Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0010500

Physical Location & Seq

Genomic Coordinates Reverse (-)

134848 .. 144296

Gene Structure 9449 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG001200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1557 bp

ATGAATGTATGTCAGGGACAATTTCATATTAGCCTTGTGGTTTGGGCCTTAAACTTGTTTTTAGCTAGAAAAGGGGGTTGGATCAAAATGAGTAGTCCTCACCCAATTAAAGTAGCCCAATTCAACTCAAACAAGAGGAAGAGGAAGCCCTGCCCAACCCAACCCAAATTTACAAAATATATTTTGCAAAACGAACCCTTTTGCCCCCCCCCCAGTCTCATGGCGAGGTTCGCAGGGAACGGCTCGGAGAATCTCCGAGAAGAAGAAGAAGGGAAACGGCAGCAATCAGGTTCCGAACAGACAATATTGGAGATGGAAGCCAAAACCGAAATTTTGAGTGAAGTAGGATGGTTTATTCTCGGTGAAAATGAGCAACATCTTGGTCCCTACACATTTTCAGAGTTGCGCGAGCATTTCTTACATGGCTACCTCACCCACTCTACGCTGGTCTGGTCACAAGGAAGAAGCGAATGGCAGCCACTTTCCTCAATTCCTAATTTGGTCACCCAACTTGCTTGTCATGACCCAGTGCCCCCCAGTGGTAATGATGATGACTTCGAGAAATGGCAGAAGCAGATTTCTAAGGCAGAAGCAGATGGTGAAAGACCTTCAACACCGCCAGAGGGCGAGGAAGAGTTCATCGACGATGATGGGACTCAATATAAGTGGGATCGGGGTCTTAGGGCTTGGGTTCCTCAGGATAGCATGTTTGGGGTAGAGGAGATGACTTTCTTGCAAGAAGAGGAAGTCTTCATGAATGCCAAACCTTCTGACGACTCTTCAAGGGAGGAGGTTGATGCAACTGGAATTTTTTCTGATCCTTCTAAAGAAGAAGACACTGTTGTTAACTGTGCGGTAGAACAAGGGAATCCAAATTCAAAGAGAAAACTGTCGGATACGGAAGATGTGAAAAAGGAAGCTAATAAACCTCCTGATAGTTGGTTTGAGCTAAAGGTCAATTCACATGTTTATGTGACTGGATTACCCGATGATGTTACAGTTGACGAAGTGGTGGAGGTATTTTCCAAGTGTGGGATAATAAAAGAGGATCCTGAATCTAAAAAGCCTCGTGTGAAGCTGTATACTGATAAAGCGACTGGAAAGAAAAAGGGAGATGCACTTGTTACATATTTGAAGGAGCCCTCAGTCGATTTGGCTCTCAAAATTTTGGATGGAACACCTCTGCGTCTTGGTAGCAAGGTTCTCATGTCAGTCACCCAAGCTAAGTTTGAGCAGAAAGGGGATAGATTTATTGCCAAACAAGCAGACAACAAGAGGAAAAAAAAACTGAAGAAGGTGGAAGAGAAGATGCTTGGCTGGGGTGGTCGTGATGATGCAAAACTGTTGATTCCAGCTACTGTTCTTCTTCGTTACATGTTCACTACTGCTGAAATGAGCGTAAGTTCAAAACTGTCTACACTCTGCTACACATACACTTTACTTTTTTTAGCGCTGTGCTGCCCTTTTACTCACTTGTTGGCTTGTTGCCAGAATGTCTGGACACTAACAGTGAATCCAAGTCTACTCAATAATATATGCAGGAGTCATGATCTATGA

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

518

Amino Acids

58.58

Weight (kDa)

5.67

Isoelectric Point (pI)

