGCAAAAGATGAGTTGCGTAAGATTTGTGCCGATAAGAGGTGGCCTCAACCAATTTACACGTGTTTTGTTATGTTAATCCTTCTCTATTTTCTATTGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016442 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031332 GO:0032296 GO:0032991 GO:0034641 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DND1_DSRM Ribonuclease_3 dsrm

Protein Analysis

365

Amino Acids

41.73

Weight (kDa)

7.58

Isoelectric Point (pI)

54.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribonucleas_3_3	PF14622	53 - 185	1.1e-16	Ribonuclease-III-like
Ribonuclease_3	PF00636	75 - 184	1.7e-22	Ribonuclease III domain

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: OG0001141)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G20420
fragaria_vesca	FvH4_3g23250
malus_domestica	MD03G1196200.v1.1 MD11G1212500.v1.1
prunus_persica	Prupe.4G219200_v2.0.a1 Prupe.4G219200_v2.0.a1 Prupe.4G219400_v2.0.a1 Prupe.4G219400_v2.0.a1
pyrus_communis	pycom03g14830 pycom11g18750
rosa_chinensis	RchiOBHm_Chr5g0040511 RchiOBHm_Chr5g0040931 RchiOBHm_Chr5g0040941
rosa_laevigata	RLG00000033986 RLG00000034014 RLG00000034016 RLG00000034026
rosa_multiflora	Rmu_co8051550.1_g000001 Rmu_co8392905.1_g000001 Rmu_sc0002475.1_g000019 Rmu_sc0002848.1_g000007 Rmu_sc0006651.1_g000007 Rmu_sc0006651.1_g000008 Rmu_sc0008620.1_g000001
rosa_roxburghii	Rroxscaffold_1G00039580 Rroxscaffold_1G00039750 Rroxscaffold_1G00039760 Rroxscaffold_1G00040130 Rroxscaffold_1G00040850
rosa_rugosa	Rorug02G0350900 Rorug02G0350900 Rorug02G0351000 Rorug05G0185500 Rorug05G0188700 Rorug05G0188900 Rorug05G0188900
rosa_samantha	Rh2AG398700 Rh2BG409100 Rh2CG385500 Rh2CG540800 Rh2DG418900 Rh5AG272400 Rh5AG274300 Rh5AG274400 Rh5AG344200 Rh5BG276400 Rh5BG279300 Rh5BG279400 Rh5CG308900 Rh5CG311400 Rh5CG311600 Rh5DG284900 Rh5DG287500
rosa_wichuraiana	Rw2G032480 Rw5G025510 Rw5G025770 Rw5G025780 Rw5G025790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	85
AccBSI	CCGCTC	1 cut(s)	133
AccII	CGCG	1 cut(s)	233
AciI	CCGC	4 cut(s)	94, 133, 226, 330
AclWI	GGATC	2 cut(s)	130, 143
AcsI	RAATTY	2 cut(s)	556, 584
AcuI	CTGAAG	1 cut(s)	462
AcvI	CACGTG	2 cut(s)	359, 1059
AcyI	GRCGYC	3 cut(s)	123, 210, 470
AfiI	CCNNNNNNNGG	6 cut(s)	82, 100, 132, 479, 802, 1035
AflIII	ACRYGT	3 cut(s)	358, 1056, 1058
AgsI	TTSAA	6 cut(s)	154, 556, 624, 638, 758, 959
AluBI	AGCT	2 cut(s)	179, 446
AluI	AGCT	2 cut(s)	179, 446
Alw21I	GWGCWC	1 cut(s)	415
Alw26I	GTCTC	1 cut(s)	364
AlwI	GGATC	2 cut(s)	130, 143
AoxI	GGCC	1 cut(s)	1040
