Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0010500

Physical Location & Seq

Genomic Coordinates Reverse (-)

46615532 .. 46622233

Gene Structure 6702 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00425590.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1398 bp

ATGGCGAGGTTCGCAGGGAACGGCTCGGAGAATCTCCAACAAGAAGAAGAAGAAGAAGAAGAGAAACCGCAGCAATCAGGTTCCGAACAGACAATATTGGAGATGGAAGCCAAAACCGAAATTTTGAGTGAAGTAGGATGGTTCATTCTCGGTGAAAATCAGCAACATCTTGGTCCCTACGCATTTTCAGAGTTGCGCGAGCATTTCTCAAATGGCTACCTCACCCACTCTACGCTGGTCTGGTCACAAGGAAGAAGCGAATGGCAGCCACTGTCCTCAATTCCTAATTTGGTCACCCAACTTGCTTGCCATGACCATGACCCAGTGCCCCCCAGTGGTAATGATGATGACTTTGAGAAATGGCAGAAGCAGATTTCTAAGGCAGAAGCAGATAGTGAAAGACCTTCAACACCGCCCGAGGGCGAGGAAGAGTTCATTGATGATGATGGGACTCAATATATGTGGGATCGGGGTCTTAGGGCTTGGGTTCCTCAGGATAGCATGTTTGGGGTAGAGGAGATGACTTTCTTGCAAGAAGAGGAAGTCTTCATGAATGCCAAACCTTCTGATGACTCTTCAAGGCAGGAGGTTGATGCAACTGGAATTTTTTCTGATCCTTCTAAAGAAGAAGACACTATTGTTAACTGTGAGGTAGAACAAGGGAATCCAAATTCAAAGAGAAAACTGTCGGATACGGAAGATGTGAAAAAGGAAGCTAATAAACCTCCTGATAGTTGGTTTGAGCTAAAGGTCAATTCACATGTTTATGTGACTGGATTACCCGATGATGTTACAGTTGACGAAGTGGTGGAGGTGTTTTCCAAGTGTGGGATAATAAAAGAGGAGCCCTCAGTCGATTTGGCTCTCAAAATTTTGGATGGAACACCTCTGCGTCTTGGTAGCAAGGTTCTCATGTCAGTCACCCAAGCTAAGTTTGAGCAGAAAGGGGATAGATTTATTGCCAAACAAGCAGACAACAAGAGGAAAAAAAAACTGAAGAAGGTGGAAGAGAAGATGCTTGGCTGGGGTGGTCGTGATGATGCAAAACTGTTGATTCCAGCTACTGTTCTTCTTCGTTACATGTTCACTACTGCTGAAATGAGGGCAGATGAAAATTTACATGCAGAATTGCAGGCAGATGTTGAGGAGGAATGTCAGAAGCTTGGTCCCGTGGACTCAGTCAAGGTTTGTGAGAATCATCCCCAGGGTGTTGTTTTGGTAAGATTCAAAGATAGGAAGGATGCTCAAAAGTGCATAGAGTTGATGAATGGAAGATGGTTTGGTGGTAGGCAGATACATGCAAGTGAGGATGATGGTTTAATTAACCATGCTTTGGTCCGGAATCTGGATGATGATGCTGAACGCTTAGAGCAGTTTGCTTCCGAACTTGATGTATGA

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

465

Amino Acids

52.68

Weight (kDa)

4.59

Isoelectric Point (pI)

