Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0004428

Physical Location & Seq

Genomic Coordinates Forward (+)

78804728 .. 78806489

Gene Structure 1762 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG558700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 894 bp

ATGGGAGCCGAACCCCAAGAAACTCCTATTCAGATGAACGAAGTGAAACAGAGCTTGTTAGAGACCGAATCAACAACCTTGACCGAGTCGTCCCTGCCGAGTCTGGATGAAGTGGAGGAGATCATAGGCTACAAATTCGAGAACAAGAACCTGCTAGAAGAGGCCTTCACGCATTCTTCTTTTATGTGCAGCTTTTCTTACGAGCGTTTGGAGTACATCGGCGACGCCGTGCTGAATCTGTTGTTTAGCCGGGAACAGTACTTTTTGTACCCGGATTTGGCCCCCGGAAAGCTGACCCGACTCAGGGCCGCCAATGTTGACACCGAGAAGCTGGCACGTGTGGCCCTCCGACACGGGTTCCACCGCTACCTACGCCACAAGAAACGTTTGCTTGAAGATCAAATCCAAGAGTTTGCTCGAGCAGTTCTCGATTATCCATTGCACTCCAATGGTCTTATTGATGCTCCAAAAGATCTTGCAGATCTTGTGGAATCCACAATCGGGGCAGTTTTCATGGACTGCAACTCGATAGACATAGTCTGGGAGGTATTCAAGGGCTTGCTGGAGCCGATAATAACTCCAGAAACAATACAAATACATTTCAACACCCAGCTGAATGAGTTATGTCAAAAGAACAATCGGAGTCTCAAATATGTAGACTCATGGGAGAAAAACAAAGCTGTGGATTGTTTCATTGACGGTCAATTTGTTGGAAGGGGTACCTACAGTCTTCGGAAGGAAGTTGCACAGAACCGAGCAGCAAAAGATGCTTTGGACAACAGGTGGAAGTGGATGGTGTTACGCGAGAAAGACACTGCTGATGAAGAGCAAGAAGAAGAGAGTCCTACCAGTCAATTATCCGAGGAAGAATTCGAAGTTAATGAACAAGCTTGA

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

Ribonucleas_3_3 Ribonuclease_3 dsrm

Protein Analysis

297

Amino Acids

34.3

Weight (kDa)

4.74

Isoelectric Point (pI)

