Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0014278

Physical Location & Seq

Genomic Coordinates Forward (+)

31417591 .. 31420728

Gene Structure 3138 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG261800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 354 bp

ATGGCTTTGACTATGAGAGCGGCGGCAGCGGCAGCAGCGGCGGCGGGGCCCACTCGCGGCTTGAGACGGCTGTTCTCGACTGGCTTCGTTCCTCCGATGAACTCTCCGCCGCCTACTCCTCGAGTAGAGGCCGAACCAAGCACCAACCTCTTCGTCTCCGGGCTTAACAAGCGTACTACCTCAGAAGGACTACATAAAGCCTTTTCTGCATTTGGTGAAGTAGTTCAAGCTCGAGTGGTGACTGATCGGGTATCAGGATTCTCCAAGGGATTTGGTTTTGTAAGGTATTCAACCTTAGAAGATGCTGCCAAAGGCAAACAAGGCATGGATGGACAGGAACCGCTGAAGCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000959 GO:0003674 GO:0003676 GO:0003677 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016071 GO:0016556 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0042162 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0043565 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0080156 GO:0090304 GO:0097159 GO:1900864 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

117

Amino Acids

12.36

Weight (kDa)

10.34

Isoelectric Point (pI)

38.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	50 - 113	4.4e-17	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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Publication-ready

