Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000753

Physical Location & Seq

Genomic Coordinates Reverse (-)

32903697 .. 32906542

Gene Structure 2846 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG159400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 492 bp

ATGCAGCAACCTCAGGAGTCGACGACGGCAGCCGATGAGATTCGCTCCTTACGGGTCGACGGCTTGAGTCCGAGGATGGGTGAGATGTATCTCTACAACTGCTTCAGTGACTGCGCAGAGGTTTTGGCTGCAACAGTTTTGCGGAAAGTGCAAACCGGATGGCAGGAAGATCATGGTTTTGTCGAGTTTGCTTCTCACAGCGTGGCTGAGTTTGTCTTGAGCTCCTACAATGGTGAGCTCATGCCCAACTACAATAACCGGAGATTTTGCCTGAGCTGGGACACTGATGGTTACGGTACAAGGTGGCACTGGGATCCTGTTTACCAGCAATGGTCTTTCTTTGGTTATGATGAGCATAGTGATATGTTGCATGCCAAGACAGTGATCGAGTTGTACAAGGACTGCATACCTGTTGTTACTGAAAAGCCATCTGGTAGTGCTCAGCAATATTCGCAAGAACCAGCTAGTTCAGACAAAGTGGAATGGTTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00020 ko00190 ko01100 ko01110 ko01120 ko01130 ko01200 ko03015 ko03040 ko04714 ko04932 ko05010 ko05012 ko05016 map00020 map00190 map01100 map01110 map01120 map01130 map01200 map03015 map03040 map04714 map04932 map05010 map05012 map05016

Pfam Domains

Protein Families

RRM_1

Protein Analysis

163

Amino Acids

18.8

Weight (kDa)

4.66

Isoelectric Point (pI)

47.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	17 - 83	8e-09	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

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Publication-ready

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Orthologous Genes (Group: OG0000753)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g26720 FvH4_7g27001 FvH4_7g27001 FvH4_7g27001 FvH4_7g31210 FvH4_7g31211 FvH4_7g31260 FvH4_7g31260 FvH4_7g31260 FvH4_7g31260 FvH4_7g31260 FvH4_7g31260 FvH4_7g31260 FvH4_7g31260 FvH4_7g31310 FvH4_7g31320 FvH4_7g31670 FvH4_7g31670 FvH4_7g31681 FvH4_7g31682
rosa_chinensis	RchiOBHm_Chr1g0337091 RchiOBHm_Chr1g0337131 RchiOBHm_Chr1g0380941
rosa_laevigata	RLG00000026258 RLG00000026260 RLG00000026268 RLG00000026269 RLG00000029305
rosa_multiflora	Rmu_co8190652.1_g000001 Rmu_co8273449.1_g000001 Rmu_co8310417.1_g000001 Rmu_sc0002160.1_g000028 Rmu_sc0002160.1_g000031 Rmu_sc0002962.1_g000022 Rmu_sc0004623.1_g000006 Rmu_sc0004623.1_g000007 Rmu_sc0013826.1_g000002 Rmu_sc0013826.1_g000003 Rmu_sc0020974.1_g000001
rosa_roxburghii	Rroxscaffold_2G00105360 Rroxscaffold_4G00314970 Rroxscaffold_6G00413200
rosa_rugosa	Rorug01G0131100 Rorug01G0423200 Rorug01G0424100
rosa_samantha	Rh1AG151800 Rh1AG152100 Rh1AG447500 Rh1AG447600 Rh1AG448600 Rh1AG449500 Rh1AG449700 Rh1BG119600 Rh1BG404200 Rh1BG405400 Rh1CG143000 Rh1CG418300 Rh1DG159000 Rh1DG159300 Rh1DG159400 Rh1DG434600 Rh1DG435500 Rh1DG435900
rosa_wichuraiana	Rw0G005920 Rw0G005960 Rw0G005970 Rw1G012410 Rw1G012420 Rw1G038950 Rw1G039110 Rw1G039170

