Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0009709

Physical Location & Seq

Genomic Coordinates Forward (+)

89328020 .. 89330232

Gene Structure 2213 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG669500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1170 bp

ATGGATTCGCATACTAACGATGCCAACCTTGACGGGGAAGCTCACGATGTTGACCGGCCAGACCACAGAGGCGGAGGTGAGGCGGAGGACGAAGACTACAAGTCGTCGTCTCAGCCTCACACCGGCGACGGAGCCAGCCCCGGGAAAATCTTTATAGGGGGTTTGGCGAGAGAGACCACTACAGCTCAATTTGTGAAGCATTTTGGTAAATATGGGGAGATTATAGATTCGGTGATAATGAAGGATCGGAAAACAGGGCAGCCAAGGGGCTTTGGGTTTGTGACCTATGCTAACCCTTCTGTGGTTGATACTGTCATAGAAGAGACTCATGTTATCAATGGCAAGCAAGTGGAAATCAAGAGGACAATACCCAGGGGAGCAATGGGGTCGAAGGATTTCAAGACGAAGAAGATTTTTGTGGGTGGAATTCCCACAACAGTGAATGAAGATGAGTTTAGCGACTTCTTTTCACAGTTTGGAGAGGTCAAGGAACATCAGATTATGCGGGACCATTCCACTGGTCGCTCGCGGGGATTTGGATTTGTTACCTTTGAGACAGAGCAAGCAGTTGATGATCTCTTGGACAAGGGGAACAAGCTTGAGTTCGCCGGAGCTCAGGTGGAGATAAAAAAGGCAGAGCCAAAGAAGCAAACCCTACCCCCACCCCCATCAAAACGTTACAATGATTCTAGGCCTGCATATGGTGGTGGATATGGAGATAGTTATGGTGGATTTGGAGGTGGAGGCTATGGTAGTGCAGGTGCTTATAGGACAACCGCAGCAGCCTATGCTGGTAGAGGCAGTGCTTATGGAGGATATAGTGGAAGTGAGTTTGGTGGATACGGAGTATATGGCGGCGGCGGCGGCGGCGGTGGTATAGGGGCTTATAGGGGAGAATCCTCAGTTGGAGGCTACGCAGGCCGTTATGCAGGAGCCTATAGCAGAGGTTATGATCTAGGAGGTGGTGGTGGTTATGGCGGAACAGGTGGTGAGAGTTATGGGGGATATGGAAGTGCTGGTGGTGGAGCTGGTGGTGGTTACGGGAGTGGGAGTGGCTATGATACAGGTTTTGGAGGCGGCTATGGAGGTGGTGGTGGAGCTTCCTTTTATGGTAGTAGAGGGGGATATGGTGGTGCTGGTAGTGGTCGATATCATCCTTATGGGAGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005849 GO:0006139 GO:0006378 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009607 GO:0009719 GO:0009987 GO:0010467 GO:0010494 GO:0016070 GO:0016071 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0035770 GO:0036464 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043631 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0050896 GO:0051716 GO:0070013 GO:0071216 GO:0071495 GO:0071704 GO:0072396 GO:0072402 GO:0072423 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0098787 GO:0098789 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

389

Amino Acids

39.95

Weight (kDa)

6.16

Isoelectric Point (pI)