ApeKI	GCWGC	6 cut(s)	396, 646, 676, 706, 736, 914
ApoI	RAATTY	2 cut(s)	556, 584
ArsI	GACNNNNNNTTYG	2 cut(s)	542, 574
AspLEI	GCGC	1 cut(s)	952
BamHI	GGATCC	1 cut(s)	135
BanI	GGYRCC	1 cut(s)	85
BanII	GRGCYC	1 cut(s)	606
BauI	CACGAG	1 cut(s)	408
BbrPI	CACGTG	2 cut(s)	359, 1059
BbsI	GAAGAC	1 cut(s)	473
Bbv12I	GWGCWC	1 cut(s)	415
BbvI	GCAGC	6 cut(s)	383, 658, 688, 718, 748, 901
BccI	CCATC	2 cut(s)	851, 916
BceAI	ACGGC	2 cut(s)	110, 197
BcgI	CGANNNNNNTGC	4 cut(s)	668, 698, 702, 732
BclI	TGATCA	1 cut(s)	421
BcoDI	GTCTC	1 cut(s)	364
BfaI	CTAG	2 cut(s)	140, 170
BfmI	CTRYAG	1 cut(s)	489
BisI	GCNGC	7 cut(s)	227, 397, 647, 677, 707, 737, 915
BlsI	GCNGC	7 cut(s)	228, 398, 648, 678, 708, 738, 916
BmiI	GGNNCC	3 cut(s)	87, 137, 603
BmsI	GCATC	2 cut(s)	793, 937
BpiI	GAAGAC	1 cut(s)	473
BplI	GAGNNNNNCTC	2 cut(s)	1027, 1059
Bpu10I	CCTNAGC	1 cut(s)	903
Bsa29I	ATCGAT	1 cut(s)	975
BsaAI	YACGTR	2 cut(s)	359, 1059
BsaHI	GRCGYC	3 cut(s)	123, 210, 470
BsaJI	CCNNGG	5 cut(s)	81, 126, 238, 304, 873
BsaXI	ACNNNNNCTCC	1 cut(s)	30
Bsc4I	CCNNNNNNNGG	6 cut(s)	82, 100, 132, 479, 802, 1035
BseCI	ATCGAT	1 cut(s)	975
BseDI	CCNNGG	5 cut(s)	81, 126, 238, 304, 873
BseGI	GGATG	4 cut(s)	183, 585, 658, 766
BseLI	CCNNNNNNNGG	6 cut(s)	82, 100, 132, 479, 802, 1035
BseMII	CTCAG	1 cut(s)	909
BseRI	GAGGAG	1 cut(s)	476
BseXI	GCAGC	6 cut(s)	383, 658, 688, 718, 748, 901
BsgI	GTGCAG	1 cut(s)	382
Bsh1236I	CGCG	1 cut(s)	233
Bsh1285I	CGRYCG	1 cut(s)	62
BshFI	GGCC	1 cut(s)	1042
BshNI	GGYRCC	1 cut(s)	85
BshVI	ATCGAT	1 cut(s)	975
BsiEI	CGRYCG	1 cut(s)	62
BsiHKAI	GWGCWC	1 cut(s)	415
BsiSI	CCGG	1 cut(s)	101
BslI	CCNNNNNNNGG	6 cut(s)	82, 100, 132, 479, 802, 1035
BsmAI	GTCTC	1 cut(s)	364
BsnI	GGCC	1 cut(s)	1042
Bsp1286I	GDGCHC	2 cut(s)	415, 606
Bsp143I	GATC	5 cut(s)	59, 135, 421, 562, 976
BspACI	CCGC	4 cut(s)	94, 133, 226, 330
BspANI	GGCC	1 cut(s)	1042
BspCNI	CTCAG	1 cut(s)	910
BspDI	ATCGAT	1 cut(s)	975
BspFNI	CGCG	1 cut(s)	233
BspLI	GGNNCC	3 cut(s)	87, 137, 603
BspPI	GGATC	2 cut(s)	130, 143
BspT107I	GGYRCC	1 cut(s)	85
BsrBI	CCGCTC	1 cut(s)	133
BssECI	CCNNGG	5 cut(s)	81, 126, 238, 304, 873
BssMI	GATC	5 cut(s)	59, 135, 421, 562, 976
BssNI	GRCGYC	3 cut(s)	123, 210, 470
BssSI	CACGAG	1 cut(s)	408
BssT1I	CCWWGG	2 cut(s)	304, 873
Bst2BI	CACGAG	1 cut(s)	408
Bst4CI	ACNGT	3 cut(s)	82, 250, 486
Bst6I	CTCTTC	4 cut(s)	284, 453, 633, 839
BstACI	GRCGYC	3 cut(s)	123, 210, 470
BstAPI	GCANNNNNTGC	1 cut(s)	410
BstBAI	YACGTR	2 cut(s)	359, 1059
BstC8I	GCNNGC	2 cut(s)	98, 231
BstDEI	CTNAG	3 cut(s)	903, 918, 929
BstDSI	CCRYGG	2 cut(s)	81, 126