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	115
AccI	GTMKAC	2 cut(s)	20, 57
AciI	CCGC	1 cut(s)	142
AclWI	GGATC	2 cut(s)	308, 321
AcuI	CTGAAG	1 cut(s)	88
AdeI	CACNNNGTG	1 cut(s)	202
AfaI	GTAC	2 cut(s)	298, 395
AfiI	CCNNNNNNNGG	2 cut(s)	77, 277
AluBI	AGCT	4 cut(s)	222, 238, 276, 464
AluI	AGCT	4 cut(s)	222, 238, 276, 464
Alw21I	GWGCWC	3 cut(s)	224, 240, 442
AlwI	GGATC	2 cut(s)	308, 321
AlwNI	CAGNNNCTG	1 cut(s)	111
ApeKI	GCWGC	3 cut(s)	4, 29, 128
AspLEI	GCGC	1 cut(s)	116
AsuHPI	GGTGA	2 cut(s)	92, 245
AxyI	CCTNAGG	1 cut(s)	12
BamHI	GGATCC	1 cut(s)	313
BanII	GRGCYC	2 cut(s)	224, 240
Bbv12I	GWGCWC	3 cut(s)	224, 240, 442
BbvI	GCAGC	3 cut(s)	16, 41, 115
BccI	CCATC	4 cut(s)	70, 153, 281, 436
BceAI	ACGGC	2 cut(s)	42, 76
BfaI	CTAG	1 cut(s)	465
BisI	GCNGC	3 cut(s)	5, 30, 129
BlpI	GCTNAGC	1 cut(s)	441
BlsI	GCNGC	3 cut(s)	6, 31, 130
BmiI	GGNNCC	1 cut(s)	315
BmrI	ACTGGG	1 cut(s)	319
BmuI	ACTGGG	1 cut(s)	319
BplI	GAGNNNNNCTC	2 cut(s)	29, 61
Bpu10I	CCTNAGC	1 cut(s)	272
Bpu1102I	GCTNAGC	1 cut(s)	441
BpuEI	CTTGAG	2 cut(s)	85, 238
BsaJI	CCNNGG	1 cut(s)	71
BsaWI	WCCGGW	2 cut(s)	155, 258
Bsc4I	CCNNNNNNNGG	2 cut(s)	77, 277
Bse1I	ACTGG	1 cut(s)	314
Bse21I	CCTNAGG	1 cut(s)	12
Bse3DI	GCAATG	1 cut(s)	335
BseDI	CCNNGG	1 cut(s)	71
BseGI	GGATG	2 cut(s)	81, 164
BseLI	CCNNNNNNNGG	2 cut(s)	77, 277
BseMI	GCAATG	1 cut(s)	335
BseMII	CTCAG	4 cut(s)	26, 198, 263, 455
BseNI	ACTGG	1 cut(s)	314
BseXI	GCAGC	3 cut(s)	16, 41, 115
BseYI	CCCAGC	1 cut(s)	276
BsiHKAI	GWGCWC	3 cut(s)	224, 240, 442
BsiSI	CCGG	2 cut(s)	156, 259
BslFI	GGGAC	1 cut(s)	293
BslI	CCNNNNNNNGG	2 cut(s)	77, 277
BsmFI	GGGAC	1 cut(s)	293
Bsp1286I	GDGCHC	3 cut(s)	224, 240, 442
Bsp1407I	TGTACA	1 cut(s)	393
Bsp143I	GATC	3 cut(s)	169, 313, 384
Bsp1720I	GCTNAGC	1 cut(s)	441
BspACI	CCGC	1 cut(s)	142
BspCNI	CTCAG	4 cut(s)	25, 199, 264, 454
BspLI	GGNNCC	1 cut(s)	315
BspPI	GGATC	2 cut(s)	308, 321
BsrDI	GCAATG	1 cut(s)	335
BsrGI	TGTACA	1 cut(s)	393
BsrI	ACTGG	1 cut(s)	314
BssECI	CCNNGG	1 cut(s)	71
BssMI	GATC	3 cut(s)	169, 313, 384
