Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0004353

Physical Location & Seq

Genomic Coordinates Reverse (-)

65724848 .. 65731214

Gene Structure 6367 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG405100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1101 bp

ATGCAGCAGCAGCACCAACAACATCATCTGGGTTTTGAAGAACCACCAAGTAGCAGTAAGGCGAGTCTATTGATTCGTCACCTTCCAGAAGCCATTCCTGAAGAGACCCTGTTCCGCTTACTGTCCCACTATGGCGCTTCTTCTGTCCGCTCTTGCTCTCCTACCGGCAGGATGAGAAACTGTGCTTTTGTGGATTTCCAAACCGAAGGCTTGGCTTACCAAGCACAGCGTCAGTTGAATGGGCTGAGGTTTCTTGGGAAGGTGTTAAAAGTGGAGAGGGCTACTAGCAATAGTGATAAGCCATTGCAGGATGGCAACAAGGATTCGGTTTCGTTGCCTCCCACTTCCACGTCATCTTCGGGGTACAATCCTACCGTCAAAAGGGAGACTCGGGAAACTGAAGTTTCAAGATCAGAGCCTATTGCCCCGAGGCTTGGTGTAGATTACTGCTTTCCTCCTCACCTTGAGTATGCTTACCCACCACCAGATGGAAATATTCTGACCAACATTGTAAATGCTCTAATTGCTGTTCCTCGCTTTTATACTCAGGTTTTGCACTTGATGAACAAAATGAATATTCCAGCTCCATTTCGCATGGCTCTTCCCTCTCCACCTCTACCACCTGCAGCTCCCGTGCCATTTCCCCCACCTCCCCCTCCTCTAGATGCAAAGCCTCCCTCAGCAGATATATCAAGTGACGAGTCTGAAATGGAGTCTTCAGATGAGGAGGCCTCTAGAGGAGCTTCAAGAGGAAAGAAGCGTGTCAAACGGGAATCTATTCTTGGTCCTGCAGTTGATAAAGGTGTAGCACATGAAGATGTTGGATTGAAACAAGCTATTCTAGTCCCAAAAGAGATGCCAATGATAAAGAAGAAGAATCCTCTGCTACAGATAACAATTGCCCAGAAAGTTGCTAACAATGAGCACAAAGATGATAGCACTACCAAAGTAGAAGAGCTTCCGGAGACTGAGAGTTCAGTTATTAACCCTTTTGCAACTCCAGAAGAACTAGAAAGAGGAAAGTTGCCTCCAGAAGAAATATTATCGCTTCCAATGTTTAAGGTGCCAACTCCAAATTTTGGTTATATTTTGGTAAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000375 GO:0000377 GO:0000398 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005689 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008380 GO:0009791 GO:0009987 GO:0010229 GO:0010467 GO:0016070 GO:0016071 GO:0017069 GO:0022414 GO:0030626 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0036002 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048367 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090567 GO:0097157 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

366

Amino Acids

40.36

Weight (kDa)

6.53

Isoelectric Point (pI)