47.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GYF_2	PF14237	117 - 167	4.6e-16	GYF domain 2
RRM_1	PF00076	323 - 395	2.4e-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	3 cut(s)	1082, 1415, 1522
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
AfeI	AGCGCT	1 cut(s)	1452
AfiI	CCNNNNNNNGG	3 cut(s)	539, 623, 1032
AflIII	ACRYGT	2 cut(s)	964, 1374
AgsI	TTSAA	6 cut(s)	124, 612, 783, 879, 1135, 1407
AjuI	GAANNNNNNNTTGG	2 cut(s)	61, 93
AluBI	AGCT	6 cut(s)	65, 920, 949, 1078, 1223, 1355
AluI	AGCT	6 cut(s)	65, 920, 949, 1078, 1223, 1355
Alw26I	GTCTC	1 cut(s)	221
AlwI	GGATC	5 cut(s)	89, 678, 812, 1043, 1056
AlwNI	CAGNNNCTG	1 cut(s)	1358
Aor51HI	AGCGCT	1 cut(s)	1452
AoxI	GGCC	1 cut(s)	45
ApeKI	GCWGC	3 cut(s)	280, 475, 1458
ApoI	RAATTY	5 cut(s)	167, 330, 807, 874, 1164
Asp700I	GAANNNNTTC	1 cut(s)	811
AspLEI	GCGC	2 cut(s)	408, 1453
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	3 cut(s)	292, 487, 1445
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
BfoI	RGCGCY	1 cut(s)	1454
BfuI	GTATCC	1 cut(s)	889
BisI	GCNGC	3 cut(s)	281, 476, 1459
BlsI	GCNGC	3 cut(s)	282, 477, 1460
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	4 cut(s)	787, 1105, 1299, 1324
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	3 cut(s)	292, 487, 1445
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	5 cut(s)	81, 670, 817, 1048, 1549
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	3 cut(s)	520, 753, 1546
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	5 cut(s)	81, 670, 817, 1048, 1549
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	8 cut(s)	841, 851, 891, 1000, 1344, 1360, 1413, 1510
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
BstH2I	RGCGCY	1 cut(s)	1454
BstHHI	GCGC	2 cut(s)	408, 1453
BstKTI	GATC	5 cut(s)	84, 673, 820, 1051, 1552
BstMAI	GTCTC	1 cut(s)	221
BstMBI	GATC	5 cut(s)	81, 670, 817, 1048, 1549
BstMWI	GCNNNNNNNGC	2 cut(s)	230, 1262
BstNSI	RCATGY	3 cut(s)	709, 968, 1378
BstPI	GGTNACC	1 cut(s)	502
BstSLI	GKGCMC	1 cut(s)	534
BstUI	CGCG	1 cut(s)	408
BstV1I	GCAGC	3 cut(s)	292, 487, 1445
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	4 cut(s)	534, 544, 837, 1515
Cac8I	GCNNGC	1 cut(s)	410
CaiI	CAGNNNCTG	1 cut(s)	1358
CciI	TCATGA	3 cut(s)	520, 753, 1546
CfoI	GCGC	2 cut(s)	408, 1453
Cfr13I	GGNCC	2 cut(s)	45, 383
CseI	GACGC	1 cut(s)	1175
CspCI	CAANNNNNGTGG	2 cut(s)	647, 682
CviAII	CATG	9 cut(s)	220, 422, 521, 706, 754, 965, 1207, 1375, 1547
DdeI	CTNAG	5 cut(s)	582, 680, 696, 1144, 1224
DpnI	GATC	5 cut(s)	83, 672, 819, 1050, 1551
DpnII	GATC	5 cut(s)	81, 670, 817, 1048, 1549
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
Eco47III	AGCGCT	1 cut(s)	1452
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	9 cut(s)	223, 425, 524, 709, 757, 968, 1210, 1378, 1550
FaqI	GGGAC	3 cut(s)	30, 369, 667
FatI	CATG	9 cut(s)	219, 421, 520, 705, 753, 964, 1206, 1374, 1546
FblI	GTMKAC	3 cut(s)	1082, 1415, 1522
Fnu4HI	GCNGC	3 cut(s)	281, 476, 1459
FokI	GGATG	2 cut(s)	360, 1184
FriOI	GRGCYC	1 cut(s)	1143
Fsp4HI	GCNGC	3 cut(s)	281, 476, 1459
FspBI	CTAG	1 cut(s)	66
GlaI	GCGC	2 cut(s)	407, 1452
GluI	GCNGC	3 cut(s)	281, 476, 1459
GsaI	CCCAGC	1 cut(s)	1321
HaeII	RGCGCY	1 cut(s)	1454