28.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	50 - 109	5.8e-14	RNA recognition motif
RRM_7	PF16367	136 - 199	1.7e-08	RNA recognition motif
RRM_1	PF00076	138 - 206	1.3e-18	RNA recognition 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: OG0009709)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g51431 FvH4_6g51431 FvH4_6g51431 FvH4_6g51431 FvH4_6g51431
malus_domestica	MD09G1026800.v1.1 MD17G1026600.v1.1
prunus_persica	Prupe.3G292100_v2.0.a1 Prupe.3G292100_v2.0.a1
pyrus_communis	pycom111g02090 pycom17g02170
rosa_chinensis	RchiOBHm_Chr2g0173111
rosa_laevigata	RLG00000022159
rosa_multiflora	Rmu_ssc0000258.1_g000001
rosa_roxburghii	Rroxscaffold_2G00079230
rosa_rugosa	Rorug02G0565300 Rorug02G0565400 Rorug02G0565400
rosa_samantha	Rh2AG645400 Rh2BG656100 Rh2CG621200 Rh2DG669500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	749
Acc36I	ACCTGC	1 cut(s)	749
AccII	CGCG	1 cut(s)	529
AclI	AACGTT	1 cut(s)	676
AclWI	GGATC	1 cut(s)	252
AcoI	YGGCCR	1 cut(s)	56
AcsI	RAATTY	1 cut(s)	426
AfiI	CCNNNNNNNGG	5 cut(s)	34, 122, 141, 301, 701
AgsI	TTSAA	1 cut(s)	400
AhdI	GACNNNNNGTC	1 cut(s)	100
AjnI	CCWGG	1 cut(s)	371
AjuI	GAANNNNNNNTTGG	2 cut(s)	888, 920
AleI	CACNNNNGTG	1 cut(s)	437
AluBI	AGCT	6 cut(s)	41, 185, 598, 614, 1028, 1100
AluI	AGCT	6 cut(s)	41, 185, 598, 614, 1028, 1100
Alw21I	GWGCWC	1 cut(s)	616
Alw26I	GTCTC	4 cut(s)	114, 167, 317, 548
AlwI	GGATC	1 cut(s)	252
Ama87I	CYCGRG	1 cut(s)	140
AoxI	GGCC	3 cut(s)	56, 692, 919
ApeKI	GCWGC	3 cut(s)	259, 779, 782
ApoI	RAATTY	1 cut(s)	426
Asp700I	GAANNNNTTC	1 cut(s)	395
AspS9I	GGNCC	1 cut(s)	508
AsuC2I	CCSGG	2 cut(s)	141, 142
AsuHPI	GGTGA	3 cut(s)	89, 244, 1001
AvaI	CYCGRG	1 cut(s)	140
AvaII	GGWCC	1 cut(s)	508
BanII	GRGCYC	1 cut(s)	616
BbsI	GAAGAC	1 cut(s)	99
Bbv12I	GWGCWC	1 cut(s)	616
BbvI	GCAGC	3 cut(s)	271, 791, 794
BccI	CCATC	1 cut(s)	676
BceAI	ACGGC	1 cut(s)	906
BcgI	CGANNNNNNTGC	2 cut(s)	369, 403
BciT130I	CCWGG	1 cut(s)	373
BciVI	GTATCC	1 cut(s)	833
BcnI	CCSGG	2 cut(s)	141, 142
BcoDI	GTCTC	4 cut(s)	114, 167, 317, 548
BfaI	CTAG	2 cut(s)	690, 956
BfmI	CTRYAG	2 cut(s)	180, 937
BfuAI	ACCTGC	1 cut(s)	749
BfuI	GTATCC	1 cut(s)	833
BisI	GCNGC	9 cut(s)	260, 780, 783, 856, 859, 862, 865, 868, 1078
BlsI	GCNGC	9 cut(s)	261, 781, 784, 857, 860, 863, 866, 869, 1079
Bme1390I	CCNGG	3 cut(s)	141, 142, 373
Bme18I	GGWCC	1 cut(s)	508
BmeRI	GACNNNNNGTC	1 cut(s)	100
BmeT110I	CYCGRG	1 cut(s)	140
BmgT120I	GGNCC	1 cut(s)	508