67.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	23 - 90	3.6e-10	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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09230 AT1G09230 AT1G09230
fragaria_vesca	FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950 FvH4_3g32950
malus_domestica	MD03G1112900.v1.1
prunus_persica	Prupe.6G097200_v2.0.a1 Prupe.6G097200_v2.0.a1 Prupe.6G097200_v2.0.a1 Prupe.6G097200_v2.0.a1 Prupe.6G097200_v2.0.a1 Prupe.6G097200_v2.0.a1 Prupe.6G097200_v2.0.a1 Prupe.6G097200_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0060221
rosa_laevigata	RLG00000035347
rosa_roxburghii	Rroxscaffold_1G00020500
rosa_rugosa	Rorug05G0328400
rosa_samantha	Rh5AG392600 Rh5BG405100 Rh5CG429200 Rh5DG420700
rosa_wichuraiana	Rw5G036990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	631
Acc36I	ACCTGC	1 cut(s)	631
AccB1I	GGYRCC	1 cut(s)	1063
AccB7I	CCANNNNNTGG	2 cut(s)	488, 1079
AccBSI	CCGCTC	1 cut(s)	150
AccIII	TCCGGA	1 cut(s)	961
AciI	CCGC	2 cut(s)	115, 148
AcsI	RAATTY	1 cut(s)	1075
AcuI	CTGAAG	3 cut(s)	120, 420, 702
AfaI	GTAC	1 cut(s)	365
AfiI	CCNNNNNNNGG	4 cut(s)	381, 434, 488, 1079
AgsI	TTSAA	5 cut(s)	38, 238, 408, 747, 829
AjiI	CACGTC	1 cut(s)	351
AjuI	GAANNNNNNNTTGG	2 cut(s)	765, 797
AluBI	AGCT	5 cut(s)	584, 629, 743, 836, 958
AluI	AGCT	5 cut(s)	584, 629, 743, 836, 958
Alw21I	GWGCWC	1 cut(s)	927
Alw26I	GTCTC	3 cut(s)	98, 380, 959
Ama87I	CYCGRG	2 cut(s)	390, 427
Aor13HI	TCCGGA	1 cut(s)	961
AoxI	GGCC	1 cut(s)	729
ApeKI	GCWGC	4 cut(s)	4, 7, 10, 626
ApoI	RAATTY	1 cut(s)	1075
Asp700I	GAANNNNTTC	3 cut(s)	93, 777, 957
AspLEI	GCGC	1 cut(s)	137
AspS9I	GGNCC	1 cut(s)	785
AsuHPI	GGTGA	2 cut(s)	71, 452
AvaI	CYCGRG	2 cut(s)	390, 427
AvaII	GGWCC	1 cut(s)	785
BanI	GGYRCC	1 cut(s)	1063
BarI	GAAGNNNNNNTAC	2 cut(s)	942, 974
BbsI	GAAGAC	1 cut(s)	708
Bbv12I	GWGCWC	1 cut(s)	927
BbvCI	CCTCAGC	2 cut(s)	245, 679
BbvI	GCAGC	4 cut(s)	16, 19, 22, 638
BccI	CCATC	2 cut(s)	305, 482
BcoDI	GTCTC	3 cut(s)	98, 380, 959
BfaI	CTAG	5 cut(s)	285, 662, 735, 842, 1010
BfmI	CTRYAG	3 cut(s)	624, 789, 887
BfoI	RGCGCY	1 cut(s)	138
BfuAI	ACCTGC	1 cut(s)	631
BisI	GCNGC	4 cut(s)	5, 8, 11, 627
BlsI	GCNGC	4 cut(s)	6, 9, 12, 628
Bme18I	GGWCC	1 cut(s)	785
BmeT110I	CYCGRG	2 cut(s)	390, 427
BmgBI	CACGTC	1 cut(s)	351
BmgT120I	GGNCC	1 cut(s)	785
BmiI	GGNNCC	1 cut(s)	1065
BmsI	GCATC	2 cut(s)	655, 846
BpiI	GAAGAC	1 cut(s)	708
BplI	GAGNNNNNCTC	2 cut(s)	716, 748
BpmI	CTGGAG	2 cut(s)	984, 1014
Bpu10I	CCTNAGC	2 cut(s)	245, 679
BpuEI	CTTGAG	1 cut(s)	485
BsaI	GGTCTC	1 cut(s)	98
BsaJI	CCNNGG	1 cut(s)	428
BsaWI	WCCGGW	1 cut(s)	961
Bsc4I	CCNNNNNNNGG	4 cut(s)	381, 434, 488, 1079
Bse118I	RCCGGY	1 cut(s)	164
Bse3DI	GCAATG	1 cut(s)	302
BseAI	TCCGGA	1 cut(s)	961
BseDI	CCNNGG	1 cut(s)	428
BseGI	GGATG	2 cut(s)	177, 316
BseLI	CCNNNNNNNGG	4 cut(s)	381, 434, 488, 1079