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Orthologous Genes (Group: OG0014278)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G54580
fragaria_vesca	FvH4_3g21540
malus_domestica	MD03G1215200.v1.1 MD11G1229900.v1.1
prunus_persica	Prupe.4G197600_v2.0.a1
pyrus_communis	pycom03g16370 pycom11g20360
rosa_chinensis	RchiOBHm_Chr5g0036991
rosa_laevigata	RLG00000033741
rosa_multiflora	Rmu_sc0013351.1_g000001
rosa_roxburghii	Rroxscaffold_1G00043980
rosa_rugosa	Rorug05G0159600
rosa_samantha	Rh5AG251700 Rh5BG253200 Rh5CG285900 Rh5DG261800
rosa_wichuraiana	Rw5G023180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	20
AccII	CGCG	1 cut(s)	57
AfaI	GTAC	1 cut(s)	175
AfiI	CCNNNNNNNGG	1 cut(s)	56
AgsI	TTSAA	2 cut(s)	227, 291
AluBI	AGCT	1 cut(s)	230
AluI	AGCT	1 cut(s)	230
Alw26I	GTCTC	2 cut(s)	58, 160
Ama87I	CYCGRG	2 cut(s)	120, 231
AoxI	GGCC	2 cut(s)	47, 129
ApaI	GGGCCC	1 cut(s)	51
ApeKI	GCWGC	4 cut(s)	26, 32, 35, 305
Asp700I	GAANNNNTTC	1 cut(s)	222
AspS9I	GGNCC	2 cut(s)	47, 48
AsuC2I	CCSGG	1 cut(s)	160
AsuHPI	GGTGA	2 cut(s)	227, 250
AvaI	CYCGRG	2 cut(s)	120, 231
BaeGI	GKGCMC	1 cut(s)	51
BanII	GRGCYC	1 cut(s)	51
BbvI	GCAGC	4 cut(s)	38, 44, 47, 292
BccI	CCATC	1 cut(s)	323
BceAI	ACGGC	1 cut(s)	83
BcnI	CCSGG	1 cut(s)	160
BcoDI	GTCTC	2 cut(s)	58, 160
Bme1390I	CCNGG	1 cut(s)	160
BmeT110I	CYCGRG	2 cut(s)	120, 231
BmgT120I	GGNCC	2 cut(s)	47, 48
BmiI	GGNNCC	3 cut(s)	48, 49, 339
BmrFI	CCNGG	1 cut(s)	160
BmsI	GCATC	1 cut(s)	292
BpuEI	CTTGAG	1 cut(s)	82
BpuMI	CCSGG	1 cut(s)	160
BsaJI	CCNNGG	1 cut(s)	264
Bsc4I	CCNNNNNNNGG	1 cut(s)	56
Bse1I	ACTGG	1 cut(s)	85
BseDI	CCNNGG	1 cut(s)	264
BseGI	GGATG	1 cut(s)	334
BseLI	CCNNNNNNNGG	1 cut(s)	56
BseMII	CTCAG	1 cut(s)	195
BseNI	ACTGG	1 cut(s)	85
BseRI	GAGGAG	1 cut(s)	108
BseSI	GKGCMC	1 cut(s)	51
BseXI	GCAGC	4 cut(s)	38, 44, 47, 292
Bsh1236I	CGCG	1 cut(s)	57
BshFI	GGCC	2 cut(s)	49, 131
BsiHKCI	CYCGRG	2 cut(s)	120, 231
BsiSI	CCGG	1 cut(s)	159
BslI	CCNNNNNNNGG	1 cut(s)	56
BsmAI	GTCTC	2 cut(s)	58, 160
BsmBI	CGTCTC	2 cut(s)	58, 160
BsnI	GGCC	2 cut(s)	49, 131
BsoBI	CYCGRG	2 cut(s)	120, 231
Bsp120I	GGGCCC	1 cut(s)	47
Bsp1286I	GDGCHC	1 cut(s)	51
Bsp143I	GATC	1 cut(s)	244
BspANI	GGCC	2 cut(s)	49, 131
BspCNI	CTCAG	1 cut(s)	194
BspFNI	CGCG	1 cut(s)	57
BspLI	GGNNCC	3 cut(s)	48, 49, 339
BsrBI	CCGCTC	1 cut(s)	20
BsrI	ACTGG	1 cut(s)	85
BssECI	CCNNGG	1 cut(s)	264
BssMI	GATC	1 cut(s)	244
BssT1I	CCWWGG	1 cut(s)	264
Bst6I	CTCTTC	1 cut(s)	155
BstDEI	CTNAG	2 cut(s)	181, 295
BstF5I	GGATG	1 cut(s)	334
BstFNI	CGCG	1 cut(s)	57
BstKTI	GATC	1 cut(s)	247
BstMAI	GTCTC	2 cut(s)	58, 160
BstMBI	GATC	1 cut(s)	244
BstMWI	GCNNNNNNNGC	9 cut(s)	26, 29, 32, 35, 38, 41, 169, 206, 321
BstSCI	CCNGG	1 cut(s)	158
BstSLI	GKGCMC	1 cut(s)	51
BstUI	CGCG	1 cut(s)	57
BstV1I	GCAGC	4 cut(s)	38, 44, 47, 292
BsuRI	GGCC	2 cut(s)	49, 131
BtsCI	GGATG	1 cut(s)	334
Cfr13I	GGNCC	2 cut(s)	47, 48