43.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribonucleas_3_3	PF14622	48 - 173	1.4e-14	Ribonuclease-III-like
Ribonuclease_3	PF00636	68 - 174	1.5e-20	Ribonuclease III domain
dsrm	PF00035	203 - 260	1.6e-06	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: OG0004428)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G15417 AT4G15417
fragaria_vesca	FvH4_5g08550 FvH4_6g42650
malus_domestica	MD09G1111700.v1.1 MD17G1102000.v1.1
prunus_persica	Prupe.3G213200_v2.0.a1
pyrus_communis	pycom09g03630 pycom17g09640
rosa_chinensis	RchiOBHm_Chr2g0158531 RchiOBHm_Chr7g0189841
rosa_laevigata	RLG00000004582 RLG00000021094
rosa_multiflora	Rmu_co8278635.1_g000001 Rmu_sc0000512.1_g000018 Rmu_sc0005896.1_g000003 Rmu_sc0005896.1_g000004 Rmu_sc0017496.1_g000006
rosa_roxburghii	Rroxscaffold_2G00091270 Rroxscaffold_3G00265090
rosa_rugosa	Rorug02G0469800 Rorug06G0500300
rosa_samantha	Rh2AG535800 Rh2BG549000 Rh2CG519500 Rh2DG558700 Rh7AG105600 Rh7BG108400 Rh7CG110400 Rh7DG108700
rosa_wichuraiana	Rw2G044370 Rw7G009150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	88
Acc36I	ACCTGC	1 cut(s)	159
Acc65I	GGTACC	1 cut(s)	719
AccB1I	GGYRCC	1 cut(s)	719
AccI	GTMKAC	1 cut(s)	657
AccII	CGCG	1 cut(s)	804
AciI	CCGC	2 cut(s)	309, 364
AclI	AACGTT	1 cut(s)	385
AcsI	RAATTY	2 cut(s)	134, 869
AcvI	CACGTG	1 cut(s)	338
AcyI	GRCGYC	1 cut(s)	225
AfaI	GTAC	4 cut(s)	215, 260, 269, 721
AfiI	CCNNNNNNNGG	4 cut(s)	277, 303, 304, 501
AflIII	ACRYGT	1 cut(s)	337
AgsI	TTSAA	3 cut(s)	395, 553, 604
AluBI	AGCT	7 cut(s)	54, 192, 292, 331, 613, 680, 890
AluI	AGCT	7 cut(s)	54, 192, 292, 331, 613, 680, 890
Alw26I	GTCTC	2 cut(s)	56, 650
Ama87I	CYCGRG	1 cut(s)	417
AoxI	GGCC	4 cut(s)	162, 279, 306, 342
ApeKI	GCWGC	2 cut(s)	189, 758
ApoI	RAATTY	2 cut(s)	134, 869
ArsI	GACNNNNNNTTYG	2 cut(s)	689, 721
Asp718I	GGTACC	1 cut(s)	719
AspS9I	GGNCC	3 cut(s)	280, 306, 343
AsuC2I	CCSGG	3 cut(s)	251, 272, 285
AsuII	TTCGAA	1 cut(s)	873
AvaI	CYCGRG	1 cut(s)	417
BanI	GGYRCC	1 cut(s)	719
BbrPI	CACGTG	1 cut(s)	338
BbsI	GAAGAC	1 cut(s)	722
BbvI	GCAGC	2 cut(s)	201, 770
BccI	CCATC	1 cut(s)	787
BceAI	ACGGC	1 cut(s)	212
BcnI	CCSGG	3 cut(s)	251, 272, 285
BcoDI	GTCTC	2 cut(s)	56, 650
BfaI	CTAG	1 cut(s)	155
BfmI	CTRYAG	1 cut(s)	724
BfuAI	ACCTGC	1 cut(s)	159
BglII	AGATCT	2 cut(s)	472, 481
BisI	GCNGC	3 cut(s)	190, 309, 759
BlsI	GCNGC	3 cut(s)	191, 310, 760
BmcAI	AGTACT	1 cut(s)	260
Bme1390I	CCNGG	3 cut(s)	251, 272, 285
BmeT110I	CYCGRG	1 cut(s)	417
BmgT120I	GGNCC	3 cut(s)	280, 306, 343