Bst4CI	ACNGT	3 cut(s)	136, 296, 382
BstAUI	TGTACA	1 cut(s)	393
BstC8I	GCNNGC	1 cut(s)	372
BstDEI	CTNAG	4 cut(s)	12, 207, 272, 441
BstF5I	GGATG	2 cut(s)	81, 164
BstHHI	GCGC	1 cut(s)	116
BstKTI	GATC	3 cut(s)	172, 316, 387
BstMBI	GATC	3 cut(s)	169, 313, 384
BstMWI	GCNNNNNNNGC	2 cut(s)	148, 451
BstNSI	RCATGY	1 cut(s)	374
BstV1I	GCAGC	3 cut(s)	16, 41, 115
BstX2I	RGATCY	1 cut(s)	313
BstYI	RGATCY	1 cut(s)	313
Bsu36I	CCTNAGG	1 cut(s)	12
BtsCI	GGATG	2 cut(s)	81, 164
BtsIMutI	CAGTG	4 cut(s)	112, 282, 307, 387
Cac8I	GCNNGC	1 cut(s)	372
CaiI	CAGNNNCTG	1 cut(s)	111
CfoI	GCGC	1 cut(s)	116
Csp6I	GTAC	2 cut(s)	297, 394
CviAII	CATG	3 cut(s)	173, 241, 371
CviJI	RGCY	9 cut(s)	32, 63, 128, 206, 222, 238, 276, 427, 464
CviKI_1	RGCY	9 cut(s)	32, 63, 128, 206, 222, 238, 276, 427, 464
CviQI	GTAC	2 cut(s)	297, 394
DdeI	CTNAG	4 cut(s)	12, 207, 272, 441
DpnI	GATC	3 cut(s)	171, 315, 386
DpnII	GATC	3 cut(s)	169, 313, 384
DraIII	CACNNNGTG	1 cut(s)	202
Ecl136II	GAGCTC	2 cut(s)	222, 238
Eco24I	GRGCYC	2 cut(s)	224, 240
Eco53kI	GAGCTC	2 cut(s)	222, 238
Eco57I	CTGAAG	1 cut(s)	88
Eco81I	CCTNAGG	1 cut(s)	12
EcoICRI	GAGCTC	2 cut(s)	222, 238
EcoT38I	GRGCYC	2 cut(s)	224, 240
FaeI	CATG	3 cut(s)	176, 244, 374
FaiI	YATR	8 cut(s)	174, 242, 348, 357, 365, 372, 407, 490
FaqI	GGGAC	1 cut(s)	293
FatI	CATG	3 cut(s)	172, 240, 370
FblI	GTMKAC	2 cut(s)	20, 57
Fnu4HI	GCNGC	3 cut(s)	5, 30, 129
FokI	GGATG	2 cut(s)	88, 171
FriOI	GRGCYC	2 cut(s)	224, 240
Fsp4HI	GCNGC	3 cut(s)	5, 30, 129
FspBI	CTAG	1 cut(s)	465
FspI	TGCGCA	1 cut(s)	115
GlaI	GCGC	1 cut(s)	115
GluI	GCNGC	3 cut(s)	5, 30, 129
GsaI	CCCAGC	1 cut(s)	280
HapII	CCGG	2 cut(s)	156, 259
HhaI	GCGC	1 cut(s)	116
Hin1II	CATG	3 cut(s)	176, 244, 374
Hin6I	GCGC	1 cut(s)	114
HinP1I	GCGC	1 cut(s)	114
HincII	GTYRAC	2 cut(s)	21, 58
HindII	GTYRAC	2 cut(s)	21, 58
HinfI	GANTC	3 cut(s)	17, 40, 67
HpaII	CCGG	2 cut(s)	156, 259
HphI	GGTGA	2 cut(s)	92, 245
Hpy166II	GTNNAC	3 cut(s)	21, 58, 322
Hpy188I	TCNGA	2 cut(s)	72, 472
Hpy188III	TCNNGA	2 cut(s)	14, 217
Hpy8I	GTNNAC	3 cut(s)	21, 58, 322
Hpy99I	CGWCG	3 cut(s)	25, 28, 62