BmiI	GGNNCC	3 cut(s)	133, 509, 934
BmrFI	CCNGG	3 cut(s)	141, 142, 373
BmsI	GCATC	1 cut(s)	10
BpiI	GAAGAC	1 cut(s)	99
Bpu10I	CCTNAGC	1 cut(s)	615
BpuEI	CTTGAG	1 cut(s)	620
BpuMI	CCSGG	2 cut(s)	141, 142
BsaI	GGTCTC	1 cut(s)	167
BsaJI	CCNNGG	5 cut(s)	139, 140, 263, 371, 372
BsaXI	ACNNNNNCTCC	4 cut(s)	603, 633, 1036, 1066
Bsc4I	CCNNNNNNNGG	5 cut(s)	34, 122, 141, 301, 701
Bse118I	RCCGGY	2 cut(s)	54, 122
Bse1I	ACTGG	1 cut(s)	523
Bse3DI	GCAATG	1 cut(s)	387
BseBI	CCWGG	1 cut(s)	373
BseDI	CCNNGG	5 cut(s)	139, 140, 263, 371, 372
BseGI	GGATG	1 cut(s)	1153
BseLI	CCNNNNNNNGG	5 cut(s)	34, 122, 141, 301, 701
BseMI	GCAATG	1 cut(s)	387
BseMII	CTCAG	3 cut(s)	125, 629, 915
BseNI	ACTGG	1 cut(s)	523
BseXI	GCAGC	3 cut(s)	271, 791, 794
BsgI	GTGCAG	1 cut(s)	777
Bsh1236I	CGCG	1 cut(s)	529
BshFI	GGCC	3 cut(s)	58, 694, 921
BsiHKAI	GWGCWC	1 cut(s)	616
BsiHKCI	CYCGRG	1 cut(s)	140
BsiSI	CCGG	4 cut(s)	55, 123, 141, 609
BslFI	GGGAC	1 cut(s)	521
BslI	CCNNNNNNNGG	5 cut(s)	34, 122, 141, 301, 701
BsmAI	GTCTC	4 cut(s)	114, 167, 317, 548
BsmBI	CGTCTC	1 cut(s)	114
BsmFI	GGGAC	1 cut(s)	521
BsnI	GGCC	3 cut(s)	58, 694, 921
Bso31I	GGTCTC	1 cut(s)	167
BsoBI	CYCGRG	1 cut(s)	140
Bsp1286I	GDGCHC	1 cut(s)	616
Bsp143I	GATC	3 cut(s)	244, 574, 952
BspANI	GGCC	3 cut(s)	58, 694, 921
BspCNI	CTCAG	3 cut(s)	124, 628, 914
BspFNI	CGCG	1 cut(s)	529
BspLI	GGNNCC	3 cut(s)	133, 509, 934
BspMI	ACCTGC	1 cut(s)	749
BspPI	GGATC	1 cut(s)	252
BspTNI	GGTCTC	1 cut(s)	167
BsrDI	GCAATG	1 cut(s)	387
BsrFI	RCCGGY	2 cut(s)	54, 122
BsrI	ACTGG	1 cut(s)	523
BssAI	RCCGGY	2 cut(s)	54, 122
BssECI	CCNNGG	5 cut(s)	139, 140, 263, 371, 372
BssMI	GATC	3 cut(s)	244, 574, 952
BssT1I	CCWWGG	1 cut(s)	263
Bst2UI	CCWGG	1 cut(s)	373
Bst4CI	ACNGT	3 cut(s)	313, 439, 474
Bst6I	CTCTTC	1 cut(s)	315
BstAPI	GCANNNNNTGC	1 cut(s)	788
BstC8I	GCNNGC	6 cut(s)	136, 344, 527, 564, 696, 919
BstDEI	CTNAG	3 cut(s)	111, 615, 901
BstF5I	GGATG	1 cut(s)	1153
BstFNI	CGCG	1 cut(s)	529
BstKTI	GATC	3 cut(s)	247, 577, 955
BstMAI	GTCTC	4 cut(s)	114, 167, 317, 548
BstMBI	GATC	3 cut(s)	244, 574, 952
BstMWI	GCNNNNNNNGC	6 cut(s)	646, 788, 861, 864, 867, 918
BstNI	CCWGG	1 cut(s)	373
BstSCI	CCNGG	3 cut(s)	139, 140, 371
BstSFI	CTRYAG	2 cut(s)	180, 937
BstUI	CGCG	1 cut(s)	529
BstV1I	GCAGC	3 cut(s)	271, 791, 794
BstV2I	GAAGAC	1 cut(s)	99
BstXI	CCANNNNNNTGG	1 cut(s)	518
BsuI	GTATCC	1 cut(s)	833
BsuRI	GGCC	3 cut(s)	58, 694, 921
BtsCI	GGATG	1 cut(s)	1153
BtsI	GCAGTG	1 cut(s)	808