BmiI	GGNNCC	5 cut(s)	7, 282, 359, 567, 721
BmrFI	CCNGG	3 cut(s)	251, 272, 285
BmsI	GCATC	2 cut(s)	451, 757
BpiI	GAAGAC	1 cut(s)	722
BplI	GAGNNNNNCTC	2 cut(s)	411, 443
BpmI	CTGGAG	2 cut(s)	564, 584
Bpu14I	TTCGAA	1 cut(s)	873
BpuMI	CCSGG	3 cut(s)	251, 272, 285
BsaAI	YACGTR	1 cut(s)	338
BsaHI	GRCGYC	1 cut(s)	225
BsaI	GGTCTC	1 cut(s)	56
BsaJI	CCNNGG	2 cut(s)	283, 861
Bsc4I	CCNNNNNNNGG	4 cut(s)	277, 303, 304, 501
Bse1I	ACTGG	1 cut(s)	849
Bse3DI	GCAATG	1 cut(s)	437
BseDI	CCNNGG	2 cut(s)	283, 861
BseGI	GGATG	2 cut(s)	112, 798
BseLI	CCNNNNNNNGG	4 cut(s)	277, 303, 304, 501
BseMI	GCAATG	1 cut(s)	437
BseMII	CTCAG	1 cut(s)	316
BseNI	ACTGG	1 cut(s)	849
BseRI	GAGGAG	1 cut(s)	131
BseXI	GCAGC	2 cut(s)	201, 770
BseYI	CCCAGC	1 cut(s)	609
BsgI	GTGCAG	1 cut(s)	208
Bsh1236I	CGCG	1 cut(s)	804
BshFI	GGCC	4 cut(s)	164, 281, 308, 344
BshNI	GGYRCC	1 cut(s)	719
BsiHKCI	CYCGRG	1 cut(s)	417
BsiSI	CCGG	3 cut(s)	250, 272, 285
BslFI	GGGAC	1 cut(s)	76
BslI	CCNNNNNNNGG	4 cut(s)	277, 303, 304, 501
BsmAI	GTCTC	2 cut(s)	56, 650
BsmFI	GGGAC	1 cut(s)	76
BsmI	GAATGC	1 cut(s)	172
BsnI	GGCC	4 cut(s)	164, 281, 308, 344
Bso31I	GGTCTC	1 cut(s)	56
BsoBI	CYCGRG	1 cut(s)	417
Bsp119I	TTCGAA	1 cut(s)	873
Bsp143I	GATC	4 cut(s)	120, 397, 472, 481
BspACI	CCGC	2 cut(s)	309, 364
BspANI	GGCC	4 cut(s)	164, 281, 308, 344
BspCNI	CTCAG	1 cut(s)	315
BspFNI	CGCG	1 cut(s)	804
BspLI	GGNNCC	5 cut(s)	7, 282, 359, 567, 721
BspMI	ACCTGC	1 cut(s)	159
BspQI	GCTCTTC	1 cut(s)	819
BspT104I	TTCGAA	1 cut(s)	873
BspT107I	GGYRCC	1 cut(s)	719
BspTNI	GGTCTC	1 cut(s)	56
BsrDI	GCAATG	1 cut(s)	437
BsrI	ACTGG	1 cut(s)	849
BssECI	CCNNGG	2 cut(s)	283, 861
BssMI	GATC	4 cut(s)	120, 397, 472, 481
BssNI	GRCGYC	1 cut(s)	225
Bst4CI	ACNGT	3 cut(s)	258, 701, 728
Bst6I	CTCTTC	3 cut(s)	153, 819, 831
BstACI	GRCGYC	1 cut(s)	225
BstAPI	GCANNNNNTGC	1 cut(s)	767
BstBAI	YACGTR	1 cut(s)	338
BstBI	TTCGAA	1 cut(s)	873
BstC8I	GCNNGC	2 cut(s)	333, 560
BstDEI	CTNAG	1 cut(s)	302
BstF5I	GGATG	2 cut(s)	112, 798
BstFNI	CGCG	1 cut(s)	804
BstKTI	GATC	4 cut(s)	123, 400, 475, 484
BstMAI	GTCTC	2 cut(s)	56, 650
BstMBI	GATC	4 cut(s)	120, 397, 472, 481
BstMWI	GCNNNNNNNGC	3 cut(s)	341, 372, 767
BstSCI	CCNGG	3 cut(s)	249, 270, 283
BstSFI	CTRYAG	1 cut(s)	724
BstUI	CGCG	1 cut(s)	804
BstV1I	GCAGC	2 cut(s)	201, 770
BstV2I	GAAGAC	1 cut(s)	722
BstX2I	RGATCY	2 cut(s)	472, 481
BstYI	RGATCY	2 cut(s)	472, 481
BsuRI	GGCC	4 cut(s)	164, 281, 308, 344
BtsCI	GGATG	2 cut(s)	112, 798
BtsI	GCAGTG	1 cut(s)	813
BtsIMutI	CAGTG	1 cut(s)	813
BveI	ACCTGC	1 cut(s)	159
