Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001141

Physical Location & Seq

Genomic Coordinates Forward (+)

34366959 .. 34368799

Gene Structure 1841 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG311400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGAAACAAGCCGTGGCAGCCGTGGAGATGATCGTAAGCTACGCATTCAAGAACAAGAGGCTTCTAGAGGAGGCTCTCACCCACCCCTCCCATTCCGACGCTGTGTCGTATCAGCGGCTCGAGTTCGTCGGCGATGCCGTTCTTAGCCTCGCTGTAAGCAACTACCTTTTTCTTGCTTACCCCAGAATTGACCAAGGCAACCTCTCTATGCTACGCTCCGCTAACGTCAGTACCGAGAAGCTCGCACGTGTTGCCGTACGACACGGGCTTTTTCGCTTCCTTCGCCACTCTGCACCTGTTCTCGATGATAAGGTTAGGGAGTTTACTGAAGTTGTCAGTGGAGAAGAAGAGATGCCACTTGTATATAGAGGGTCTGTAAAAGCCCCAAAAGTTCTTGCAGATATTGTGGAGTCTGTGGCTGCTGCTATTTATGTTGATTTGAATTTTGATCTGGAAAAACTTTGGATGTTCTTTAGGCATGTTTTGGAGCCTATAGTGACGCTTGAAGACTTGCAGCAACAACCTCAACCCGTGACAAAGTTGTTTGAGGTTTGCCAAAAGCATGGGAAGCATGTCGACATTAAGTATTGGAGGGATGAGACGAAAAGCATTGCGAGTGTGTATGTTGATGGCAAGTTTGTTGCCTCGGGTTCTTCTGAACAGAAAGAAGTTGCCAAGGTCAATGCTGCTGAGATAGCTCTATATAAGTTGTCGAAATTGATGCGCATAGATGATGTGTCGATTGAAGTTATTGCTGGAATTGATGGGTCATTTCATATTGAAGGAGCAAAACATAAGTTGCATGAGCTATGTGGAAAGAAGAAGTGGCCTAAACCAATCTACAACATCAAGCAAGACAAAGGTTCTTCACATGAGAAGAAGTTTGTATCGACAGTTCAAATTGCAACTATTGATGGTGTGCTTTGTATGACGGGAGATGAAATGTCGAGAGTAAAGGATGCAGAGAATTCTGCAGCTTCTTTAATGATCCGTGCTTTGCAAGAGTCTGATTATGTATGA

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

339

Amino Acids

38.04

Weight (kDa)

6.61

Isoelectric Point (pI)

35.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribonucleas_3_3	PF14622	18 - 149	3.9e-18	Ribonuclease-III-like
Ribonuclease_3	PF00636	38 - 146	2.2e-22	Ribonuclease III domain
dsrm	PF00035	177 - 237	1.2e-08	Double-stranded RNA binding motif
DND1_DSRM	PF14709	262 - 334	3.9e-14	double strand RNA binding domain from DEAD END PROTEIN 1
dsrm	PF00035	263 - 333	8.6e-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