BstF5I	GGATG	4 cut(s)	183, 585, 658, 766
BstFNI	CGCG	1 cut(s)	233
BstHHI	GCGC	1 cut(s)	952
BstKTI	GATC	5 cut(s)	62, 138, 424, 565, 979
BstMAI	GTCTC	1 cut(s)	364
BstMBI	GATC	5 cut(s)	59, 135, 421, 562, 976
BstMCI	CGRYCG	1 cut(s)	62
BstMWI	GCNNNNNNNGC	4 cut(s)	204, 362, 410, 923
BstNSI	RCATGY	1 cut(s)	596
BstSFI	CTRYAG	1 cut(s)	489
BstUI	CGCG	1 cut(s)	233
BstV1I	GCAGC	6 cut(s)	383, 658, 688, 718, 748, 901
BstV2I	GAAGAC	1 cut(s)	473
BstX2I	RGATCY	1 cut(s)	135
BstYI	RGATCY	1 cut(s)	135
Bsu15I	ATCGAT	1 cut(s)	975
BsuRI	GGCC	1 cut(s)	1042
BsuTUI	ATCGAT	1 cut(s)	975
BtgI	CCRYGG	2 cut(s)	81, 126
BtsCI	GGATG	4 cut(s)	183, 585, 658, 766
BtsI	GCAGTG	1 cut(s)	399
BtsIMutI	CAGTG	1 cut(s)	399
Cac8I	GCNNGC	2 cut(s)	98, 231
CfoI	GCGC	1 cut(s)	952
ClaI	ATCGAT	1 cut(s)	975
CseI	GACGC	3 cut(s)	131, 218, 478
CviAII	CATG	2 cut(s)	374, 593
DdeI	CTNAG	3 cut(s)	903, 918, 929
DpnI	GATC	5 cut(s)	61, 137, 423, 564, 978
DpnII	GATC	5 cut(s)	59, 135, 421, 562, 976
Eam1104I	CTCTTC	4 cut(s)	284, 453, 633, 839
EarI	CTCTTC	4 cut(s)	284, 453, 633, 839
EciI	GGCGGA	1 cut(s)	83
Eco130I	CCWWGG	2 cut(s)	304, 873
Eco24I	GRGCYC	1 cut(s)	606
Eco57I	CTGAAG	1 cut(s)	462
Eco72I	CACGTG	2 cut(s)	359, 1059
EcoT14I	CCWWGG	2 cut(s)	304, 873
EcoT38I	GRGCYC	1 cut(s)	606
ErhI	CCWWGG	2 cut(s)	304, 873
FaeI	CATG	2 cut(s)	377, 596
FaiI	YATR	8 cut(s)	147, 375, 384, 449, 594, 608, 945, 1070
FatI	CATG	2 cut(s)	373, 592
FbaI	TGATCA	1 cut(s)	421
Fnu4HI	GCNGC	7 cut(s)	227, 397, 647, 677, 707, 737, 915
FokI	GGATG	4 cut(s)	170, 592, 645, 753
FriOI	GRGCYC	1 cut(s)	606
Fsp4HI	GCNGC	7 cut(s)	227, 397, 647, 677, 707, 737, 915
FspBI	CTAG	2 cut(s)	140, 170
GlaI	GCGC	1 cut(s)	951
GluI	GCNGC	7 cut(s)	227, 397, 647, 677, 707, 737, 915
HaeIII	GGCC	1 cut(s)	1042
HapII	CCGG	1 cut(s)	101
HgaI	GACGC	3 cut(s)	131, 218, 478
HhaI	GCGC	1 cut(s)	952
Hin1I	GRCGYC	3 cut(s)	123, 210, 470
Hin1II	CATG	2 cut(s)	377, 596
Hin6I	GCGC	1 cut(s)	950
HinP1I	GCGC	1 cut(s)	950
HinfI	GANTC	3 cut(s)	13, 36, 524
HpaII	CCGG	1 cut(s)	101
Hpy166II	GTNNAC	2 cut(s)	121, 438
Hpy188III	TCNNGA	7 cut(s)	154, 170, 254, 416, 566, 635, 823
Hpy8I	GTNNAC	2 cut(s)	121, 438
Hpy99I	CGWCG	1 cut(s)	212
HpyAV	CCTTC	3 cut(s)	401, 630, 1088
HpyCH4III	ACNGT	3 cut(s)	82, 250, 486
HpyCH4IV	ACGT	3 cut(s)	336, 358, 1058
HpyCH4V	TGCA	9 cut(s)	45, 399, 404, 512, 646, 676, 706, 736, 784
HpyF10VI	GCNNNNNNNGC	4 cut(s)	204, 362, 410, 923
HpyF3I	CTNAG	3 cut(s)	903, 918, 929
HpySE526I	ACGT	3 cut(s)	336, 358, 1058
Hsp92I	GRCGYC	3 cut(s)	123, 210, 470