51.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
GYF_2	PF14237	47 - 97	2.9e-16	GYF domain 2
RRM_1	PF00076	379 - 433	3.1e-09	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB7I	CCANNNNNTGG	1 cut(s)	1333
AccII	CGCG	1 cut(s)	198
AccIII	TCCGGA	1 cut(s)	1338
AciI	CCGC	2 cut(s)	68, 413
AclWI	GGATC	2 cut(s)	474, 608
AcsI	RAATTY	5 cut(s)	120, 603, 670, 870, 1114
AcuI	CTGAAG	1 cut(s)	1016
AfiI	CCNNNNNNNGG	5 cut(s)	335, 419, 828, 1333, 1345
AflIII	ACRYGT	2 cut(s)	760, 1080
AgsI	TTSAA	4 cut(s)	408, 579, 675, 1228
AjnI	CCWGG	1 cut(s)	1203
AluBI	AGCT	5 cut(s)	716, 745, 929, 1061, 1162
AluI	AGCT	5 cut(s)	716, 745, 929, 1061, 1162
AlwI	GGATC	2 cut(s)	474, 608
AlwNI	CAGNNNCTG	2 cut(s)	271, 1064
Ama87I	CYCGRG	1 cut(s)	416
Aor13HI	TCCGGA	1 cut(s)	1338
ApeKI	GCWGC	2 cut(s)	70, 265
ApoI	RAATTY	5 cut(s)	120, 603, 670, 870, 1114
Asp700I	GAANNNNTTC	1 cut(s)	607
AspLEI	GCGC	1 cut(s)	198
AspS9I	GGNCC	3 cut(s)	173, 1166, 1336
AsuHPI	GGTGA	4 cut(s)	164, 214, 286, 913
AvaI	CYCGRG	1 cut(s)	416
AvaII	GGWCC	3 cut(s)	173, 1166, 1336
AxyI	CCTNAGG	1 cut(s)	492
BaeGI	GKGCMC	1 cut(s)	330
BanII	GRGCYC	1 cut(s)	849
BbsI	GAAGAC	2 cut(s)	538, 636
BbvI	GCAGC	2 cut(s)	82, 277
BccI	CCATC	6 cut(s)	97, 132, 440, 872, 1269, 1307
BceAI	ACGGC	1 cut(s)	37
BciT130I	CCWGG	1 cut(s)	1205
BciVI	GTATCC	1 cut(s)	685
BfuI	GTATCC	1 cut(s)	685
BisI	GCNGC	2 cut(s)	71, 266
BlsI	GCNGC	2 cut(s)	72, 267
Bme1390I	CCNGG	1 cut(s)	1205
Bme18I	GGWCC	3 cut(s)	173, 1166, 1336
BmeT110I	CYCGRG	1 cut(s)	416
BmgT120I	GGNCC	3 cut(s)	173, 1166, 1336
BmiI	GGNNCC	5 cut(s)	82, 175, 489, 846, 1168
BmrFI	CCNGG	1 cut(s)	1205
BmrI	ACTGGG	2 cut(s)	317, 327
BmsI	GCATC	5 cut(s)	583, 1005, 1030, 1231, 1345
BmuI	ACTGGG	2 cut(s)	317, 327
BpiI	GAAGAC	2 cut(s)	538, 636
BplI	GAGNNNNNCTC	4 cut(s)	191, 223, 833, 865
BsaJI	CCNNGG	4 cut(s)	417, 1170, 1203, 1204
BsaWI	WCCGGW	1 cut(s)	1338
Bsc4I	CCNNNNNNNGG	5 cut(s)	335, 419, 828, 1333, 1345
Bse1I	ACTGG	4 cut(s)	323, 333, 604, 778
Bse21I	CCTNAGG	1 cut(s)	492
BseAI	TCCGGA	1 cut(s)	1338
BseBI	CCWGG	1 cut(s)	1205
BseDI	CCNNGG	4 cut(s)	417, 1170, 1203, 1204
BseGI	GGATG	6 cut(s)	143, 883, 1198, 1246, 1315, 1354