HpyCH4III	ACNGT	3 cut(s)	136, 296, 382
HpyCH4V	TGCA	5 cut(s)	4, 131, 151, 370, 405
HpyF10VI	GCNNNNNNNGC	2 cut(s)	148, 451
HpyF3I	CTNAG	4 cut(s)	12, 207, 272, 441
Hsp92II	CATG	3 cut(s)	176, 244, 374
HspAI	GCGC	1 cut(s)	114
Kzo9I	GATC	3 cut(s)	169, 313, 384
LmnI	GCTCC	2 cut(s)	50, 227
Lsp1109I	GCAGC	3 cut(s)	16, 41, 115
MaeI	CTAG	1 cut(s)	465
MaeIII	GTNAC	3 cut(s)	107, 290, 415
MalI	GATC	3 cut(s)	171, 315, 386
MboI	GATC	3 cut(s)	169, 313, 384
MboII	GAAGA	1 cut(s)	179
MflI	RGATCY	1 cut(s)	313
MhlI	GDGCHC	3 cut(s)	224, 240, 442
MlyI	GAGTC	2 cut(s)	26, 76
MnlI	CCTC	3 cut(s)	21, 66, 112
MspI	CCGG	2 cut(s)	156, 259
MwoI	GCNNNNNNNGC	2 cut(s)	148, 451
NdeII	GATC	3 cut(s)	169, 313, 384
NlaIII	CATG	3 cut(s)	176, 244, 374
NlaIV	GGNNCC	1 cut(s)	315
NmuCI	GTSAC	1 cut(s)	107
NsbI	TGCGCA	1 cut(s)	115
NspI	RCATGY	1 cut(s)	374
PaeI	GCATGC	1 cut(s)	374
PfeI	GAWTC	1 cut(s)	40
PkrI	GCNGC	3 cut(s)	6, 31, 130
PleI	GAGTC	2 cut(s)	25, 75
PpsI	GAGTC	2 cut(s)	25, 75
Psp124BI	GAGCTC	2 cut(s)	224, 240
PspFI	CCCAGC	1 cut(s)	276
PspN4I	GGNNCC	1 cut(s)	315
PstNI	CAGNNNCTG	1 cut(s)	111
PsuI	RGATCY	1 cut(s)	313
RsaI	GTAC	2 cut(s)	298, 395
RsaNI	GTAC	2 cut(s)	297, 394
SacI	GAGCTC	2 cut(s)	224, 240
SalI	GTCGAC	2 cut(s)	19, 56
SatI	GCNGC	3 cut(s)	5, 30, 129
Sau3AI	GATC	3 cut(s)	169, 313, 384
SchI	GAGTC	2 cut(s)	26, 76
SduI	GDGCHC	3 cut(s)	224, 240, 442
SetI	ASST	8 cut(s)	13, 123, 224, 240, 278, 305, 412, 466
SmlI	CTYRAG	2 cut(s)	64, 217
SmoI	CTYRAG	2 cut(s)	64, 217
SphI	GCATGC	1 cut(s)	374
SsiI	CCGC	1 cut(s)	142
SspI	AATATT	1 cut(s)	449
SspMI	CTAG	1 cut(s)	465
SstI	GAGCTC	2 cut(s)	224, 240
TaaI	ACNGT	3 cut(s)	136, 296, 382
TaqI	TCGA	4 cut(s)	20, 57, 183, 387
TatI	WGTACW	1 cut(s)	393
TfiI	GAWTC	1 cut(s)	40
TscAI	CASTG	4 cut(s)	112, 289, 314, 387
TseFI	GTSAC	1 cut(s)	107
TseI	GCWGC	3 cut(s)	4, 29, 128
Tsp45I	GTSAC	1 cut(s)	107
TspRI	CASTG	4 cut(s)	112, 289, 314, 387
XceI	RCATGY	1 cut(s)	374
XmiI	GTMKAC	2 cut(s)	20, 57
XspI	CTAG	1 cut(s)	465

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