Cac8I	GCNNGC	2 cut(s)	333, 560
Cfr13I	GGNCC	3 cut(s)	280, 306, 343
CseI	GACGC	1 cut(s)	233
Csp6I	GTAC	4 cut(s)	214, 259, 268, 720
CviAII	CATG	2 cut(s)	514, 663
CviQI	GTAC	4 cut(s)	214, 259, 268, 720
DdeI	CTNAG	1 cut(s)	302
DpnI	GATC	4 cut(s)	122, 399, 474, 483
DpnII	GATC	4 cut(s)	120, 397, 472, 481
DrdI	GACNNNNNNGTC	1 cut(s)	88
DseDI	GACNNNNNNGTC	1 cut(s)	88
Eam1104I	CTCTTC	3 cut(s)	153, 819, 831
EarI	CTCTTC	3 cut(s)	153, 819, 831
Eco147I	AGGCCT	1 cut(s)	164
Eco31I	GGTCTC	1 cut(s)	56
Eco72I	CACGTG	1 cut(s)	338
Eco88I	CYCGRG	1 cut(s)	417
EcoRI	GAATTC	1 cut(s)	869
FaeI	CATG	2 cut(s)	517, 666
FaiI	YATR	7 cut(s)	125, 185, 515, 536, 625, 654, 664
FaqI	GGGAC	1 cut(s)	76
FatI	CATG	2 cut(s)	513, 662
FblI	GTMKAC	1 cut(s)	657
Fnu4HI	GCNGC	3 cut(s)	190, 309, 759
FokI	GGATG	2 cut(s)	119, 805
Fsp4HI	GCNGC	3 cut(s)	190, 309, 759
FspBI	CTAG	1 cut(s)	155
GluI	GCNGC	3 cut(s)	190, 309, 759
GsaI	CCCAGC	1 cut(s)	613
GsuI	CTGGAG	2 cut(s)	564, 584
HaeIII	GGCC	4 cut(s)	164, 281, 308, 344
HapII	CCGG	3 cut(s)	250, 272, 285
HgaI	GACGC	1 cut(s)	233
Hin1I	GRCGYC	1 cut(s)	225
Hin1II	CATG	2 cut(s)	517, 666
HincII	GTYRAC	1 cut(s)	319
HindII	GTYRAC	1 cut(s)	319
HindIII	AAGCTT	1 cut(s)	888
HinfI	GANTC	9 cut(s)	68, 86, 100, 235, 300, 491, 643, 659, 841
HpaII	CCGG	3 cut(s)	250, 272, 285
Hpy166II	GTNNAC	2 cut(s)	319, 658
Hpy188I	TCNGA	5 cut(s)	33, 350, 642, 735, 862
Hpy188III	TCNNGA	4 cut(s)	104, 139, 428, 581
Hpy8I	GTNNAC	2 cut(s)	319, 658
Hpy99I	CGWCG	1 cut(s)	227
HpyAV	CCTTC	3 cut(s)	175, 708, 730
HpyCH4III	ACNGT	3 cut(s)	258, 701, 728
HpyCH4IV	ACGT	2 cut(s)	337, 385
HpyCH4V	TGCA	5 cut(s)	189, 442, 479, 522, 746
HpyF10VI	GCNNNNNNNGC	3 cut(s)	341, 372, 767
HpyF3I	CTNAG	1 cut(s)	302
HpySE526I	ACGT	2 cut(s)	337, 385
Hsp92I	GRCGYC	1 cut(s)	225
Hsp92II	CATG	2 cut(s)	517, 666
KpnI	GGTACC	1 cut(s)	723
Kzo9I	GATC	4 cut(s)	120, 397, 472, 481
LguI	GCTCTTC	1 cut(s)	819
LmnI	GCTCC	3 cut(s)	5, 469, 565
Lsp1109I	GCAGC	2 cut(s)	201, 770
LweI	GCATC	2 cut(s)	451, 757
MaeI	CTAG	1 cut(s)	155
MaeII	ACGT	2 cut(s)	337, 385
MaeIII	GTNAC	1 cut(s)	798
MalI	GATC	4 cut(s)	122, 399, 474, 483
MboI	GATC	4 cut(s)	120, 397, 472, 481
MboII	GAAGA	8 cut(s)	168, 170, 407, 722, 836, 845, 848, 878
MflI	RGATCY	2 cut(s)	472, 481
MluCI	AATT	4 cut(s)	134, 704, 854, 869
MlyI	GAGTC	6 cut(s)	95, 109, 294, 652, 653, 850
MmeI	TCCRAC	2 cut(s)	373, 691
MnlI	CCTC	5 cut(s)	109, 154, 356, 538, 856
MseI	TTAA	1 cut(s)	879
MslI	CAYNNNNRTG	1 cut(s)	447
MspA1I	CMGCKG	1 cut(s)	613