BseLI	CCNNNNNNNGG	5 cut(s)	335, 419, 828, 1333, 1345
BseMII	CTCAG	3 cut(s)	506, 864, 1191
BseNI	ACTGG	4 cut(s)	323, 333, 604, 778
BseRI	GAGGAG	3 cut(s)	530, 857, 1160
BseSI	GKGCMC	1 cut(s)	330
BseXI	GCAGC	2 cut(s)	82, 277
BseYI	CCCAGC	1 cut(s)	1023
Bsh1236I	CGCG	1 cut(s)	198
BsiHKCI	CYCGRG	1 cut(s)	416
BsiSI	CCGG	1 cut(s)	1339
BslFI	GGGAC	3 cut(s)	159, 463, 1152
BslI	CCNNNNNNNGG	5 cut(s)	335, 419, 828, 1333, 1345
BsmFI	GGGAC	3 cut(s)	159, 463, 1152
BsmI	GAATGC	1 cut(s)	559
BsoBI	CYCGRG	1 cut(s)	416
Bsp1286I	GDGCHC	2 cut(s)	330, 849
Bsp13I	TCCGGA	1 cut(s)	1338
Bsp143I	GATC	2 cut(s)	466, 613
BspACI	CCGC	2 cut(s)	68, 413
BspCNI	CTCAG	3 cut(s)	505, 863, 1190
BspEI	TCCGGA	1 cut(s)	1338
BspFNI	CGCG	1 cut(s)	198
BspHI	TCATGA	1 cut(s)	549
BspLI	GGNNCC	5 cut(s)	82, 175, 489, 846, 1168
BspPI	GGATC	2 cut(s)	474, 608
BsrI	ACTGG	4 cut(s)	323, 333, 604, 778
BssECI	CCNNGG	4 cut(s)	417, 1170, 1203, 1204
BssMI	GATC	2 cut(s)	466, 613
Bst2UI	CCWGG	1 cut(s)	1205
Bst4CI	ACNGT	6 cut(s)	273, 647, 687, 796, 1050, 1066
Bst6I	CTCTTC	5 cut(s)	54, 423, 531, 580, 1002
BstC8I	GCNNGC	3 cut(s)	200, 307, 1134
BstDEI	CTNAG	7 cut(s)	378, 476, 492, 850, 930, 1177, 1366
BstDSI	CCRYGG	1 cut(s)	1170
BstEII	GGTNACC	1 cut(s)	292
BstF5I	GGATG	6 cut(s)	143, 883, 1198, 1246, 1315, 1354
BstFNI	CGCG	1 cut(s)	198
BstHHI	GCGC	1 cut(s)	198
BstKTI	GATC	2 cut(s)	469, 616
BstMBI	GATC	2 cut(s)	466, 613
BstMWI	GCNNNNNNNGC	2 cut(s)	11, 968
BstNI	CCWGG	1 cut(s)	1205
BstNSI	RCATGY	5 cut(s)	505, 764, 1084, 1124, 1301
BstPI	GGTNACC	1 cut(s)	292
BstSCI	CCNGG	1 cut(s)	1203
BstSLI	GKGCMC	1 cut(s)	330
BstUI	CGCG	1 cut(s)	198
BstV1I	GCAGC	2 cut(s)	82, 277
BstV2I	GAAGAC	2 cut(s)	538, 636
Bsu36I	CCTNAGG	1 cut(s)	492
BsuI	GTATCC	1 cut(s)	685
BtgI	CCRYGG	1 cut(s)	1170
BtsCI	GGATG	6 cut(s)	143, 883, 1198, 1246, 1315, 1354
BtsIMutI	CAGTG	3 cut(s)	269, 330, 340
Cac8I	GCNNGC	3 cut(s)	200, 307, 1134
CaiI	CAGNNNCTG	2 cut(s)	271, 1064
CciI	TCATGA	1 cut(s)	549
CfoI	GCGC	1 cut(s)	198
Cfr13I	GGNCC	3 cut(s)	173, 1166, 1336
CseI	GACGC	1 cut(s)	881
CspCI	CAANNNNNGTGG	2 cut(s)	443, 478
DdeI	CTNAG	7 cut(s)	378, 476, 492, 850, 930, 1177, 1366
DpnI	GATC	2 cut(s)	468, 615
