Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004517

Physical Location & Seq

Genomic Coordinates Reverse (-)

42020106 .. 42021204

Gene Structure 1099 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG235800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGTCGACAAACACAAAATTCAGCGTTTACGTAGGTATTTTGGACGAACGGGTGACTGATAGAATTTTATATGATATTCTAATCCAGGCAAGGAGGGTAGTTGACCTGCACATTCCACGAGACAAGGAATGTGATAGGCCTAAAGGTTATGCTTTCGCAGAATATGAAACTGAAGAGATTGCTGAGTATGCTGTTAGGCTTTTCTCCGGTCTTGTGACTCTACAATCGAACACTCAAGTTTGCGGTAATTTTATGCCTTCCACTTCTTTGTTTCTCCATGAATGGGCTCCATTACGCGCGCACGCACACATACATATACTTGTTGAATACCTTCTTTTCCGGGATAATATTTGTGTATCTAGTGTTTTAAAGTCATTTTGCCAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005689 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: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:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

128

Amino Acids

14.8

Weight (kDa)

5.92

Isoelectric Point (pI)

51.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	9 - 70	1.1e-09	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0004517)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G10110
fragaria_vesca	FvH4_2g00580 FvH4_2g00580 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440 FvH4_3g25440
malus_domestica	MD10G1003200.v1.1
prunus_persica	Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1 Prupe.8G005800_v2.0.a1
pyrus_communis	pycom10g00260
rosa_chinensis	RchiOBHm_Chr6g0251031 RchiOBHm_Chr6g0280021
rosa_laevigata	RLG00000015489
rosa_multiflora	Rmu_sc0006638.1_g000018
rosa_roxburghii	Rroxscaffold_5G00349710 Rroxscaffold_7G00217110
rosa_rugosa	Rorug05G0499500 Rorug05G0499600 Rorug05G0499700 Rorug06G0244900
rosa_samantha	Rh6AG007700 Rh6BG003300 Rh6CG005200 Rh6DG005500 Rh6DG235800
rosa_wichuraiana	Rw6G000870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	114
AccI	GTMKAC	1 cut(s)	5
AccII	CGCG	2 cut(s)	297, 299
AciI	CCGC	1 cut(s)	243
AcsI	RAATTY	2 cut(s)	17, 63
AcuI	CTGAAG	1 cut(s)	192
AfiI	CCNNNNNNNGG	1 cut(s)	283
AgsI	TTSAA	1 cut(s)	326
AjnI	CCWGG	1 cut(s)	84
Alw26I	GTCTC	1 cut(s)	114
AoxI	GGCC	1 cut(s)	137
ApoI	RAATTY	2 cut(s)	17, 63
Asp700I	GAANNNNTTC	1 cut(s)	330