MspI	CCGG	3 cut(s)	250, 272, 285
MspR9I	CCNGG	3 cut(s)	251, 272, 285
Mva1269I	GAATGC	1 cut(s)	172
MvnI	CGCG	1 cut(s)	804
MwoI	GCNNNNNNNGC	3 cut(s)	341, 372, 767
NciI	CCSGG	3 cut(s)	251, 272, 285
NdeII	GATC	4 cut(s)	120, 397, 472, 481
NlaIII	CATG	2 cut(s)	517, 666
NlaIV	GGNNCC	5 cut(s)	7, 282, 359, 567, 721
NmeAIII	GCCGAG	1 cut(s)	123
NspV	TTCGAA	1 cut(s)	873
PaeR7I	CTCGAG	1 cut(s)	417
PceI	AGGCCT	1 cut(s)	164
PciSI	GCTCTTC	1 cut(s)	819
PcsI	WCGNNNNNNNCGW	2 cut(s)	95, 225
PctI	GAATGC	1 cut(s)	172
PfeI	GAWTC	3 cut(s)	68, 235, 491
PflFI	GACNNNGTC	2 cut(s)	85, 536
PkrI	GCNGC	3 cut(s)	191, 310, 760
PleI	GAGTC	6 cut(s)	94, 108, 294, 651, 653, 849
PmaCI	CACGTG	1 cut(s)	338
PmlI	CACGTG	1 cut(s)	338
PpsI	GAGTC	6 cut(s)	94, 108, 294, 651, 653, 849
Ppu21I	YACGTR	1 cut(s)	338
Psp1406I	AACGTT	1 cut(s)	385
PspCI	CACGTG	1 cut(s)	338
PspFI	CCCAGC	1 cut(s)	609
PspN4I	GGNNCC	5 cut(s)	7, 282, 359, 567, 721
PspPI	GGNCC	3 cut(s)	280, 306, 343
PspXI	VCTCGAGB	1 cut(s)	417
PsuI	RGATCY	2 cut(s)	472, 481
PsyI	GACNNNGTC	2 cut(s)	85, 536
PvuII	CAGCTG	1 cut(s)	613
RsaI	GTAC	4 cut(s)	215, 260, 269, 721
RsaNI	GTAC	4 cut(s)	214, 259, 268, 720
RseI	CAYNNNNRTG	1 cut(s)	447
SapI	GCTCTTC	1 cut(s)	819
SaqAI	TTAA	1 cut(s)	879
SatI	GCNGC	3 cut(s)	190, 309, 759
Sau3AI	GATC	4 cut(s)	120, 397, 472, 481
Sau96I	GGNCC	3 cut(s)	280, 306, 343
ScaI	AGTACT	1 cut(s)	260
SchI	GAGTC	6 cut(s)	95, 109, 294, 652, 653, 850
ScrFI	CCNGG	3 cut(s)	251, 272, 285
SfaNI	GCATC	2 cut(s)	451, 757
SfcI	CTRYAG	1 cut(s)	724
Sfr274I	CTCGAG	1 cut(s)	417
SfuI	TTCGAA	1 cut(s)	873
SlaI	CTCGAG	1 cut(s)	417
SmiMI	CAYNNNNRTG	1 cut(s)	447
SmlI	CTYRAG	1 cut(s)	417
SmoI	CTYRAG	1 cut(s)	417
Sse9I	AATT	4 cut(s)	134, 704, 854, 869
SseBI	AGGCCT	1 cut(s)	164
SsiI	CCGC	2 cut(s)	309, 364
SspMI	CTAG	1 cut(s)	155
StuI	AGGCCT	1 cut(s)	164
StyD4I	CCNGG	3 cut(s)	249, 270, 283
TaaI	ACNGT	3 cut(s)	258, 701, 728
TaiI	ACGT	2 cut(s)	340, 388
TaqI	TCGA	5 cut(s)	138, 418, 429, 527, 873
TaqII	GACCGA	2 cut(s)	80, 98
TasI	AATT	4 cut(s)	134, 704, 854, 869
TatI	WGTACW	2 cut(s)	213, 258
TauI	GCSGC	1 cut(s)	311
TfiI	GAWTC	3 cut(s)	68, 235, 491
Tru1I	TTAA	1 cut(s)	879
Tru9I	TTAA	1 cut(s)	879
TscAI	CASTG	1 cut(s)	820
TseI	GCWGC	2 cut(s)	189, 758
TspDTI	ATGAA	5 cut(s)	50, 123, 502, 682, 837
TspRI	CASTG	1 cut(s)	820
Tth111I	GACNNNGTC	2 cut(s)	85, 536
XapI	RAATTY	2 cut(s)	134, 869
XhoI	CTCGAG	1 cut(s)	417
XmiI	GTMKAC	1 cut(s)	657
XspI	CTAG	1 cut(s)	155
ZrmI	AGTACT	1 cut(s)	260

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