DpnII	GATC	2 cut(s)	466, 613
Eam1104I	CTCTTC	5 cut(s)	54, 423, 531, 580, 1002
EarI	CTCTTC	5 cut(s)	54, 423, 531, 580, 1002
Eco24I	GRGCYC	1 cut(s)	849
Eco47I	GGWCC	3 cut(s)	173, 1166, 1336
Eco57I	CTGAAG	1 cut(s)	1016
Eco81I	CCTNAGG	1 cut(s)	492
Eco88I	CYCGRG	1 cut(s)	416
Eco91I	GGTNACC	1 cut(s)	292
EcoO65I	GGTNACC	1 cut(s)	292
EcoRII	CCWGG	1 cut(s)	1203
EcoT38I	GRGCYC	1 cut(s)	849
FaqI	GGGAC	3 cut(s)	159, 463, 1152
Fnu4HI	GCNGC	2 cut(s)	71, 266
FokI	GGATG	6 cut(s)	150, 890, 1185, 1253, 1322, 1361
FriOI	GRGCYC	1 cut(s)	849
Fsp4HI	GCNGC	2 cut(s)	71, 266
GlaI	GCGC	1 cut(s)	197
GluI	GCNGC	2 cut(s)	71, 266
GsaI	CCCAGC	1 cut(s)	1027
HapII	CCGG	1 cut(s)	1339
HgaI	GACGC	1 cut(s)	881
HhaI	GCGC	1 cut(s)	198
Hin6I	GCGC	1 cut(s)	196
HinP1I	GCGC	1 cut(s)	196
HincII	GTYRAC	2 cut(s)	643, 799
HindII	GTYRAC	2 cut(s)	643, 799
HindIII	AAGCTT	1 cut(s)	1160
HinfI	GANTC	9 cut(s)	31, 451, 572, 664, 1054, 1175, 1195, 1224, 1342
HpaI	GTTAAC	1 cut(s)	643
HpaII	CCGG	1 cut(s)	1339
HphI	GGTGA	4 cut(s)	164, 214, 286, 913
Hpy166II	GTNNAC	4 cut(s)	643, 799, 1086, 1174
Hpy188I	TCNGA	8 cut(s)	28, 85, 190, 568, 613, 691, 1158, 1384
Hpy188III	TCNNGA	6 cut(s)	494, 550, 728, 1034, 1339, 1346
Hpy8I	GTNNAC	4 cut(s)	643, 799, 1086, 1174
HpyAV	CCTTC	5 cut(s)	414, 573, 627, 994, 1231
HpyCH4III	ACNGT	6 cut(s)	273, 647, 687, 796, 1050, 1066
HpyCH4V	TGCA	7 cut(s)	532, 596, 1043, 1124, 1132, 1254, 1301
HpyF10VI	GCNNNNNNNGC	2 cut(s)	11, 968
HpyF3I	CTNAG	7 cut(s)	378, 476, 492, 850, 930, 1177, 1366
HspAI	GCGC	1 cut(s)	196
Kpn2I	TCCGGA	1 cut(s)	1338
KspAI	GTTAAC	1 cut(s)	643
Kzo9I	GATC	2 cut(s)	466, 613
LmnI	GCTCC	1 cut(s)	844
Lsp1109I	GCAGC	2 cut(s)	82, 277
LweI	GCATC	5 cut(s)	583, 1005, 1030, 1231, 1345
MaeIII	GTNAC	6 cut(s)	243, 292, 769, 790, 919, 1076
MalI	GATC	2 cut(s)	468, 615
MboI	GATC	2 cut(s)	466, 613
MhlI	GDGCHC	2 cut(s)	330, 849
MlyI	GAGTC	3 cut(s)	445, 566, 1169
MmeI	TCCRAC	2 cut(s)	61, 669
MroI	TCCGGA	1 cut(s)	1338
MroXI	GAANNNNTTC	1 cut(s)	607
MseI	TTAA	3 cut(s)	642, 1319, 1323
MslI	CAYNNNNRTG	3 cut(s)	315, 765, 1302
MspI	CCGG	1 cut(s)	1339
MspR9I	CCNGG	1 cut(s)	1205
Mva1269I	GAATGC	1 cut(s)	559
