Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0010500

Physical Location & Seq

Genomic Coordinates Reverse (-)

134848 .. 144296

Gene Structure 9449 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG001100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1332 bp

ATGAATGTATGTCAGGGACAATTTCATATTAGCCTTGTGGTTTGGGCCTTAAACTTGTTTTTAGCTAGAAAAGGGGGTTGGATCAAAATGAGTAGTCCTCACCCAATTAAAGTAGCCCAATTCAACTCAAACAAGAGGAAGAGGAAGCCCTGCCCAACCCAACCCAAATTTACAAAATATATTTTGCAAAACGAACCCTTTTGCCCCCCCCCCAGTCTCATGGCGAGGTTCGCAGGGAACGGCTCGGAGAATCTCCGAGAAGAAGAAGAAGGGAAACGGCAGCAATCAGGTTCCGAACAGACAATATTGGAGATGGAAGCCAAAACCGAAATTTTGAGTGAAGTAGGATGGTTTATTCTCGGTGAAAATGAGCAACATCTTGGTCCCTACACATTTTCAGAGTTGCGCGAGCATTTCTTACATGGCTACCTCACCCACTCTACGCTGGTCTGGTCACAAGGAAGAAGCGAATGGCAGCCACTTTCCTCAATTCCTAATTTGGTCACCCAACTTGCTTGTCATGACCCAGTGCCCCCCAGTGGTAATGATGATGACTTCGAGAAATGGCAGAAGCAGATTTCTAAGGCAGAAGCAGATGGTGAAAGACCTTCAACACCGCCAGAGGGCGAGGAAGAGTTCATCGACGATGATGGGACTCAATATAAGTGGGATCGGGGTCTTAGGGCTTGGGTTCCTCAGGATAGCATGTTTGGGGTAGAGGAGATGACTTTCTTGCAAGAAGAGGAAGTCTTCATGAATGCCAAACCTTCTGACGACTCTTCAAGGGAGGAGGTTGATGCAACTGGAATTTTTTCTGATCCTTCTAAAGAAGAAGACACTGTTGTTAACTGTGCGGTAGAACAAGGGAATCCAAATTCAAAGAGAAAACTGTCGGATACGGAAGATGTGAAAAAGGAAGCTAATAAACCTCCTGATAGTTGGTTTGAGCTAAAGGTCAATTCACATGTTTATGTGACTGGATTACCCGATGATGTTACAGTTGACGAAGTGGTGGAGGTATTTTCCAAGTGTGGGATAATAAAAGAGGATCCTGAATCTAAAAAGCCTCGTGTGAAGCTGTATACTGATAAAGCGACTGGAAAGAAAAAGGGAGATGCACTTGTTACATATTTGAAGGAGCCCTCAGTCGATTTGGCTCTCAAAATTTTGGATGGAACACCTCTGCGTCTTGGTAGCAAGGTTCTCATGTCAGTCACCCAAGCTAAGTTTGAGCAGAAAGGGGATAGATTTATTGCCAAACAAGCAGACAACAAGAGGAAAAAAAAACTGAAGAAGGTGGAAGAGAAGATGCTTGGCTGGGGTAGGTTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005684 GO:0005686 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0030532 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF4339 RRM_1

Protein Analysis

443

Amino Acids

50.26

Weight (kDa)

5.54

Isoelectric Point (pI)

47.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GYF_2	PF14237	117 - 167	3.7e-16	GYF domain 2
RRM_1	PF00076	323 - 395	1.9e-07	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010500)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G16260
fragaria_vesca	FvH4_6g00060
malus_domestica	MD00G1017100.v1.1 MD12G1261400.v1.1
prunus_persica	Prupe.6G365400_v2.0.a1 Prupe.6G365400_v2.0.a1 Prupe.6G365400_v2.0.a1
pyrus_communis	pycom02g06260 pycom04g22010 pycom04g22020 pycom12g24240
rosa_chinensis	RchiOBHm_Chr3g0447391
rosa_laevigata	RLG00000026003
rosa_multiflora	Rmu_ssc0000473.1_g000016
rosa_roxburghii	Rroxscaffold_6G00425590
rosa_rugosa	Rorug02G0601100
rosa_samantha	Rh3AG001200 Rh3BG000900 Rh3CG000900 Rh3DG001100
rosa_wichuraiana	Rw3G000060