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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)
Acc16I	TGCGCA	1 cut(s)	725
AccI	GTMKAC	1 cut(s)	576
AciI	CCGC	2 cut(s)	115, 219
AclWI	GGATC	1 cut(s)	982
AcsI	RAATTY	2 cut(s)	442, 967
AcuI	CTGAAG	1 cut(s)	348
AcvI	CACGTG	1 cut(s)	248
AfaI	GTAC	2 cut(s)	232, 258
AflIII	ACRYGT	1 cut(s)	247
AgsI	TTSAA	6 cut(s)	49, 442, 506, 746, 782, 899
AhdI	GACNNNNNGTC	1 cut(s)	103
AluBI	AGCT	5 cut(s)	39, 241, 698, 808, 977
AluI	AGCT	5 cut(s)	39, 241, 698, 808, 977
Alw26I	GTCTC	1 cut(s)	593
AlwI	GGATC	1 cut(s)	982
Ama87I	CYCGRG	2 cut(s)	119, 646
AoxI	GGCC	1 cut(s)	827
ApeKI	GCWGC	6 cut(s)	17, 419, 422, 514, 686, 974
ApoI	RAATTY	2 cut(s)	442, 967
AspLEI	GCGC	1 cut(s)	726
AsuHPI	GGTGA	1 cut(s)	70
AvaI	CYCGRG	2 cut(s)	119, 646
BaeI	ACNNNNGTAYC	2 cut(s)	214, 247
BbrPI	CACGTG	1 cut(s)	248
BbsI	GAAGAC	1 cut(s)	513
BbvI	GCAGC	6 cut(s)	29, 406, 409, 526, 673, 986
BccI	CCATC	3 cut(s)	623, 758, 908
BceAI	ACGGC	3 cut(s)	5, 122, 239
BcgI	CGANNNNNNTGC	2 cut(s)	703, 737
BcoDI	GTCTC	1 cut(s)	593
BfaI	CTAG	1 cut(s)	65
BfmI	CTRYAG	2 cut(s)	492, 972
BisI	GCNGC	7 cut(s)	18, 116, 420, 423, 515, 687, 975
BlsI	GCNGC	7 cut(s)	19, 117, 421, 424, 516, 688, 976
BmeRI	GACNNNNNGTC	1 cut(s)	103
BmeT110I	CYCGRG	2 cut(s)	119, 646
BmiI	GGNNCC	1 cut(s)	489
BmsI	GCATC	4 cut(s)	124, 342, 711, 949
BpiI	GAAGAC	1 cut(s)	513
BsaAI	YACGTR	1 cut(s)	248
BsaJI	CCNNGG	5 cut(s)	12, 21, 193, 645, 675
Bse3DI	GCAATG	1 cut(s)	609
BseDI	CCNNGG	5 cut(s)	12, 21, 193, 645, 675
BseGI	GGATG	3 cut(s)	471, 601, 964
BseMI	GCAATG	1 cut(s)	609
BseMII	CTCAG	1 cut(s)	681
BseRI	GAGGAG	1 cut(s)	83
BseXI	GCAGC	6 cut(s)	29, 406, 409, 526, 673, 986
BsgI	GTGCAG	1 cut(s)	276
BshFI	GGCC	1 cut(s)	829
BsiHKCI	CYCGRG	2 cut(s)	119, 646
BsiWI	CGTACG	1 cut(s)	256
BsmAI	GTCTC	1 cut(s)	593
BsmBI	CGTCTC	1 cut(s)	593
BsmI	GAATGC	1 cut(s)	44
BsnI	GGCC	1 cut(s)	829
BsoBI	CYCGRG	2 cut(s)	119, 646
Bsp143I	GATC	3 cut(s)	30, 448, 987
BspACI	CCGC	2 cut(s)	115, 219
BspANI	GGCC	1 cut(s)	829
BspCNI	CTCAG	1 cut(s)	682
BspLI	GGNNCC	1 cut(s)	489
BspMAI	CTGCAG	1 cut(s)	976
BspPI	GGATC	1 cut(s)	982
BsrDI	GCAATG	1 cut(s)	609
BssECI	CCNNGG	5 cut(s)	12, 21, 193, 645, 675
BssMI	GATC	3 cut(s)	30, 448, 987
BssT1I	CCWWGG	2 cut(s)	193, 675
Bst4CI	ACNGT	1 cut(s)	895
Bst6I	CTCTTC	1 cut(s)	342
BstAPI	GCANNNNNTGC	1 cut(s)	251
BstBAI	YACGTR	1 cut(s)	248
BstC8I	GCNNGC	1 cut(s)	243
BstDEI	CTNAG	2 cut(s)	143, 690
BstDSI	CCRYGG	2 cut(s)	12, 21