MvaI	CCWGG	1 cut(s)	1205
MvnI	CGCG	1 cut(s)	198
MwoI	GCNNNNNNNGC	2 cut(s)	11, 968
NdeII	GATC	2 cut(s)	466, 613
NlaIV	GGNNCC	5 cut(s)	82, 175, 489, 846, 1168
NmuCI	GTSAC	4 cut(s)	243, 292, 769, 919
NspI	RCATGY	5 cut(s)	505, 764, 1084, 1124, 1301
PacI	TTAATTAA	1 cut(s)	1323
PagI	TCATGA	1 cut(s)	549
PasI	CCCWGGG	1 cut(s)	1204
PciI	ACATGT	2 cut(s)	760, 1080
PctI	GAATGC	1 cut(s)	559
PdmI	GAANNNNTTC	1 cut(s)	607
PfeI	GAWTC	6 cut(s)	31, 664, 1054, 1195, 1224, 1342
PflFI	GACNNNGTC	1 cut(s)	1178
PflMI	CCANNNNNTGG	1 cut(s)	1333
PkrI	GCNGC	2 cut(s)	72, 267
PleI	GAGTC	3 cut(s)	445, 566, 1169
PpsI	GAGTC	3 cut(s)	445, 566, 1169
PscI	ACATGT	2 cut(s)	760, 1080
Psp6I	CCWGG	1 cut(s)	1203
PspEI	GGTNACC	1 cut(s)	292
PspFI	CCCAGC	1 cut(s)	1023
PspGI	CCWGG	1 cut(s)	1203
PspN4I	GGNNCC	5 cut(s)	82, 175, 489, 846, 1168
PspPI	GGNCC	3 cut(s)	173, 1166, 1336
PstNI	CAGNNNCTG	2 cut(s)	271, 1064
PsyI	GACNNNGTC	1 cut(s)	1178
RseI	CAYNNNNRTG	3 cut(s)	315, 765, 1302
SaqAI	TTAA	3 cut(s)	642, 1319, 1323
SatI	GCNGC	2 cut(s)	71, 266
Sau3AI	GATC	2 cut(s)	466, 613
Sau96I	GGNCC	3 cut(s)	173, 1166, 1336
SchI	GAGTC	3 cut(s)	445, 566, 1169
ScrFI	CCNGG	1 cut(s)	1205
SduI	GDGCHC	2 cut(s)	330, 849
SfaNI	GCATC	5 cut(s)	583, 1005, 1030, 1231, 1345
SinI	GGWCC	3 cut(s)	173, 1166, 1336
SmiMI	CAYNNNNRTG	3 cut(s)	315, 765, 1302
SsiI	CCGC	2 cut(s)	68, 413
SspI	AATATT	1 cut(s)	96
StyD4I	CCNGG	1 cut(s)	1203
TaaI	ACNGT	6 cut(s)	273, 647, 687, 796, 1050, 1066
TaqI	TCGA	1 cut(s)	855
TfiI	GAWTC	6 cut(s)	31, 664, 1054, 1195, 1224, 1342
Tru1I	TTAA	3 cut(s)	642, 1319, 1323
Tru9I	TTAA	3 cut(s)	642, 1319, 1323
TscAI	CASTG	3 cut(s)	276, 330, 340
TseFI	GTSAC	4 cut(s)	243, 292, 769, 919
TseI	GCWGC	2 cut(s)	70, 265
Tsp45I	GTSAC	4 cut(s)	243, 292, 769, 919
TspDTI	ATGAA	6 cut(s)	133, 424, 538, 566, 1125, 1280
TspGWI	ACGGA	1 cut(s)	710
TspRI	CASTG	3 cut(s)	276, 330, 340
Tth111I	GACNNNGTC	1 cut(s)	1178
Van91I	CCANNNNNTGG	1 cut(s)	1333
VpaK11BI	GGWCC	3 cut(s)	173, 1166, 1336
XapI	RAATTY	5 cut(s)	120, 603, 670, 870, 1114
XceI	RCATGY	5 cut(s)	505, 764, 1084, 1124, 1301
XmnI	GAANNNNTTC	1 cut(s)	607

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