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	1082
AccII	CGCG	1 cut(s)	408
AciI	CCGC	2 cut(s)	617, 854
AclWI	GGATC	5 cut(s)	89, 678, 812, 1043, 1056
AcsI	RAATTY	5 cut(s)	167, 330, 807, 874, 1164
AcuI	CTGAAG	1 cut(s)	1310
AfiI	CCNNNNNNNGG	3 cut(s)	539, 623, 1032
AflIII	ACRYGT	1 cut(s)	964
AgsI	TTSAA	5 cut(s)	124, 612, 783, 879, 1135
AjuI	GAANNNNNNNTTGG	2 cut(s)	61, 93
AluBI	AGCT	5 cut(s)	65, 920, 949, 1078, 1223
AluI	AGCT	5 cut(s)	65, 920, 949, 1078, 1223
Alw26I	GTCTC	1 cut(s)	221
AlwI	GGATC	5 cut(s)	89, 678, 812, 1043, 1056
AoxI	GGCC	1 cut(s)	45
ApeKI	GCWGC	2 cut(s)	280, 475
ApoI	RAATTY	5 cut(s)	167, 330, 807, 874, 1164
Asp700I	GAANNNNTTC	1 cut(s)	811
AspLEI	GCGC	1 cut(s)	408
AspS9I	GGNCC	2 cut(s)	45, 383
AsuHPI	GGTGA	6 cut(s)	92, 374, 424, 496, 611, 1207
AvaII	GGWCC	1 cut(s)	383
AxyI	CCTNAGG	1 cut(s)	696
BaeGI	GKGCMC	1 cut(s)	534
BamHI	GGATCC	1 cut(s)	1048
BanII	GRGCYC	1 cut(s)	1143
BauI	CACGAG	1 cut(s)	1068
BbsI	GAAGAC	2 cut(s)	742, 840
BbvI	GCAGC	2 cut(s)	292, 487
BccI	CCATC	5 cut(s)	307, 342, 590, 644, 1166
BceAI	ACGGC	2 cut(s)	256, 293
BciVI	GTATCC	1 cut(s)	889
BcoDI	GTCTC	1 cut(s)	221
BfaI	CTAG	1 cut(s)	66
BfuI	GTATCC	1 cut(s)	889
BisI	GCNGC	2 cut(s)	281, 476
BlsI	GCNGC	2 cut(s)	282, 477
Bme18I	GGWCC	1 cut(s)	383
BmgT120I	GGNCC	2 cut(s)	45, 383
BmiI	GGNNCC	5 cut(s)	292, 385, 693, 1050, 1140
BmrI	ACTGGG	3 cut(s)	207, 521, 531
BmsI	GCATC	3 cut(s)	787, 1105, 1299
BmuI	ACTGGG	3 cut(s)	207, 521, 531
BpiI	GAAGAC	2 cut(s)	742, 840
BplI	GAGNNNNNCTC	2 cut(s)	82, 114
Bsc4I	CCNNNNNNNGG	3 cut(s)	539, 623, 1032
Bse1I	ACTGG	6 cut(s)	213, 527, 537, 808, 982, 1102
Bse21I	CCTNAGG	1 cut(s)	696
BseGI	GGATG	2 cut(s)	353, 1177
BseLI	CCNNNNNNNGG	3 cut(s)	539, 623, 1032
BseMII	CTCAG	2 cut(s)	710, 1158
BseNI	ACTGG	6 cut(s)	213, 527, 537, 808, 982, 1102
BseRI	GAGGAG	2 cut(s)	734, 803
BseSI	GKGCMC	1 cut(s)	534
BseXI	GCAGC	2 cut(s)	292, 487
BseYI	CCCAGC	1 cut(s)	1317
Bsh1236I	CGCG	1 cut(s)	408