HaeIII	GGCC	1 cut(s)	47
HgaI	GACGC	1 cut(s)	1175
HhaI	GCGC	2 cut(s)	408, 1453
Hin1II	CATG	9 cut(s)	223, 425, 524, 709, 757, 968, 1210, 1378, 1550
Hin6I	GCGC	2 cut(s)	406, 1451
HinP1I	GCGC	2 cut(s)	406, 1451
HincII	GTYRAC	2 cut(s)	847, 1003
HindII	GTYRAC	2 cut(s)	847, 1003
HinfI	GANTC	8 cut(s)	250, 655, 776, 868, 1055, 1348, 1513, 1543
HpaI	GTTAAC	1 cut(s)	847
HphI	GGTGA	6 cut(s)	92, 374, 424, 496, 611, 1207
Hpy166II	GTNNAC	6 cut(s)	847, 1003, 1083, 1380, 1416, 1523
Hpy188I	TCNGA	7 cut(s)	247, 257, 295, 400, 772, 817, 895
Hpy188III	TCNNGA	9 cut(s)	521, 559, 698, 754, 932, 1052, 1328, 1498, 1547
Hpy8I	GTNNAC	6 cut(s)	847, 1003, 1083, 1380, 1416, 1523
Hpy99I	CGWCG	1 cut(s)	647
HpyAV	CCTTC	6 cut(s)	263, 618, 777, 831, 1129, 1288
HpyCH4III	ACNGT	8 cut(s)	841, 851, 891, 1000, 1344, 1360, 1413, 1510
HpyCH4V	TGCA	6 cut(s)	187, 736, 800, 1118, 1337, 1539
HpyF10VI	GCNNNNNNNGC	2 cut(s)	230, 1262
HpyF3I	CTNAG	5 cut(s)	582, 680, 696, 1144, 1224
Hsp92II	CATG	9 cut(s)	223, 425, 524, 709, 757, 968, 1210, 1378, 1550
HspAI	GCGC	2 cut(s)	406, 1451
KspAI	GTTAAC	1 cut(s)	847
Kzo9I	GATC	5 cut(s)	81, 670, 817, 1048, 1549
LmnI	GCTCC	1 cut(s)	1138
Lsp1109I	GCAGC	3 cut(s)	292, 487, 1445
LweI	GCATC	4 cut(s)	787, 1105, 1299, 1324
MaeI	CTAG	1 cut(s)	66
MaeIII	GTNAC	7 cut(s)	453, 502, 973, 994, 1123, 1213, 1370
MalI	GATC	5 cut(s)	83, 672, 819, 1050, 1551
MboI	GATC	5 cut(s)	81, 670, 817, 1048, 1549
MflI	RGATCY	1 cut(s)	1048
MhlI	GDGCHC	2 cut(s)	534, 1143
MlyI	GAGTC	3 cut(s)	649, 770, 1552
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	5 cut(s)	81, 670, 817, 1048, 1549
NlaIII	CATG	9 cut(s)	223, 425, 524, 709, 757, 968, 1210, 1378, 1550
NlaIV	GGNNCC	5 cut(s)	292, 385, 693, 1050, 1140
NmuCI	GTSAC	4 cut(s)	453, 502, 973, 1213
NspI	RCATGY	3 cut(s)	709, 968, 1378
PagI	TCATGA	3 cut(s)	520, 753, 1546
PciI	ACATGT	2 cut(s)	964, 1374
PctI	GAATGC	1 cut(s)	763
PdmI	GAANNNNTTC	1 cut(s)	811
PfeI	GAWTC	5 cut(s)	250, 868, 1055, 1348, 1513
PkrI	GCNGC	3 cut(s)	282, 477, 1460
PleI	GAGTC	3 cut(s)	649, 770, 1551
PpsI	GAGTC	3 cut(s)	649, 770, 1551
PscI	ACATGT	2 cut(s)	964, 1374
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
PstNI	CAGNNNCTG	1 cut(s)	1358
PsuI	RGATCY	1 cut(s)	1048
RseI	CAYNNNNRTG	1 cut(s)	969
SaqAI	TTAA	3 cut(s)	50, 108, 846
SatI	GCNGC	3 cut(s)	281, 476, 1459
Sau3AI	GATC	5 cut(s)	81, 670, 817, 1048, 1549
Sau96I	GGNCC	2 cut(s)	45, 383
SchI	GAGTC	3 cut(s)	649, 770, 1552
SduI	GDGCHC	2 cut(s)	534, 1143
SfaNI	GCATC	4 cut(s)	787, 1105, 1299, 1324
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	8 cut(s)	841, 851, 891, 1000, 1344, 1360, 1413, 1510
TaqI	TCGA	3 cut(s)	558, 642, 1149
TfiI	GAWTC	5 cut(s)	250, 868, 1055, 1348, 1513
Tru1I	TTAA	3 cut(s)	50, 108, 846
Tru9I	TTAA	3 cut(s)	50, 108, 846
TscAI	CASTG	4 cut(s)	534, 544, 844, 1515
TseFI	GTSAC	4 cut(s)	453, 502, 973, 1213
TseI	GCWGC	3 cut(s)	280, 475, 1458
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	4 cut(s)	534, 544, 844, 1515
VpaK11BI	GGWCC	1 cut(s)	383
XapI	RAATTY	5 cut(s)	167, 330, 807, 874, 1164
XceI	RCATGY	3 cut(s)	709, 968, 1378
XmiI	GTMKAC	3 cut(s)	1082, 1415, 1522
XmnI	GAANNNNTTC	1 cut(s)	811
XspI	CTAG	1 cut(s)	66

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