Basic Information

Type: Sequence Only

Biological Identity

Species

rosa_samantha

Chromosome

Unknown

Orthogroup ID

OG0001141

Physical Location & Seq

Genomic Coordinates Reverse (-)

0 .. 0

Gene Structure 1 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG287500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1077 bp

ATGAACCCTTACTTGAACATGAAAATCTTCACCCAAACACCACGCGACCTCCACGCACCACCACCACCCTCGCCGGAAATGAAACAAGCCGTGGCAGCCGTGGAGATAATCGTAAGCTACGCATTCAAGAACAAGAGGCTTCTAGAGGAGGCTCTCACCCACCCCTCCCATTCCGACGCTGTGTCGTATCAGCGGCTCGAGTTCGTCGGCGATGCCGTTCTTAGCCTCGCTGTAAGCAACTACCTTTTTCTTGCTTACCCCAGAATTGACCAAGGCAACCTCTCTATGCTACGCTCCGCTAACGTCAGTACCGAGAAGCTCGCACGTGTTGCCGTACGACACGGGCTTTTTGGCTTCCTTCGCCACTCTGCACCTGTTCTCGATGATAAGGTTAGGGAGTTTACTGAAGTTGTAAGCCGAGAAGAGGAGAAGACGCCGGTATATAGAGGTTCTGTAGAAGCCTCCAGAGTTCTTGCAGAGATTGTGGAGTCTGTGGCTGGTGCTATTTACGTTGACTTGAATTTTGATCTCGAAAAACTTTGGAAGATTTTTGGGCATGTTTTGGAGCCTATAGTTACTATTGAAGAGTTGCAGCAACAACCTCACCCCGTCACAAAGTTGCATCAGTTTTGTCAGAAGCACGGGAAGCTTGCCAAGATCGAGTGCGAGAGAGATGAGACCAAGAGTACTGCGAATGTGTATGTTGATGGCATGCTTGTTGCCTCGGGTTCTTCTGAACAGAAAAAAATTGCTGAGGTCAGTGCTGCTGAGATGGCTTTGTGTAACTTGATGCAATCGATGTGCACGAATGATGCGTCGGTTGAAGGTGCTGCTGGAATTGATGGGTCATTTCCTGTTGAAAGAGCAACAAATGAGTTGCATAATCTTTGTGCCAAGAAGAAGTGGCCTAAACCAAATTACACCATCGAGCATGAAGAAGGTCCTCCACACGTGAAGAAGTTTGTATCCAAGGTAACTATAGATGGTGTGCTATCTGTAACAGGAGATGAAAAGTCGAGACTGAAACATGCGAAGCATTCTGCTGCTTCTTTGATGATCCGCCGTCTGCAAGACTGA

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

358

Amino Acids

39.84

Weight (kDa)

6.55

Isoelectric Point (pI)

38.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribonucleas_3_3	PF14622	44 - 174	3.8e-18	Ribonuclease-III-like
Ribonuclease_3	PF00636	64 - 172	7.3e-22	Ribonuclease III domain
dsrm	PF00035	203 - 263	5.3e-11	Double-stranded RNA binding motif
DND1_DSRM	PF14709	289 - 356	7.1e-12	double strand RNA binding domain from DEAD END PROTEIN 1
dsrm	PF00035	291 - 356	7.8e-13	Double-stranded RNA binding motif