BshFI	GGCC	1 cut(s)	47
BslFI	GGGAC	3 cut(s)	30, 369, 667
BslI	CCNNNNNNNGG	3 cut(s)	539, 623, 1032
BsmAI	GTCTC	1 cut(s)	221
BsmFI	GGGAC	3 cut(s)	30, 369, 667
BsmI	GAATGC	1 cut(s)	763
BsnI	GGCC	1 cut(s)	47
Bsp1286I	GDGCHC	2 cut(s)	534, 1143
Bsp143I	GATC	4 cut(s)	81, 670, 817, 1048
BspACI	CCGC	2 cut(s)	617, 854
BspANI	GGCC	1 cut(s)	47
BspCNI	CTCAG	2 cut(s)	709, 1157
BspFNI	CGCG	1 cut(s)	408
BspHI	TCATGA	2 cut(s)	520, 753
BspLI	GGNNCC	5 cut(s)	292, 385, 693, 1050, 1140
BspPI	GGATC	5 cut(s)	89, 678, 812, 1043, 1056
BsrI	ACTGG	6 cut(s)	213, 527, 537, 808, 982, 1102
BssMI	GATC	4 cut(s)	81, 670, 817, 1048
BssNAI	GTATAC	1 cut(s)	1083
BssSI	CACGAG	1 cut(s)	1068
Bst1107I	GTATAC	1 cut(s)	1083
Bst2BI	CACGAG	1 cut(s)	1068
Bst4CI	ACNGT	4 cut(s)	841, 851, 891, 1000
Bst6I	CTCTTC	5 cut(s)	134, 627, 735, 784, 1296
BstC8I	GCNNGC	1 cut(s)	410
BstDEI	CTNAG	5 cut(s)	582, 680, 696, 1144, 1224
BstEII	GGTNACC	1 cut(s)	502
BstF5I	GGATG	2 cut(s)	353, 1177
BstFNI	CGCG	1 cut(s)	408
BstHHI	GCGC	1 cut(s)	408
BstKTI	GATC	4 cut(s)	84, 673, 820, 1051
BstMAI	GTCTC	1 cut(s)	221
BstMBI	GATC	4 cut(s)	81, 670, 817, 1048
BstMWI	GCNNNNNNNGC	2 cut(s)	230, 1262
BstNSI	RCATGY	2 cut(s)	709, 968
BstPI	GGTNACC	1 cut(s)	502
BstSLI	GKGCMC	1 cut(s)	534
BstUI	CGCG	1 cut(s)	408
BstV1I	GCAGC	2 cut(s)	292, 487
BstV2I	GAAGAC	2 cut(s)	742, 840
BstX2I	RGATCY	1 cut(s)	1048
BstXI	CCANNNNNNTGG	1 cut(s)	220
BstYI	RGATCY	1 cut(s)	1048
BstZ17I	GTATAC	1 cut(s)	1083
Bsu36I	CCTNAGG	1 cut(s)	696
BsuI	GTATCC	1 cut(s)	889
BsuRI	GGCC	1 cut(s)	47
BtsCI	GGATG	2 cut(s)	353, 1177
BtsIMutI	CAGTG	3 cut(s)	534, 544, 837
Cac8I	GCNNGC	1 cut(s)	410
CciI	TCATGA	2 cut(s)	520, 753
CfoI	GCGC	1 cut(s)	408
Cfr13I	GGNCC	2 cut(s)	45, 383
CseI	GACGC	1 cut(s)	1175
CspCI	CAANNNNNGTGG	2 cut(s)	647, 682
CviAII	CATG	7 cut(s)	220, 422, 521, 706, 754, 965, 1207
DdeI	CTNAG	5 cut(s)	582, 680, 696, 1144, 1224
DpnI	GATC	4 cut(s)	83, 672, 819, 1050
DpnII	GATC	4 cut(s)	81, 670, 817, 1048