BstF5I	GGATG	3 cut(s)	471, 601, 964
BstHHI	GCGC	1 cut(s)	726
BstKTI	GATC	3 cut(s)	33, 451, 990
BstMAI	GTCTC	1 cut(s)	593
BstMBI	GATC	3 cut(s)	30, 448, 987
BstMWI	GCNNNNNNNGC	5 cut(s)	17, 251, 282, 568, 695
BstNSI	RCATGY	2 cut(s)	482, 575
BstSFI	CTRYAG	2 cut(s)	492, 972
BstV1I	GCAGC	6 cut(s)	29, 406, 409, 526, 673, 986
BstV2I	GAAGAC	1 cut(s)	513
BstXI	CCANNNNNNTGG	1 cut(s)	563
BsuRI	GGCC	1 cut(s)	829
BtgI	CCRYGG	2 cut(s)	12, 21
BtgZI	GCGATG	1 cut(s)	147
BtsCI	GGATG	3 cut(s)	471, 601, 964
BtsIMutI	CAGTG	1 cut(s)	343
Cac8I	GCNNGC	1 cut(s)	243
CfoI	GCGC	1 cut(s)	726
CseI	GACGC	2 cut(s)	107, 508
Csp6I	GTAC	2 cut(s)	231, 257
CviAII	CATG	5 cut(s)	479, 563, 572, 803, 872
CviQI	GTAC	2 cut(s)	231, 257
DdeI	CTNAG	2 cut(s)	143, 690
DpnI	GATC	3 cut(s)	32, 450, 989
DpnII	GATC	3 cut(s)	30, 448, 987
DriI	GACNNNNNGTC	1 cut(s)	103
Eam1104I	CTCTTC	1 cut(s)	342
Eam1105I	GACNNNNNGTC	1 cut(s)	103
EarI	CTCTTC	1 cut(s)	342
Eco130I	CCWWGG	2 cut(s)	193, 675
Eco57I	CTGAAG	1 cut(s)	348
Eco72I	CACGTG	1 cut(s)	248
Eco88I	CYCGRG	2 cut(s)	119, 646
EcoRI	GAATTC	1 cut(s)	967
EcoT14I	CCWWGG	2 cut(s)	193, 675
ErhI	CCWWGG	2 cut(s)	193, 675
Esp3I	CGTCTC	1 cut(s)	593
FaeI	CATG	5 cut(s)	482, 566, 575, 806, 875
FatI	CATG	5 cut(s)	478, 562, 571, 802, 871
FblI	GTMKAC	1 cut(s)	576
Fnu4HI	GCNGC	7 cut(s)	18, 116, 420, 423, 515, 687, 975
FokI	GGATG	3 cut(s)	478, 608, 971
Fsp4HI	GCNGC	7 cut(s)	18, 116, 420, 423, 515, 687, 975
FspAI	RTGCGCAY	1 cut(s)	725
FspBI	CTAG	1 cut(s)	65
FspI	TGCGCA	1 cut(s)	725
GlaI	GCGC	1 cut(s)	725
GluI	GCNGC	7 cut(s)	18, 116, 420, 423, 515, 687, 975
HaeIII	GGCC	1 cut(s)	829
HgaI	GACGC	2 cut(s)	107, 508
HhaI	GCGC	1 cut(s)	726
Hin1II	CATG	5 cut(s)	482, 566, 575, 806, 875
Hin6I	GCGC	1 cut(s)	724
HinP1I	GCGC	1 cut(s)	724
HincII	GTYRAC	1 cut(s)	577
HindII	GTYRAC	1 cut(s)	577
HinfI	GANTC	2 cut(s)	410, 1004
HphI	GGTGA	1 cut(s)	70
Hpy166II	GTNNAC	2 cut(s)	324, 577
Hpy188I	TCNGA	3 cut(s)	97, 658, 1009
Hpy188III	TCNNGA	5 cut(s)	49, 65, 302, 452, 948
Hpy8I	GTNNAC	2 cut(s)	324, 577
Hpy99I	CGWCG	2 cut(s)	101, 131
HpyAV	CCTTC	2 cut(s)	290, 776
HpyCH4III	ACNGT	1 cut(s)	895
HpyCH4IV	ACGT	2 cut(s)	225, 247
HpyCH4V	TGCA	8 cut(s)	293, 398, 514, 802, 905, 962, 974, 1000
HpyF10VI	GCNNNNNNNGC	5 cut(s)	17, 251, 282, 568, 695
HpyF3I	CTNAG	2 cut(s)	143, 690
HpySE526I	ACGT	2 cut(s)	225, 247
Hsp92II	CATG	5 cut(s)	482, 566, 575, 806, 875
HspAI	GCGC	1 cut(s)	724
Kzo9I	GATC	3 cut(s)	30, 448, 987
LmnI	GCTCC	3 cut(s)	221, 487, 785