AspLEI	GCGC	2 cut(s)	299, 301
AsuC2I	CCSGG	1 cut(s)	341
AsuHPI	GGTGA	1 cut(s)	64
BanII	GRGCYC	1 cut(s)	289
BauI	CACGAG	1 cut(s)	117
BciT130I	CCWGG	1 cut(s)	86
BcnI	CCSGG	1 cut(s)	341
BcoDI	GTCTC	1 cut(s)	114
BfaI	CTAG	1 cut(s)	360
BfuAI	ACCTGC	1 cut(s)	114
Bme1390I	CCNGG	2 cut(s)	86, 341
BmiI	GGNNCC	1 cut(s)	288
BmrFI	CCNGG	2 cut(s)	86, 341
BpuEI	CTTGAG	1 cut(s)	219
BpuMI	CCSGG	1 cut(s)	341
BsaAI	YACGTR	1 cut(s)	31
BsaWI	WCCGGW	1 cut(s)	206
Bsc4I	CCNNNNNNNGG	1 cut(s)	283
BseBI	CCWGG	1 cut(s)	86
BseLI	CCNNNNNNNGG	1 cut(s)	283
BseMII	CTCAG	1 cut(s)	174
BsePI	GCGCGC	1 cut(s)	297
BsgI	GTGCAG	1 cut(s)	92
Bsh1236I	CGCG	2 cut(s)	297, 299
BshFI	GGCC	1 cut(s)	139
BsiSI	CCGG	2 cut(s)	207, 340
BslI	CCNNNNNNNGG	1 cut(s)	283
BsmAI	GTCTC	1 cut(s)	114
BsnI	GGCC	1 cut(s)	139
Bsp1286I	GDGCHC	1 cut(s)	289
BspACI	CCGC	1 cut(s)	243
BspANI	GGCC	1 cut(s)	139
BspCNI	CTCAG	1 cut(s)	175
BspFNI	CGCG	2 cut(s)	297, 299
BspLI	GGNNCC	1 cut(s)	288
BspMI	ACCTGC	1 cut(s)	114
BssHII	GCGCGC	1 cut(s)	297
BssSI	CACGAG	1 cut(s)	117
Bst2BI	CACGAG	1 cut(s)	117
Bst2UI	CCWGG	1 cut(s)	86
Bst6I	CTCTTC	1 cut(s)	168
BstBAI	YACGTR	1 cut(s)	31
BstC8I	GCNNGC	2 cut(s)	299, 303
BstDEI	CTNAG	1 cut(s)	183
BstFNI	CGCG	2 cut(s)	297, 299
BstHHI	GCGC	2 cut(s)	299, 301
BstMAI	GTCTC	1 cut(s)	114
BstMWI	GCNNNNNNNGC	1 cut(s)	188
BstNI	CCWGG	1 cut(s)	86
BstSCI	CCNGG	2 cut(s)	84, 339
BstSNI	TACGTA	1 cut(s)	31
BstUI	CGCG	2 cut(s)	297, 299
BsuRI	GGCC	1 cut(s)	139
BveI	ACCTGC	1 cut(s)	114
Cac8I	GCNNGC	2 cut(s)	299, 303
CfoI	GCGC	2 cut(s)	299, 301
CviAII	CATG	1 cut(s)	278
CviJI	RGCY	3 cut(s)	139, 199, 287
CviKI_1	RGCY	3 cut(s)	139, 199, 287
DdeI	CTNAG	1 cut(s)	183
DraI	TTTAAA	1 cut(s)	369
Eam1104I	CTCTTC	1 cut(s)	168
EarI	CTCTTC	1 cut(s)	168
Eco105I	TACGTA	1 cut(s)	31
Eco147I	AGGCCT	1 cut(s)	139
Eco24I	GRGCYC	1 cut(s)	289
Eco57I	CTGAAG	1 cut(s)	192
EcoRII	CCWGG	1 cut(s)	84
EcoT38I	GRGCYC	1 cut(s)	289
FaeI	CATG	1 cut(s)	281
FatI	CATG	1 cut(s)	277
FblI	GTMKAC	1 cut(s)	5
FriOI	GRGCYC	1 cut(s)	289
FspBI	CTAG	1 cut(s)	360
GlaI	GCGC	2 cut(s)	298, 300
HaeIII	GGCC	1 cut(s)	139
HapII	CCGG	2 cut(s)	207, 340
HhaI	GCGC	2 cut(s)	299, 301
Hin1II	CATG	1 cut(s)	281