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)
AccII	CGCG	1 cut(s)	45
AciI	CCGC	3 cut(s)	193, 297, 1060
AclWI	GGATC	1 cut(s)	1051
AcsI	RAATTY	1 cut(s)	520
AcuI	CTGAAG	1 cut(s)	426
AcvI	CACGTG	2 cut(s)	326, 952
AcyI	GRCGYC	1 cut(s)	434
AfaI	GTAC	3 cut(s)	310, 336, 688
AfiI	CCNNNNNNNGG	1 cut(s)	424
AflIII	ACRYGT	2 cut(s)	325, 949
AgsI	TTSAA	6 cut(s)	16, 127, 520, 584, 824, 860
AhdI	GACNNNNNGTC	1 cut(s)	181
AluBI	AGCT	3 cut(s)	117, 319, 649
AluI	AGCT	3 cut(s)	117, 319, 649
Alw21I	GWGCWC	1 cut(s)	806
Alw26I	GTCTC	2 cut(s)	671, 1012
Alw44I	GTGCAC	1 cut(s)	802
AlwI	GGATC	1 cut(s)	1051
Ama87I	CYCGRG	2 cut(s)	197, 724
AoxI	GGCC	1 cut(s)	905
ApaLI	GTGCAC	1 cut(s)	802
ApeKI	GCWGC	5 cut(s)	95, 592, 764, 830, 1043
ApoI	RAATTY	1 cut(s)	520
ArsI	GACNNNNNNTTYG	4 cut(s)	506, 538, 800, 832
Asp700I	GAANNNNTTC	1 cut(s)	26
AspS9I	GGNCC	1 cut(s)	941
AsuHPI	GGTGA	3 cut(s)	22, 148, 596
AvaI	CYCGRG	2 cut(s)	197, 724
AvaII	GGWCC	1 cut(s)	941
BaeGI	GKGCMC	1 cut(s)	806
BaeI	ACNNNNGTAYC	2 cut(s)	292, 325
BbrPI	CACGTG	2 cut(s)	326, 952
BbsI	GAAGAC	1 cut(s)	437
Bbv12I	GWGCWC	1 cut(s)	806
BbvCI	CCTCAGC	1 cut(s)	753
BbvI	GCAGC	5 cut(s)	107, 604, 751, 817, 1030
BccI	CCATC	5 cut(s)	701, 766, 836, 932, 977
BceAI	ACGGC	5 cut(s)	74, 83, 200, 317, 1047
BciVI	GTATCC	1 cut(s)	976
BcoDI	GTCTC	2 cut(s)	671, 1012
BfaI	CTAG	1 cut(s)	143
BfmI	CTRYAG	3 cut(s)	453, 570, 978
BfuI	GTATCC	1 cut(s)	976
BisI	GCNGC	6 cut(s)	96, 194, 593, 765, 831, 1044
BlsI	GCNGC	6 cut(s)	97, 195, 594, 766, 832, 1045
BmcAI	AGTACT	1 cut(s)	688
Bme18I	GGWCC	1 cut(s)	941
BmeRI	GACNNNNNGTC	1 cut(s)	181
BmeT110I	CYCGRG	2 cut(s)	197, 724
BmgT120I	GGNCC	1 cut(s)	941
BmiI	GGNNCC	1 cut(s)	567
BmsI	GCATC	4 cut(s)	202, 631, 780, 802
BpiI	GAAGAC	1 cut(s)	437
BpmI	CTGGAG	1 cut(s)	448
Bpu10I	CCTNAGC	1 cut(s)	753
Bsa29I	ATCGAT	1 cut(s)	797
BsaAI	YACGTR	2 cut(s)	326, 952
BsaHI	GRCGYC	1 cut(s)	434
BsaI	GGTCTC	1 cut(s)	671
BsaJI	CCNNGG	5 cut(s)	90, 99, 271, 723, 969
BsaXI	ACNNNNNCTCC	2 cut(s)	33, 63
Bsc4I	CCNNNNNNNGG	1 cut(s)	424
Bse118I	RCCGGY	1 cut(s)	436
BseCI	ATCGAT	1 cut(s)	797
BseDI	CCNNGG	5 cut(s)	90, 99, 271, 723, 969
BseLI	CCNNNNNNNGG	1 cut(s)	424
BseMII	CTCAG	2 cut(s)	744, 759
BseRI	GAGGAG	2 cut(s)	161, 440