Eam1104I	CTCTTC	5 cut(s)	134, 627, 735, 784, 1296
EarI	CTCTTC	5 cut(s)	134, 627, 735, 784, 1296
Eco24I	GRGCYC	1 cut(s)	1143
Eco47I	GGWCC	1 cut(s)	383
Eco57I	CTGAAG	1 cut(s)	1310
Eco81I	CCTNAGG	1 cut(s)	696
Eco91I	GGTNACC	1 cut(s)	502
EcoO65I	GGTNACC	1 cut(s)	502
EcoT38I	GRGCYC	1 cut(s)	1143
FaeI	CATG	7 cut(s)	223, 425, 524, 709, 757, 968, 1210
FaqI	GGGAC	3 cut(s)	30, 369, 667
FatI	CATG	7 cut(s)	219, 421, 520, 705, 753, 964, 1206
FblI	GTMKAC	1 cut(s)	1082
Fnu4HI	GCNGC	2 cut(s)	281, 476
FokI	GGATG	2 cut(s)	360, 1184
FriOI	GRGCYC	1 cut(s)	1143
Fsp4HI	GCNGC	2 cut(s)	281, 476
FspBI	CTAG	1 cut(s)	66
GlaI	GCGC	1 cut(s)	407
GluI	GCNGC	2 cut(s)	281, 476
GsaI	CCCAGC	1 cut(s)	1321
HaeIII	GGCC	1 cut(s)	47
HgaI	GACGC	1 cut(s)	1175
HhaI	GCGC	1 cut(s)	408
Hin1II	CATG	7 cut(s)	223, 425, 524, 709, 757, 968, 1210
Hin6I	GCGC	1 cut(s)	406
HinP1I	GCGC	1 cut(s)	406
HincII	GTYRAC	2 cut(s)	847, 1003
HindII	GTYRAC	2 cut(s)	847, 1003
HinfI	GANTC	5 cut(s)	250, 655, 776, 868, 1055
HpaI	GTTAAC	1 cut(s)	847
HphI	GGTGA	6 cut(s)	92, 374, 424, 496, 611, 1207
Hpy166II	GTNNAC	3 cut(s)	847, 1003, 1083
Hpy188I	TCNGA	7 cut(s)	247, 257, 295, 400, 772, 817, 895
Hpy188III	TCNNGA	6 cut(s)	521, 559, 698, 754, 932, 1052
Hpy8I	GTNNAC	3 cut(s)	847, 1003, 1083
Hpy99I	CGWCG	1 cut(s)	647
HpyAV	CCTTC	6 cut(s)	263, 618, 777, 831, 1129, 1288
HpyCH4III	ACNGT	4 cut(s)	841, 851, 891, 1000
HpyCH4V	TGCA	4 cut(s)	187, 736, 800, 1118
HpyF10VI	GCNNNNNNNGC	2 cut(s)	230, 1262
HpyF3I	CTNAG	5 cut(s)	582, 680, 696, 1144, 1224
Hsp92II	CATG	7 cut(s)	223, 425, 524, 709, 757, 968, 1210
HspAI	GCGC	1 cut(s)	406
KspAI	GTTAAC	1 cut(s)	847
Kzo9I	GATC	4 cut(s)	81, 670, 817, 1048
LmnI	GCTCC	1 cut(s)	1138
Lsp1109I	GCAGC	2 cut(s)	292, 487
LweI	GCATC	3 cut(s)	787, 1105, 1299
MaeI	CTAG	1 cut(s)	66
MaeIII	GTNAC	6 cut(s)	453, 502, 973, 994, 1123, 1213
MalI	GATC	4 cut(s)	83, 672, 819, 1050
MboI	GATC	4 cut(s)	81, 670, 817, 1048
MflI	RGATCY	1 cut(s)	1048
MhlI	GDGCHC	2 cut(s)	534, 1143