Csp6I	GTAC	1 cut(s)	174
CviAII	CATG	1 cut(s)	325
CviJI	RGCY	9 cut(s)	5, 49, 60, 70, 84, 131, 163, 200, 230
CviKI_1	RGCY	9 cut(s)	5, 49, 60, 70, 84, 131, 163, 200, 230
CviQI	GTAC	1 cut(s)	174
DdeI	CTNAG	2 cut(s)	181, 295
DpnI	GATC	1 cut(s)	246
DpnII	GATC	1 cut(s)	244
Eam1104I	CTCTTC	1 cut(s)	155
EarI	CTCTTC	1 cut(s)	155
EciI	GGCGGA	1 cut(s)	96
Eco130I	CCWWGG	1 cut(s)	264
Eco24I	GRGCYC	1 cut(s)	51
Eco88I	CYCGRG	2 cut(s)	120, 231
EcoO109I	RGGNCCY	1 cut(s)	47
EcoT14I	CCWWGG	1 cut(s)	264
EcoT38I	GRGCYC	1 cut(s)	51
ErhI	CCWWGG	1 cut(s)	264
Esp3I	CGTCTC	2 cut(s)	58, 160
FaeI	CATG	1 cut(s)	328
FaiI	YATR	3 cut(s)	14, 195, 326
FatI	CATG	1 cut(s)	324
FauI	CCCGC	1 cut(s)	37
FokI	GGATG	1 cut(s)	341
FriOI	GRGCYC	1 cut(s)	51
HaeIII	GGCC	2 cut(s)	49, 131
HapII	CCGG	1 cut(s)	159
Hin1II	CATG	1 cut(s)	328
HinfI	GANTC	1 cut(s)	258
HpaII	CCGG	1 cut(s)	159
HphI	GGTGA	2 cut(s)	227, 250
Hpy188I	TCNGA	2 cut(s)	96, 184
Hpy188III	TCNNGA	2 cut(s)	76, 255
HpyAV	CCTTC	1 cut(s)	179
HpyCH4V	TGCA	1 cut(s)	209
HpyF10VI	GCNNNNNNNGC	9 cut(s)	26, 29, 32, 35, 38, 41, 169, 206, 321
HpyF3I	CTNAG	2 cut(s)	181, 295
Hsp92II	CATG	1 cut(s)	328
Kzo9I	GATC	1 cut(s)	244
LpnPI	CCDG	4 cut(s)	66, 172, 240, 320
Lsp1109I	GCAGC	4 cut(s)	38, 44, 47, 292
LweI	GCATC	1 cut(s)	292
MaeIII	GTNAC	1 cut(s)	238
MalI	GATC	1 cut(s)	246
MbiI	CCGCTC	1 cut(s)	20
MboI	GATC	1 cut(s)	244
MboII	GAAGA	2 cut(s)	142, 311
MhlI	GDGCHC	1 cut(s)	51
MnlI	CCTC	5 cut(s)	102, 121, 129, 158, 190
MroXI	GAANNNNTTC	1 cut(s)	222
MseI	TTAA	1 cut(s)	165
MspA1I	CMGCKG	3 cut(s)	29, 38, 343
MspI	CCGG	1 cut(s)	159
MspR9I	CCNGG	1 cut(s)	160
MvnI	CGCG	1 cut(s)	57
MwoI	GCNNNNNNNGC	9 cut(s)	26, 29, 32, 35, 38, 41, 169, 206, 321
NciI	CCSGG	1 cut(s)	160
NdeII	GATC	1 cut(s)	244
NlaIII	CATG	1 cut(s)	328
NlaIV	GGNNCC	3 cut(s)	48, 49, 339
NmuCI	GTSAC	1 cut(s)	238
PaeR7I	CTCGAG	2 cut(s)	120, 231
PdmI	GAANNNNTTC	1 cut(s)	222
PfeI	GAWTC	1 cut(s)	258
PspN4I	GGNNCC	3 cut(s)	48, 49, 339
PspOMI	GGGCCC	1 cut(s)	47
PspPI	GGNCC	2 cut(s)	47, 48
PspXI	VCTCGAGB	2 cut(s)	120, 231
RsaI	GTAC	1 cut(s)	175
RsaNI	GTAC	1 cut(s)	174
SaqAI	TTAA	1 cut(s)	165
Sau3AI	GATC	1 cut(s)	244
Sau96I	GGNCC	2 cut(s)	47, 48
ScrFI	CCNGG	1 cut(s)	160
SduI	GDGCHC	1 cut(s)	51
SetI	ASST	5 cut(s)	150, 182, 232, 287, 296
SfaNI	GCATC	1 cut(s)	292
Sfr274I	CTCGAG	2 cut(s)	120, 231
SlaI	CTCGAG	2 cut(s)	120, 231
SmlI	CTYRAG	3 cut(s)	61, 120, 231
SmoI	CTYRAG	3 cut(s)	61, 120, 231
StyD4I	CCNGG	1 cut(s)	158
StyI	CCWWGG	1 cut(s)	264
TaqI	TCGA	3 cut(s)	77, 121, 232
TauI	GCSGC	7 cut(s)	23, 26, 32, 41, 44, 60, 112
TfiI	GAWTC	1 cut(s)	258
Tru1I	TTAA	1 cut(s)	165
Tru9I	TTAA	1 cut(s)	165
TseFI	GTSAC	1 cut(s)	238
TseI	GCWGC	4 cut(s)	26, 32, 35, 305
Tsp45I	GTSAC	1 cut(s)	238
TspDTI	ATGAA	1 cut(s)	113
XhoI	CTCGAG	2 cut(s)	120, 231
XmnI	GAANNNNTTC	1 cut(s)	222

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