BseMI	GCAATG	1 cut(s)	302
BseMII	CTCAG	4 cut(s)	236, 560, 693, 960
BseRI	GAGGAG	4 cut(s)	447, 648, 740, 753
BseXI	GCAGC	4 cut(s)	16, 19, 22, 638
BshFI	GGCC	1 cut(s)	731
BshNI	GGYRCC	1 cut(s)	1063
BsiHKAI	GWGCWC	1 cut(s)	927
BsiHKCI	CYCGRG	2 cut(s)	390, 427
BsiSI	CCGG	2 cut(s)	165, 962
BslFI	GGGAC	2 cut(s)	109, 830
BslI	CCNNNNNNNGG	4 cut(s)	381, 434, 488, 1079
BsmAI	GTCTC	3 cut(s)	98, 380, 959
BsmFI	GGGAC	2 cut(s)	109, 830
BsnI	GGCC	1 cut(s)	731
Bso31I	GGTCTC	1 cut(s)	98
BsoBI	CYCGRG	2 cut(s)	390, 427
Bsp1286I	GDGCHC	1 cut(s)	927
Bsp13I	TCCGGA	1 cut(s)	961
Bsp143I	GATC	1 cut(s)	410
BspACI	CCGC	2 cut(s)	115, 148
BspANI	GGCC	1 cut(s)	731
BspCNI	CTCAG	4 cut(s)	237, 559, 692, 961
BspEI	TCCGGA	1 cut(s)	961
BspLI	GGNNCC	1 cut(s)	1065
BspMAI	CTGCAG	2 cut(s)	628, 793
BspMI	ACCTGC	1 cut(s)	631
BspQI	GCTCTTC	2 cut(s)	606, 948
BspT107I	GGYRCC	1 cut(s)	1063
BspTNI	GGTCTC	1 cut(s)	98
BsrBI	CCGCTC	1 cut(s)	150
BsrDI	GCAATG	1 cut(s)	302
BsrFI	RCCGGY	1 cut(s)	164
BssAI	RCCGGY	1 cut(s)	164
BssECI	CCNNGG	1 cut(s)	428
BssMI	GATC	1 cut(s)	410
Bst4CI	ACNGT	3 cut(s)	123, 182, 376
Bst6I	CTCTTC	3 cut(s)	96, 606, 948
BstDEI	CTNAG	4 cut(s)	245, 546, 679, 969
BstF5I	GGATG	2 cut(s)	177, 316
BstH2I	RGCGCY	1 cut(s)	138
BstHHI	GCGC	1 cut(s)	137
BstKTI	GATC	1 cut(s)	413
BstMAI	GTCTC	3 cut(s)	98, 380, 959
BstMBI	GATC	1 cut(s)	410
BstMWI	GCNNNNNNNGC	3 cut(s)	10, 221, 524
BstSFI	CTRYAG	3 cut(s)	624, 789, 887
BstV1I	GCAGC	4 cut(s)	16, 19, 22, 638
BstV2I	GAAGAC	1 cut(s)	708
BsuRI	GGCC	1 cut(s)	731
BtrI	CACGTC	1 cut(s)	351
BtsCI	GGATG	2 cut(s)	177, 316
BveI	ACCTGC	1 cut(s)	631
CfoI	GCGC	1 cut(s)	137
Cfr10I	RCCGGY	1 cut(s)	164
Cfr13I	GGNCC	1 cut(s)	785
CseI	GACGC	1 cut(s)	218
Csp6I	GTAC	1 cut(s)	364
CviAII	CATG	2 cut(s)	595, 812
CviQI	GTAC	1 cut(s)	364
DdeI	CTNAG	4 cut(s)	245, 546, 679, 969
DpnI	GATC	1 cut(s)	412
DpnII	GATC	1 cut(s)	410
Eam1104I	CTCTTC	3 cut(s)	96, 606, 948
EarI	CTCTTC	3 cut(s)	96, 606, 948
Eco147I	AGGCCT	1 cut(s)	731
Eco31I	GGTCTC	1 cut(s)	98
Eco47I	GGWCC	1 cut(s)	785
Eco57I	CTGAAG	3 cut(s)	120, 420, 702
Eco88I	CYCGRG	2 cut(s)	390, 427
FaeI	CATG	2 cut(s)	598, 815
FaiI	YATR	7 cut(s)	132, 471, 543, 596, 689, 813, 1086
FaqI	GGGAC	2 cut(s)	109, 830
FatI	CATG	2 cut(s)	594, 811
Fnu4HI	GCNGC	4 cut(s)	5, 8, 11, 627
FokI	GGATG	2 cut(s)	184, 323
Fsp4HI	GCNGC	4 cut(s)	5, 8, 11, 627
FspBI	CTAG	5 cut(s)	285, 662, 735, 842, 1010
GlaI	GCGC	1 cut(s)	136
GluI	GCNGC	4 cut(s)	5, 8, 11, 627
GsuI	CTGGAG	2 cut(s)	984, 1014
HaeII	RGCGCY	1 cut(s)	138
HaeIII	GGCC	1 cut(s)	731
HapII	CCGG	2 cut(s)	165, 962
HgaI	GACGC	1 cut(s)	218
HhaI	GCGC	1 cut(s)	137
Hin1II	CATG	2 cut(s)	598, 815
Hin6I	GCGC	1 cut(s)	135
HinP1I	GCGC	1 cut(s)	135
HinfI	GANTC	8 cut(s)	64, 73, 323, 388, 701, 713, 773, 877
HpaII	CCGG	2 cut(s)	165, 962
HphI	GGTGA	2 cut(s)	71, 452
Hpy188I	TCNGA	4 cut(s)	415, 501, 706, 721