MlyI	GAGTC	2 cut(s)	649, 770
MmeI	TCCRAC	2 cut(s)	59, 873
MroXI	GAANNNNTTC	1 cut(s)	811
MseI	TTAA	3 cut(s)	50, 108, 846
MslI	CAYNNNNRTG	1 cut(s)	969
Mva1269I	GAATGC	1 cut(s)	763
MvnI	CGCG	1 cut(s)	408
MwoI	GCNNNNNNNGC	2 cut(s)	230, 1262
NdeII	GATC	4 cut(s)	81, 670, 817, 1048
NlaIII	CATG	7 cut(s)	223, 425, 524, 709, 757, 968, 1210
NlaIV	GGNNCC	5 cut(s)	292, 385, 693, 1050, 1140
NmuCI	GTSAC	4 cut(s)	453, 502, 973, 1213
NspI	RCATGY	2 cut(s)	709, 968
PagI	TCATGA	2 cut(s)	520, 753
PciI	ACATGT	1 cut(s)	964
PctI	GAATGC	1 cut(s)	763
PdmI	GAANNNNTTC	1 cut(s)	811
PfeI	GAWTC	3 cut(s)	250, 868, 1055
PkrI	GCNGC	2 cut(s)	282, 477
PleI	GAGTC	2 cut(s)	649, 770
PpsI	GAGTC	2 cut(s)	649, 770
PscI	ACATGT	1 cut(s)	964
PspEI	GGTNACC	1 cut(s)	502
PspFI	CCCAGC	1 cut(s)	1317
PspN4I	GGNNCC	5 cut(s)	292, 385, 693, 1050, 1140
PspPI	GGNCC	2 cut(s)	45, 383
PsuI	RGATCY	1 cut(s)	1048
RseI	CAYNNNNRTG	1 cut(s)	969
SaqAI	TTAA	3 cut(s)	50, 108, 846
SatI	GCNGC	2 cut(s)	281, 476
Sau3AI	GATC	4 cut(s)	81, 670, 817, 1048
Sau96I	GGNCC	2 cut(s)	45, 383
SchI	GAGTC	2 cut(s)	649, 770
SduI	GDGCHC	2 cut(s)	534, 1143
SfaNI	GCATC	3 cut(s)	787, 1105, 1299
SinI	GGWCC	1 cut(s)	383
SmiMI	CAYNNNNRTG	1 cut(s)	969
SsiI	CCGC	2 cut(s)	617, 854
SspI	AATATT	1 cut(s)	306
SspMI	CTAG	1 cut(s)	66
TaaI	ACNGT	4 cut(s)	841, 851, 891, 1000
TaqI	TCGA	3 cut(s)	558, 642, 1149
TfiI	GAWTC	3 cut(s)	250, 868, 1055
Tru1I	TTAA	3 cut(s)	50, 108, 846
Tru9I	TTAA	3 cut(s)	50, 108, 846
TscAI	CASTG	3 cut(s)	534, 544, 844
TseFI	GTSAC	4 cut(s)	453, 502, 973, 1213
TseI	GCWGC	2 cut(s)	280, 475
Tsp45I	GTSAC	4 cut(s)	453, 502, 973, 1213
TspDTI	ATGAA	5 cut(s)	14, 17, 628, 742, 770
TspGWI	ACGGA	1 cut(s)	914
TspRI	CASTG	3 cut(s)	534, 544, 844
VpaK11BI	GGWCC	1 cut(s)	383
XapI	RAATTY	5 cut(s)	167, 330, 807, 874, 1164
XceI	RCATGY	2 cut(s)	709, 968
XmiI	GTMKAC	1 cut(s)	1082
XmnI	GAANNNNTTC	1 cut(s)	811
XspI	CTAG	1 cut(s)	66

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