LpnPI	CCDG	4 cut(s)	196, 309, 437, 741
Lsp1109I	GCAGC	6 cut(s)	29, 406, 409, 526, 673, 986
LweI	GCATC	4 cut(s)	124, 342, 711, 949
MaeI	CTAG	1 cut(s)	65
MaeII	ACGT	2 cut(s)	225, 247
MaeIII	GTNAC	2 cut(s)	496, 532
MalI	GATC	3 cut(s)	32, 450, 989
MboI	GATC	3 cut(s)	30, 448, 987
MboII	GAAGA	7 cut(s)	356, 359, 518, 645, 832, 858, 889
MluCI	AATT	6 cut(s)	186, 442, 716, 759, 900, 967
MlyI	GAGTC	2 cut(s)	419, 1013
MmeI	TCCRAC	1 cut(s)	120
MseI	TTAA	2 cut(s)	582, 983
MspA1I	CMGCKG	1 cut(s)	115
Mva1269I	GAATGC	1 cut(s)	44
MwoI	GCNNNNNNNGC	5 cut(s)	17, 251, 282, 568, 695
NdeII	GATC	3 cut(s)	30, 448, 987
NlaIII	CATG	5 cut(s)	482, 566, 575, 806, 875
NlaIV	GGNNCC	1 cut(s)	489
NmuCI	GTSAC	2 cut(s)	496, 532
NsbI	TGCGCA	1 cut(s)	725
NspI	RCATGY	2 cut(s)	482, 575
PaeR7I	CTCGAG	1 cut(s)	119
PcsI	WCGNNNNNNNCGW	2 cut(s)	135, 231
PctI	GAATGC	1 cut(s)	44
Pfl23II	CGTACG	1 cut(s)	256
PkrI	GCNGC	7 cut(s)	19, 117, 421, 424, 516, 688, 976
PleI	GAGTC	2 cut(s)	418, 1012
PmaCI	CACGTG	1 cut(s)	248
PmlI	CACGTG	1 cut(s)	248
PpsI	GAGTC	2 cut(s)	418, 1012
Ppu21I	YACGTR	1 cut(s)	248
PspCI	CACGTG	1 cut(s)	248
PspLI	CGTACG	1 cut(s)	256
PspN4I	GGNNCC	1 cut(s)	489
PspXI	VCTCGAGB	1 cut(s)	119
PsrI	GAACNNNNNNTAC	2 cut(s)	879, 911
PstI	CTGCAG	1 cut(s)	976
RsaI	GTAC	2 cut(s)	232, 258
RsaNI	GTAC	2 cut(s)	231, 257
SalI	GTCGAC	1 cut(s)	575
SaqAI	TTAA	2 cut(s)	582, 983
SatI	GCNGC	7 cut(s)	18, 116, 420, 423, 515, 687, 975
Sau3AI	GATC	3 cut(s)	30, 448, 987
SchI	GAGTC	2 cut(s)	419, 1013
SfaNI	GCATC	4 cut(s)	124, 342, 711, 949
SfcI	CTRYAG	2 cut(s)	492, 972
Sfr274I	CTCGAG	1 cut(s)	119
SlaI	CTCGAG	1 cut(s)	119
SmlI	CTYRAG	1 cut(s)	119
SmoI	CTYRAG	1 cut(s)	119
Sse9I	AATT	6 cut(s)	186, 442, 716, 759, 900, 967
SsiI	CCGC	2 cut(s)	115, 219
SspMI	CTAG	1 cut(s)	65
StyI	CCWWGG	2 cut(s)	193, 675
TaaI	ACNGT	1 cut(s)	895
TaiI	ACGT	2 cut(s)	228, 250
TaqI	TCGA	7 cut(s)	120, 303, 576, 713, 740, 890, 947
TasI	AATT	6 cut(s)	186, 442, 716, 759, 900, 967
TauI	GCSGC	1 cut(s)	118
Tru1I	TTAA	2 cut(s)	582, 983
Tru9I	TTAA	2 cut(s)	582, 983
TscAI	CASTG	1 cut(s)	343
TseFI	GTSAC	2 cut(s)	496, 532
TseI	GCWGC	6 cut(s)	17, 419, 422, 514, 686, 974
Tsp45I	GTSAC	2 cut(s)	496, 532
TspDTI	ATGAA	3 cut(s)	17, 764, 954
TspGWI	ACGGA	1 cut(s)	980
TspRI	CASTG	1 cut(s)	343
XapI	RAATTY	2 cut(s)	442, 967
XbaI	TCTAGA	1 cut(s)	64
XceI	RCATGY	2 cut(s)	482, 575
XhoI	CTCGAG	1 cut(s)	119
XmiI	GTMKAC	1 cut(s)	576
XspI	CTAG	1 cut(s)	65

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