Hsp92II	CATG	2 cut(s)	377, 596
HspAI	GCGC	1 cut(s)	950
Ksp22I	TGATCA	1 cut(s)	421
Kzo9I	GATC	5 cut(s)	59, 135, 421, 562, 976
LmnI	GCTCC	3 cut(s)	130, 332, 601
Lsp1109I	GCAGC	6 cut(s)	383, 658, 688, 718, 748, 901
LweI	GCATC	2 cut(s)	793, 937
MaeI	CTAG	2 cut(s)	140, 170
MaeII	ACGT	3 cut(s)	336, 358, 1058
MaeIII	GTNAC	5 cut(s)	628, 664, 694, 724, 772
MalI	GATC	5 cut(s)	61, 137, 423, 564, 978
MbiI	CCGCTC	1 cut(s)	133
MboI	GATC	5 cut(s)	59, 135, 421, 562, 976
MboII	GAAGA	6 cut(s)	271, 470, 478, 650, 820, 856
MflI	RGATCY	1 cut(s)	135
MhlI	GDGCHC	2 cut(s)	415, 606
MluCI	AATT	4 cut(s)	297, 556, 584, 1050
MlyI	GAGTC	1 cut(s)	533
MseI	TTAA	3 cut(s)	588, 993, 1073
MspA1I	CMGCKG	1 cut(s)	226
MspI	CCGG	1 cut(s)	101
MvnI	CGCG	1 cut(s)	233
MwoI	GCNNNNNNNGC	4 cut(s)	204, 362, 410, 923
NdeII	GATC	5 cut(s)	59, 135, 421, 562, 976
NlaIII	CATG	2 cut(s)	377, 596
NlaIV	GGNNCC	3 cut(s)	87, 137, 603
NmeAIII	GCCGAG	2 cut(s)	219, 298
NmuCI	GTSAC	4 cut(s)	664, 694, 724, 772
NspI	RCATGY	1 cut(s)	596
PcsI	WCGNNNNNNNCGW	2 cut(s)	246, 342
PfeI	GAWTC	2 cut(s)	13, 36
PkrI	GCNGC	7 cut(s)	228, 398, 648, 678, 708, 738, 916
Ple19I	CGATCG	1 cut(s)	62
PleI	GAGTC	1 cut(s)	532
PmaCI	CACGTG	2 cut(s)	359, 1059
PmlI	CACGTG	2 cut(s)	359, 1059
PpsI	GAGTC	1 cut(s)	532
Ppu21I	YACGTR	2 cut(s)	359, 1059
PspCI	CACGTG	2 cut(s)	359, 1059
PspN4I	GGNNCC	3 cut(s)	87, 137, 603
PsuI	RGATCY	1 cut(s)	135
PvuI	CGATCG	1 cut(s)	62
SaqAI	TTAA	3 cut(s)	588, 993, 1073
SatI	GCNGC	7 cut(s)	227, 397, 647, 677, 707, 737, 915
Sau3AI	GATC	5 cut(s)	59, 135, 421, 562, 976
SchI	GAGTC	1 cut(s)	533
SduI	GDGCHC	2 cut(s)	415, 606
SfaNI	GCATC	2 cut(s)	793, 937
SfcI	CTRYAG	1 cut(s)	489
Sse9I	AATT	4 cut(s)	297, 556, 584, 1050
SsiI	CCGC	4 cut(s)	94, 133, 226, 330
SspI	AATATT	1 cut(s)	853
SspMI	CTAG	2 cut(s)	140, 170
StyI	CCWWGG	2 cut(s)	304, 873
TaaI	ACNGT	3 cut(s)	82, 250, 486
TaiI	ACGT	3 cut(s)	339, 361, 1061
TaqI	TCGA	4 cut(s)	62, 417, 822, 975
TasI	AATT	4 cut(s)	297, 556, 584, 1050
TauI	GCSGC	1 cut(s)	229
TfiI	GAWTC	2 cut(s)	13, 36
Tru1I	TTAA	3 cut(s)	588, 993, 1073
Tru9I	TTAA	3 cut(s)	588, 993, 1073
TscAI	CASTG	1 cut(s)	406
TseFI	GTSAC	4 cut(s)	664, 694, 724, 772
TseI	GCWGC	6 cut(s)	396, 646, 676, 706, 736, 914
Tsp45I	GTSAC	4 cut(s)	664, 694, 724, 772
TspDTI	ATGAA	4 cut(s)	65, 122, 596, 857
TspGWI	ACGGA	1 cut(s)	25
TspRI	CASTG	1 cut(s)	406
XapI	RAATTY	2 cut(s)	556, 584
XbaI	TCTAGA	1 cut(s)	169
XceI	RCATGY	1 cut(s)	596
XspI	CTAG	2 cut(s)	140, 170

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