BseSI	GKGCMC	1 cut(s)	806
BseXI	GCAGC	5 cut(s)	107, 604, 751, 817, 1030
BsgI	GTGCAG	1 cut(s)	354
Bsh1236I	CGCG	1 cut(s)	45
BshFI	GGCC	1 cut(s)	907
BshVI	ATCGAT	1 cut(s)	797
BsiHKAI	GWGCWC	1 cut(s)	806
BsiHKCI	CYCGRG	2 cut(s)	197, 724
BsiSI	CCGG	2 cut(s)	74, 437
BsiWI	CGTACG	1 cut(s)	334
BslI	CCNNNNNNNGG	1 cut(s)	424
BsmAI	GTCTC	2 cut(s)	671, 1012
BsmI	GAATGC	2 cut(s)	122, 1036
BsnI	GGCC	1 cut(s)	907
Bso31I	GGTCTC	1 cut(s)	671
BsoBI	CYCGRG	2 cut(s)	197, 724
Bsp1286I	GDGCHC	1 cut(s)	806
Bsp143I	GATC	3 cut(s)	526, 657, 1056
BspACI	CCGC	3 cut(s)	193, 297, 1060
BspANI	GGCC	1 cut(s)	907
BspCNI	CTCAG	2 cut(s)	745, 760
BspDI	ATCGAT	1 cut(s)	797
BspFNI	CGCG	1 cut(s)	45
BspLI	GGNNCC	1 cut(s)	567
BspPI	GGATC	1 cut(s)	1051
BspTNI	GGTCTC	1 cut(s)	671
BsrFI	RCCGGY	1 cut(s)	436
BssAI	RCCGGY	1 cut(s)	436
BssECI	CCNNGG	5 cut(s)	90, 99, 271, 723, 969
BssMI	GATC	3 cut(s)	526, 657, 1056
BssNI	GRCGYC	1 cut(s)	434
BssT1I	CCWWGG	2 cut(s)	271, 969
Bst6I	CTCTTC	2 cut(s)	417, 579
BstACI	GRCGYC	1 cut(s)	434
BstAPI	GCANNNNNTGC	1 cut(s)	329
BstBAI	YACGTR	2 cut(s)	326, 952
BstC8I	GCNNGC	3 cut(s)	321, 651, 713
BstDEI	CTNAG	3 cut(s)	221, 753, 768
BstDSI	CCRYGG	2 cut(s)	90, 99
BstFNI	CGCG	1 cut(s)	45
BstKTI	GATC	3 cut(s)	529, 660, 1059
BstMAI	GTCTC	2 cut(s)	671, 1012
BstMBI	GATC	3 cut(s)	526, 657, 1056
BstMWI	GCNNNNNNNGC	5 cut(s)	95, 329, 360, 646, 773
BstNSI	RCATGY	3 cut(s)	560, 715, 1031
BstSFI	CTRYAG	3 cut(s)	453, 570, 978
BstSLI	GKGCMC	1 cut(s)	806
BstUI	CGCG	1 cut(s)	45
BstV1I	GCAGC	5 cut(s)	107, 604, 751, 817, 1030
BstV2I	GAAGAC	1 cut(s)	437
Bsu15I	ATCGAT	1 cut(s)	797
BsuI	GTATCC	1 cut(s)	976
BsuRI	GGCC	1 cut(s)	907
BsuTUI	ATCGAT	1 cut(s)	797
BtgI	CCRYGG	2 cut(s)	90, 99
BtgZI	GCGATG	1 cut(s)	225
BtsIMutI	CAGTG	1 cut(s)	766
Cac8I	GCNNGC	3 cut(s)	321, 651, 713
Cfr10I	RCCGGY	1 cut(s)	436
Cfr13I	GGNCC	1 cut(s)	941
ClaI	ATCGAT	1 cut(s)	797
CseI	GACGC	3 cut(s)	185, 442, 804
Csp6I	GTAC	3 cut(s)	309, 335, 687
CviAII	CATG	5 cut(s)	19, 557, 712, 932, 1028
CviQI	GTAC	3 cut(s)	309, 335, 687
DdeI	CTNAG	3 cut(s)	221, 753, 768
DpnI	GATC	3 cut(s)	528, 659, 1058
DpnII	GATC	3 cut(s)	526, 657, 1056
DriI	GACNNNNNGTC	1 cut(s)	181
Eam1104I	CTCTTC	2 cut(s)	417, 579