BtsIMutI	CAGTG	3 cut(s)	444, 516, 808
BveI	ACCTGC	1 cut(s)	749
Cac8I	GCNNGC	6 cut(s)	136, 344, 527, 564, 696, 919
Cfr10I	RCCGGY	2 cut(s)	54, 122
Cfr13I	GGNCC	1 cut(s)	508
Cfr9I	CCCGGG	1 cut(s)	140
CviAII	CATG	1 cut(s)	329
DdeI	CTNAG	3 cut(s)	111, 615, 901
DpnI	GATC	3 cut(s)	246, 576, 954
DpnII	GATC	3 cut(s)	244, 574, 952
DriI	GACNNNNNGTC	1 cut(s)	100
EaeI	YGGCCR	1 cut(s)	56
Eam1104I	CTCTTC	1 cut(s)	315
Eam1105I	GACNNNNNGTC	1 cut(s)	100
EarI	CTCTTC	1 cut(s)	315
EciI	GGCGGA	3 cut(s)	87, 98, 993
Ecl136II	GAGCTC	1 cut(s)	614
Eco130I	CCWWGG	1 cut(s)	263
Eco147I	AGGCCT	1 cut(s)	694
Eco24I	GRGCYC	1 cut(s)	616
Eco31I	GGTCTC	1 cut(s)	167
Eco32I	GATATC	1 cut(s)	1151
Eco47I	GGWCC	1 cut(s)	508
Eco53kI	GAGCTC	1 cut(s)	614
Eco88I	CYCGRG	1 cut(s)	140
EcoICRI	GAGCTC	1 cut(s)	614
EcoRI	GAATTC	1 cut(s)	426
EcoRII	CCWGG	1 cut(s)	371
EcoRV	GATATC	1 cut(s)	1151
EcoT14I	CCWWGG	1 cut(s)	263
EcoT38I	GRGCYC	1 cut(s)	616
ErhI	CCWWGG	1 cut(s)	263
Esp3I	CGTCTC	1 cut(s)	114
FaeI	CATG	1 cut(s)	332
FaqI	GGGAC	1 cut(s)	521
FatI	CATG	1 cut(s)	328
FauI	CCCGC	2 cut(s)	498, 522
FauNDI	CATATG	1 cut(s)	700
Fnu4HI	GCNGC	9 cut(s)	260, 780, 783, 856, 859, 862, 865, 868, 1078
FokI	GGATG	1 cut(s)	1140
FriOI	GRGCYC	1 cut(s)	616
Fsp4HI	GCNGC	9 cut(s)	260, 780, 783, 856, 859, 862, 865, 868, 1078
FspBI	CTAG	2 cut(s)	690, 956
GluI	GCNGC	9 cut(s)	260, 780, 783, 856, 859, 862, 865, 868, 1078
HaeIII	GGCC	3 cut(s)	58, 694, 921
HapII	CCGG	4 cut(s)	55, 123, 141, 609
Hin1II	CATG	1 cut(s)	332
HincII	GTYRAC	1 cut(s)	52
HindII	GTYRAC	1 cut(s)	52
HindIII	AAGCTT	1 cut(s)	596
HinfI	GANTC	5 cut(s)	5, 227, 325, 686, 896
HpaII	CCGG	4 cut(s)	55, 123, 141, 609
HphI	GGTGA	3 cut(s)	89, 244, 1001
Hpy166II	GTNNAC	1 cut(s)	52
Hpy188I	TCNGA	2 cut(s)	249, 498
Hpy188III	TCNNGA	3 cut(s)	44, 358, 400
Hpy8I	GTNNAC	1 cut(s)	52
Hpy99I	CGWCG	2 cut(s)	109, 131
HpyAV	CCTTC	3 cut(s)	235, 306, 385
HpyCH4III	ACNGT	3 cut(s)	313, 439, 474
HpyCH4IV	ACGT	1 cut(s)	676
HpyCH4V	TGCA	3 cut(s)	698, 758, 929
HpyF10VI	GCNNNNNNNGC	6 cut(s)	646, 788, 861, 864, 867, 918
HpyF3I	CTNAG	3 cut(s)	111, 615, 901
HpySE526I	ACGT	1 cut(s)	676
Hsp92II	CATG	1 cut(s)	332
Kzo9I	GATC	3 cut(s)	244, 574, 952
LmnI	GCTCC	6 cut(s)	131, 377, 611, 932, 1025, 1097
Lsp1109I	GCAGC	3 cut(s)	271, 791, 794
LweI	GCATC	1 cut(s)	10
MaeI	CTAG	2 cut(s)	690, 956
MaeII	ACGT	1 cut(s)	676
MaeIII	GTNAC	4 cut(s)	280, 544, 677, 1037
MalI	GATC	3 cut(s)	246, 576, 954