Hin6I	GCGC	2 cut(s)	297, 299
HinP1I	GCGC	2 cut(s)	297, 299
HincII	GTYRAC	2 cut(s)	6, 103
HindII	GTYRAC	2 cut(s)	6, 103
HinfI	GANTC	1 cut(s)	217
HpaII	CCGG	2 cut(s)	207, 340
HphI	GGTGA	1 cut(s)	64
Hpy166II	GTNNAC	3 cut(s)	6, 28, 103
Hpy8I	GTNNAC	3 cut(s)	6, 28, 103
HpyAV	CCTTC	2 cut(s)	267, 341
HpyCH4IV	ACGT	1 cut(s)	30
HpyCH4V	TGCA	1 cut(s)	109
HpyF10VI	GCNNNNNNNGC	1 cut(s)	188
HpyF3I	CTNAG	1 cut(s)	183
HpySE526I	ACGT	1 cut(s)	30
Hsp92II	CATG	1 cut(s)	281
HspAI	GCGC	2 cut(s)	297, 299
LmnI	GCTCC	1 cut(s)	292
LpnPI	CCDG	5 cut(s)	71, 98, 119, 220, 353
MaeI	CTAG	1 cut(s)	360
MaeII	ACGT	1 cut(s)	30
MaeIII	GTNAC	2 cut(s)	52, 214
MboII	GAAGA	1 cut(s)	185
MhlI	GDGCHC	1 cut(s)	289
MluCI	AATT	3 cut(s)	17, 63, 247
MlyI	GAGTC	1 cut(s)	211
MnlI	CCTC	1 cut(s)	87
MroXI	GAANNNNTTC	1 cut(s)	330
MseI	TTAA	1 cut(s)	368
MspI	CCGG	2 cut(s)	207, 340
MspR9I	CCNGG	2 cut(s)	86, 341
MvaI	CCWGG	1 cut(s)	86
MvnI	CGCG	2 cut(s)	297, 299
MwoI	GCNNNNNNNGC	1 cut(s)	188
NciI	CCSGG	1 cut(s)	341
NlaIII	CATG	1 cut(s)	281
NlaIV	GGNNCC	1 cut(s)	288
NmuCI	GTSAC	2 cut(s)	52, 214
PauI	GCGCGC	1 cut(s)	297
PceI	AGGCCT	1 cut(s)	139
PdmI	GAANNNNTTC	1 cut(s)	330
PfoI	TCCNGGA	1 cut(s)	339
PleI	GAGTC	1 cut(s)	211
PpsI	GAGTC	1 cut(s)	211
Ppu21I	YACGTR	1 cut(s)	31
Psp6I	CCWGG	1 cut(s)	84
PspGI	CCWGG	1 cut(s)	84
PspN4I	GGNNCC	1 cut(s)	288
PteI	GCGCGC	1 cut(s)	297
SalI	GTCGAC	1 cut(s)	4
SaqAI	TTAA	1 cut(s)	368
SchI	GAGTC	1 cut(s)	211
ScrFI	CCNGG	2 cut(s)	86, 341
SduI	GDGCHC	1 cut(s)	289
SetI	ASST	5 cut(s)	33, 37, 108, 148, 333
SmlI	CTYRAG	1 cut(s)	234
SmoI	CTYRAG	1 cut(s)	234
SnaBI	TACGTA	1 cut(s)	31
Sse9I	AATT	3 cut(s)	17, 63, 247
SseBI	AGGCCT	1 cut(s)	139
SsiI	CCGC	1 cut(s)	243
SspI	AATATT	1 cut(s)	349
SspMI	CTAG	1 cut(s)	360
StuI	AGGCCT	1 cut(s)	139
StyD4I	CCNGG	2 cut(s)	84, 339
TaiI	ACGT	1 cut(s)	33
TaqI	TCGA	2 cut(s)	5, 227
TasI	AATT	3 cut(s)	17, 63, 247
Tru1I	TTAA	1 cut(s)	368
Tru9I	TTAA	1 cut(s)	368
TseFI	GTSAC	2 cut(s)	52, 214
Tsp45I	GTSAC	2 cut(s)	52, 214
TspDTI	ATGAA	2 cut(s)	180, 294
XapI	RAATTY	2 cut(s)	17, 63
XmiI	GTMKAC	1 cut(s)	5
XmnI	GAANNNNTTC	1 cut(s)	330
XspI	CTAG	1 cut(s)	360

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