Eam1105I	GACNNNNNGTC	1 cut(s)	181
EarI	CTCTTC	2 cut(s)	417, 579
EciI	GGCGGA	1 cut(s)	1049
Eco130I	CCWWGG	2 cut(s)	271, 969
Eco31I	GGTCTC	1 cut(s)	671
Eco47I	GGWCC	1 cut(s)	941
Eco57I	CTGAAG	1 cut(s)	426
Eco72I	CACGTG	2 cut(s)	326, 952
Eco88I	CYCGRG	2 cut(s)	197, 724
EcoO109I	RGGNCCY	1 cut(s)	941
EcoT14I	CCWWGG	2 cut(s)	271, 969
ErhI	CCWWGG	2 cut(s)	271, 969
FaeI	CATG	5 cut(s)	22, 560, 715, 935, 1031
FatI	CATG	5 cut(s)	18, 556, 711, 931, 1027
Fnu4HI	GCNGC	6 cut(s)	96, 194, 593, 765, 831, 1044
Fsp4HI	GCNGC	6 cut(s)	96, 194, 593, 765, 831, 1044
FspBI	CTAG	1 cut(s)	143
GluI	GCNGC	6 cut(s)	96, 194, 593, 765, 831, 1044
GsuI	CTGGAG	1 cut(s)	448
HaeIII	GGCC	1 cut(s)	907
HapII	CCGG	2 cut(s)	74, 437
HgaI	GACGC	3 cut(s)	185, 442, 804
Hin1I	GRCGYC	1 cut(s)	434
Hin1II	CATG	5 cut(s)	22, 560, 715, 935, 1031
HincII	GTYRAC	1 cut(s)	514
HindII	GTYRAC	1 cut(s)	514
HindIII	AAGCTT	1 cut(s)	647
HinfI	GANTC	1 cut(s)	488
HpaII	CCGG	2 cut(s)	74, 437
HphI	GGTGA	3 cut(s)	22, 148, 596
Hpy166II	GTNNAC	3 cut(s)	402, 514, 804
Hpy188I	TCNGA	3 cut(s)	175, 636, 736
Hpy188III	TCNNGA	6 cut(s)	127, 143, 380, 465, 530, 1017
Hpy8I	GTNNAC	3 cut(s)	402, 514, 804
Hpy99I	CGWCG	3 cut(s)	179, 209, 820
HpyAV	CCTTC	3 cut(s)	368, 818, 932
HpyCH4IV	ACGT	4 cut(s)	303, 325, 510, 951
HpyCH4V	TGCA	8 cut(s)	371, 476, 592, 622, 793, 804, 880, 1069
HpyF10VI	GCNNNNNNNGC	5 cut(s)	95, 329, 360, 646, 773
HpyF3I	CTNAG	3 cut(s)	221, 753, 768
HpySE526I	ACGT	4 cut(s)	303, 325, 510, 951
Hsp92I	GRCGYC	1 cut(s)	434
Hsp92II	CATG	5 cut(s)	22, 560, 715, 935, 1031
Kzo9I	GATC	3 cut(s)	526, 657, 1056
LmnI	GCTCC	2 cut(s)	299, 565
LpnPI	CCDG	9 cut(s)	87, 274, 387, 450, 478, 483, 819, 867, 987
Lsp1109I	GCAGC	5 cut(s)	107, 604, 751, 817, 1030
LweI	GCATC	4 cut(s)	202, 631, 780, 802
MaeI	CTAG	1 cut(s)	143
MaeII	ACGT	4 cut(s)	303, 325, 510, 951
MaeIII	GTNAC	5 cut(s)	574, 610, 782, 973, 997
MalI	GATC	3 cut(s)	528, 659, 1058
MboI	GATC	3 cut(s)	526, 657, 1056
MboII	GAAGA	9 cut(s)	19, 434, 442, 556, 596, 723, 910, 947, 967
MhlI	GDGCHC	1 cut(s)	806
MluCI	AATT	5 cut(s)	264, 520, 747, 837, 916
MlyI	GAGTC	1 cut(s)	497
MmeI	TCCRAC	1 cut(s)	198
MroXI	GAANNNNTTC	1 cut(s)	26
MspA1I	CMGCKG	1 cut(s)	193
MspI	CCGG	2 cut(s)	74, 437