MboI	GATC	3 cut(s)	244, 574, 952
MboII	GAAGA	5 cut(s)	104, 332, 418, 421, 458
MhlI	GDGCHC	1 cut(s)	616
MluCI	AATT	2 cut(s)	188, 426
MlyI	GAGTC	1 cut(s)	319
MmeI	TCCRAC	1 cut(s)	886
MroXI	GAANNNNTTC	1 cut(s)	395
MslI	CAYNNNNRTG	2 cut(s)	437, 1158
MspI	CCGG	4 cut(s)	55, 123, 141, 609
MspR9I	CCNGG	3 cut(s)	141, 142, 373
MvaI	CCWGG	1 cut(s)	373
MvnI	CGCG	1 cut(s)	529
MwoI	GCNNNNNNNGC	6 cut(s)	646, 788, 861, 864, 867, 918
NciI	CCSGG	2 cut(s)	141, 142
NdeI	CATATG	1 cut(s)	700
NdeII	GATC	3 cut(s)	244, 574, 952
NlaIII	CATG	1 cut(s)	332
NlaIV	GGNNCC	3 cut(s)	133, 509, 934
NmuCI	GTSAC	1 cut(s)	280
OliI	CACNNNNGTG	1 cut(s)	437
PaqCI	CACCTGC	1 cut(s)	749
PasI	CCCWGGG	1 cut(s)	372
PceI	AGGCCT	1 cut(s)	694
PdmI	GAANNNNTTC	1 cut(s)	395
PfeI	GAWTC	4 cut(s)	5, 227, 686, 896
PkrI	GCNGC	9 cut(s)	261, 781, 784, 857, 860, 863, 866, 869, 1079
PleI	GAGTC	1 cut(s)	319
PpsI	GAGTC	1 cut(s)	319
Psp124BI	GAGCTC	1 cut(s)	616
Psp1406I	AACGTT	1 cut(s)	676
Psp6I	CCWGG	1 cut(s)	371
PspGI	CCWGG	1 cut(s)	371
PspN4I	GGNNCC	3 cut(s)	133, 509, 934
PspPI	GGNCC	1 cut(s)	508
RseI	CAYNNNNRTG	2 cut(s)	437, 1158
SacI	GAGCTC	1 cut(s)	616
SatI	GCNGC	9 cut(s)	260, 780, 783, 856, 859, 862, 865, 868, 1078
Sau3AI	GATC	3 cut(s)	244, 574, 952
Sau96I	GGNCC	1 cut(s)	508
SchI	GAGTC	1 cut(s)	319
ScrFI	CCNGG	3 cut(s)	141, 142, 373
SduI	GDGCHC	1 cut(s)	616
SfaNI	GCATC	1 cut(s)	10
SfcI	CTRYAG	2 cut(s)	180, 937
SgrAI	CRCCGGYG	1 cut(s)	122
SinI	GGWCC	1 cut(s)	508
SmaI	CCCGGG	1 cut(s)	142
SmiMI	CAYNNNNRTG	2 cut(s)	437, 1158
SmlI	CTYRAG	1 cut(s)	599
SmoI	CTYRAG	1 cut(s)	599
Sse9I	AATT	2 cut(s)	188, 426
SseBI	AGGCCT	1 cut(s)	694
SspMI	CTAG	2 cut(s)	690, 956
SstI	GAGCTC	1 cut(s)	616
StuI	AGGCCT	1 cut(s)	694
StyD4I	CCNGG	3 cut(s)	139, 140, 371
StyI	CCWWGG	1 cut(s)	263
TaaI	ACNGT	3 cut(s)	313, 439, 474
TaiI	ACGT	1 cut(s)	679
TaqI	TCGA	2 cut(s)	389, 1147
TasI	AATT	2 cut(s)	188, 426
TauI	GCSGC	6 cut(s)	858, 861, 864, 867, 870, 1080
TfiI	GAWTC	4 cut(s)	5, 227, 686, 896
TscAI	CASTG	3 cut(s)	444, 523, 808
TseFI	GTSAC	1 cut(s)	280
TseI	GCWGC	3 cut(s)	259, 779, 782
Tsp45I	GTSAC	1 cut(s)	280
TspDTI	ATGAA	2 cut(s)	254, 459
TspGWI	ACGGA	2 cut(s)	144, 858
TspMI	CCCGGG	1 cut(s)	140
TspRI	CASTG	3 cut(s)	444, 523, 808
VpaK11BI	GGWCC	1 cut(s)	508
XapI	RAATTY	1 cut(s)	426
XcmI	CCANNNNNNNNNTGG	1 cut(s)	379
XmaI	CCCGGG	1 cut(s)	140
XmnI	GAANNNNTTC	1 cut(s)	395
XspI	CTAG	2 cut(s)	690, 956

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