HpyAV	CCTTC	3 cut(s)	92, 200, 253
HpyCH4III	ACNGT	3 cut(s)	123, 182, 376
HpyCH4IV	ACGT	1 cut(s)	350
HpyCH4V	TGCA	7 cut(s)	4, 307, 556, 626, 668, 791, 995
HpyF10VI	GCNNNNNNNGC	3 cut(s)	10, 221, 524
HpyF3I	CTNAG	4 cut(s)	245, 546, 679, 969
HpySE526I	ACGT	1 cut(s)	350
Hsp92II	CATG	2 cut(s)	598, 815
HspAI	GCGC	1 cut(s)	135
Kpn2I	TCCGGA	1 cut(s)	961
Kzo9I	GATC	1 cut(s)	410
LguI	GCTCTTC	2 cut(s)	606, 948
LmnI	GCTCC	3 cut(s)	589, 634, 740
Lsp1109I	GCAGC	4 cut(s)	16, 19, 22, 638
LweI	GCATC	2 cut(s)	655, 846
MaeI	CTAG	5 cut(s)	285, 662, 735, 842, 1010
MaeII	ACGT	1 cut(s)	350
MaeIII	GTNAC	2 cut(s)	77, 695
MalI	GATC	1 cut(s)	412
MbiI	CCGCTC	1 cut(s)	150
MboI	GATC	1 cut(s)	410
MfeI	CAATTG	1 cut(s)	897
MhlI	GDGCHC	1 cut(s)	927
MluCI	AATT	3 cut(s)	522, 897, 1075
MlyI	GAGTC	4 cut(s)	73, 382, 710, 722
MmeI	TCCRAC	1 cut(s)	802
MroI	TCCGGA	1 cut(s)	961
MroXI	GAANNNNTTC	3 cut(s)	93, 777, 957
MseI	TTAA	3 cut(s)	266, 984, 1059
MslI	CAYNNNNRTG	2 cut(s)	816, 930
MspI	CCGG	2 cut(s)	165, 962
MunI	CAATTG	1 cut(s)	897
MwoI	GCNNNNNNNGC	3 cut(s)	10, 221, 524
NdeII	GATC	1 cut(s)	410
NlaIII	CATG	2 cut(s)	598, 815
NlaIV	GGNNCC	1 cut(s)	1065
NmuCI	GTSAC	2 cut(s)	77, 695
PaqCI	CACCTGC	1 cut(s)	631
PceI	AGGCCT	1 cut(s)	731
PciSI	GCTCTTC	2 cut(s)	606, 948
PdmI	GAANNNNTTC	3 cut(s)	93, 777, 957
PfeI	GAWTC	4 cut(s)	73, 323, 773, 877
PflMI	CCANNNNNTGG	2 cut(s)	488, 1079
PkrI	GCNGC	4 cut(s)	6, 9, 12, 628
PleI	GAGTC	4 cut(s)	72, 382, 709, 721
PpsI	GAGTC	4 cut(s)	72, 382, 709, 721
PspN4I	GGNNCC	1 cut(s)	1065
PspPI	GGNCC	1 cut(s)	785
PstI	CTGCAG	2 cut(s)	628, 793
RsaI	GTAC	1 cut(s)	365
RsaNI	GTAC	1 cut(s)	364
RseI	CAYNNNNRTG	2 cut(s)	816, 930
SapI	GCTCTTC	2 cut(s)	606, 948
SaqAI	TTAA	3 cut(s)	266, 984, 1059
SatI	GCNGC	4 cut(s)	5, 8, 11, 627
Sau3AI	GATC	1 cut(s)	410
Sau96I	GGNCC	1 cut(s)	785
SchI	GAGTC	4 cut(s)	73, 382, 710, 722
SduI	GDGCHC	1 cut(s)	927
SfaNI	GCATC	2 cut(s)	655, 846
SfcI	CTRYAG	3 cut(s)	624, 789, 887
SinI	GGWCC	1 cut(s)	785
SmiMI	CAYNNNNRTG	2 cut(s)	816, 930
SmlI	CTYRAG	1 cut(s)	464
SmoI	CTYRAG	1 cut(s)	464
Sse9I	AATT	3 cut(s)	522, 897, 1075
SseBI	AGGCCT	1 cut(s)	731
SsiI	CCGC	2 cut(s)	115, 148
SspI	AATATT	3 cut(s)	496, 577, 1041
SspMI	CTAG	5 cut(s)	285, 662, 735, 842, 1010
StuI	AGGCCT	1 cut(s)	731
TaaI	ACNGT	3 cut(s)	123, 182, 376
TaiI	ACGT	1 cut(s)	353
TasI	AATT	3 cut(s)	522, 897, 1075
TfiI	GAWTC	4 cut(s)	73, 323, 773, 877
Tru1I	TTAA	3 cut(s)	266, 984, 1059
Tru9I	TTAA	3 cut(s)	266, 984, 1059
TseFI	GTSAC	2 cut(s)	77, 695
TseI	GCWGC	4 cut(s)	4, 7, 10, 626
Tsp45I	GTSAC	2 cut(s)	77, 695
TspDTI	ATGAA	3 cut(s)	578, 587, 828
Van91I	CCANNNNNTGG	2 cut(s)	488, 1079
VpaK11BI	GGWCC	1 cut(s)	785
XapI	RAATTY	1 cut(s)	1075
XbaI	TCTAGA	2 cut(s)	661, 734
XmnI	GAANNNNTTC	3 cut(s)	93, 777, 957
XspI	CTAG	5 cut(s)	285, 662, 735, 842, 1010

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