Mva1269I	GAATGC	2 cut(s)	122, 1036
MvnI	CGCG	1 cut(s)	45
MwoI	GCNNNNNNNGC	5 cut(s)	95, 329, 360, 646, 773
NdeII	GATC	3 cut(s)	526, 657, 1056
NlaIII	CATG	5 cut(s)	22, 560, 715, 935, 1031
NlaIV	GGNNCC	1 cut(s)	567
NmeAIII	GCCGAG	1 cut(s)	443
NmuCI	GTSAC	1 cut(s)	610
NspI	RCATGY	3 cut(s)	560, 715, 1031
PaeI	GCATGC	1 cut(s)	715
PaeR7I	CTCGAG	1 cut(s)	197
PcsI	WCGNNNNNNNCGW	4 cut(s)	213, 309, 803, 812
PctI	GAATGC	2 cut(s)	122, 1036
PdmI	GAANNNNTTC	1 cut(s)	26
Pfl23II	CGTACG	1 cut(s)	334
PkrI	GCNGC	6 cut(s)	97, 195, 594, 766, 832, 1045
PleI	GAGTC	1 cut(s)	496
PmaCI	CACGTG	2 cut(s)	326, 952
PmlI	CACGTG	2 cut(s)	326, 952
PpsI	GAGTC	1 cut(s)	496
Ppu21I	YACGTR	2 cut(s)	326, 952
PpuMI	RGGWCCY	1 cut(s)	941
Psp5II	RGGWCCY	1 cut(s)	941
PspCI	CACGTG	2 cut(s)	326, 952
PspLI	CGTACG	1 cut(s)	334
PspN4I	GGNNCC	1 cut(s)	567
PspPI	GGNCC	1 cut(s)	941
PspPPI	RGGWCCY	1 cut(s)	941
PspXI	VCTCGAGB	1 cut(s)	197
RsaI	GTAC	3 cut(s)	310, 336, 688
RsaNI	GTAC	3 cut(s)	309, 335, 687
SatI	GCNGC	6 cut(s)	96, 194, 593, 765, 831, 1044
Sau3AI	GATC	3 cut(s)	526, 657, 1056
Sau96I	GGNCC	1 cut(s)	941
ScaI	AGTACT	1 cut(s)	688
SchI	GAGTC	1 cut(s)	497
SduI	GDGCHC	1 cut(s)	806
SfaNI	GCATC	4 cut(s)	202, 631, 780, 802
SfcI	CTRYAG	3 cut(s)	453, 570, 978
Sfr274I	CTCGAG	1 cut(s)	197
SinI	GGWCC	1 cut(s)	941
SlaI	CTCGAG	1 cut(s)	197
SmlI	CTYRAG	1 cut(s)	197
SmoI	CTYRAG	1 cut(s)	197
SphI	GCATGC	1 cut(s)	715
Sse9I	AATT	5 cut(s)	264, 520, 747, 837, 916
SsiI	CCGC	3 cut(s)	193, 297, 1060
SspMI	CTAG	1 cut(s)	143
StyI	CCWWGG	2 cut(s)	271, 969
TaiI	ACGT	4 cut(s)	306, 328, 513, 954
TaqI	TCGA	7 cut(s)	198, 381, 531, 660, 797, 927, 1016
TasI	AATT	5 cut(s)	264, 520, 747, 837, 916
TatI	WGTACW	1 cut(s)	686
TauI	GCSGC	1 cut(s)	196
TscAI	CASTG	1 cut(s)	766
TseFI	GTSAC	1 cut(s)	610
TseI	GCWGC	5 cut(s)	95, 592, 764, 830, 1043
Tsp45I	GTSAC	1 cut(s)	610
TspDTI	ATGAA	5 cut(s)	17, 35, 95, 948, 1023
TspRI	CASTG	1 cut(s)	766
VneI	GTGCAC	1 cut(s)	802
VpaK11BI	GGWCC	1 cut(s)	941
XapI	RAATTY	1 cut(s)	520
XbaI	TCTAGA	1 cut(s)	142
XceI	RCATGY	3 cut(s)	560, 715, 1031
XhoI	CTCGAG	1 cut(s)	197
XmnI	GAANNNNTTC	1 cut(s)	26
XspI	CTAG	1 cut(s)	143
ZrmI	AGTACT	1 cut(s)	688

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