Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0015500

Physical Location & Seq

Genomic Coordinates Reverse (-)

54160872 .. 54162387

Gene Structure 1516 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG307900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGCGGGTCTTACCATACCATAATAAGGGCACTACAATCTACAAATTGACCGCAAGGAGTAAATCAGCAAAACTTAAAAACGCTGGGGCCCAAAAGCCCACCACCAAGCCCACCGGGTCGGGTTCGGGTTCCGGAACCCTAGCCCCGTCGAAATCCACCCTCTACGTCTCCAACCTCGACTACTCCCTCACCAACTCCGACCTCCACACCCTCTTCTCCCGCTTCGGCAAGATCGCCCGCGTCACCGTCCTCAAAGACCGCGACACCCGCCGGAGCCGCGGCGTCGCCTTCGTCCAGTTCGTCACGCGCGACGACGCCGTAAAGTCGGCGCGTGAGATGCACGGGAAGATTCTGAACGGCCGGAAGCTCTCGGCGTCGATCGCGGAGGATAACGGACGCGCCGCCGAGTTTATAAAGAAGAGGGAGTACAAGGACAAGAGCCGGTGCTACGAGTGCGGCGCCGAGGGGCACTTGAGTTATGAGTGCCCCAAGAACCAGCTGGGGCCGAGGGAGCGGCCGCCGCAGAAGAAAGCAAGGAGAGGCGGCGGCGGAGGAGGAGGAGGTGGGGGTAGAGGGGGTGAGGCGCGTGGGGAGGACGAGGGGGAGTGGGAGAGTGGGGGCGAGAGGTTTGAGGATGATAATTGGGCGTCTGTGGTGGATGGTGGGGCCGGGCAGAGGTTGCTGTTGAGTGAGGAGATGGAGGAGGAGGAGGAGGAGAAGAAGAGGAAGAAGAAGATTAAGAAAGCTGGGTATTTTAGTGATGAGAGTGATCATGATGATGAGGATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 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:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0032502 GO:0032991 GO:0034641 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:0050789 GO:0050794 GO:0051302 GO:0065007 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

262

Amino Acids

28.8

Weight (kDa)

9.23

Isoelectric Point (pI)

36.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	54 - 123	1.8e-20	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0015500)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10400
fragaria_vesca	FvH4_7g18730 FvH4_7g18730
malus_domestica	MD01G1102800.v1.1
prunus_persica	Prupe.2G208400_v2.0.a1
pyrus_communis	pycom01g12930 pycom07g16330
rosa_chinensis	RchiOBHm_Chr1g0362501
rosa_laevigata	RLG00000027641
rosa_roxburghii	Rroxscaffold_4G00294090
rosa_rugosa	Rorug01G0298500
rosa_samantha	Rh1AG307900 Rh1BG271000 Rh1CG288700 Rh1DG301200
rosa_wichuraiana	Rw1G027320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	413
AccB1I	GGYRCC	1 cut(s)	458
AccBSI	CCGCTC	1 cut(s)	514
AccII	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 586
AccIII	TCCGGA	1 cut(s)	131
AcoI	YGGCCR	2 cut(s)	358, 515
AcyI	GRCGYC	5 cut(s)	282, 315, 374, 459, 647
AfaI	GTAC	1 cut(s)	428
AfiI	CCNNNNNNNGG	2 cut(s)	25, 675
AluBI	AGCT	3 cut(s)	367, 499, 746
AluI	AGCT	3 cut(s)	367, 499, 746
Alw26I	GTCTC	1 cut(s)	172
Aor13HI	TCCGGA	1 cut(s)	131
AoxI	GGCC	5 cut(s)	87, 358, 503, 515, 666
ApaI	GGGCCC	1 cut(s)	91
AspLEI	GCGC	5 cut(s)	309, 331, 401, 461, 586
AspS9I	GGNCC	4 cut(s)	87, 88, 503, 666
AsuC2I	CCSGG	2 cut(s)	115, 670
AsuHPI	GGTGA	3 cut(s)	181, 235, 590
BaeGI	GKGCMC	4 cut(s)	32, 91, 471, 488
BanI	GGYRCC	1 cut(s)	458
BanII	GRGCYC	1 cut(s)	91
BarI	GAAGNNNNNNTAC	2 cut(s)	410, 442
BccI	CCATC	2 cut(s)	653, 691
BceAI	ACGGC	2 cut(s)	302, 373
BclI	TGATCA	1 cut(s)	769
BcnI	CCSGG	2 cut(s)	115, 670
BcoDI	GTCTC	1 cut(s)	172
BfaI	CTAG	1 cut(s)	140
BfoI	RGCGCY	1 cut(s)	462
BisI	GCNGC	9 cut(s)	277, 280, 402, 457, 515, 518, 521, 544, 547
BlsI	GCNGC	9 cut(s)	278, 281, 403, 458, 516, 519, 522, 545, 548
Bme1390I	CCNGG	2 cut(s)	115, 670
BmgT120I	GGNCC	4 cut(s)	87, 88, 503, 666
BmiI	GGNNCC	8 cut(s)	88, 89, 130, 136, 275, 460, 504, 667
BmrFI	CCNGG	2 cut(s)	115, 670
BmsI	GCATC	1 cut(s)	327
BpuEI	CTTGAG	1 cut(s)	493
BpuMI	CCSGG	2 cut(s)	115, 670
BsaHI	GRCGYC	5 cut(s)	282, 315, 374, 459, 647
BsaJI	CCNNGG	3 cut(s)	277, 462, 506
BsaWI	WCCGGW	1 cut(s)	131
Bsc4I	CCNNNNNNNGG	2 cut(s)	25, 675
Bse118I	RCCGGY	1 cut(s)	441
Bse1I	ACTGG	1 cut(s)	295
BseAI	TCCGGA	1 cut(s)	131
BseDI	CCNNGG	3 cut(s)	277, 462, 506
BseGI	GGATG	2 cut(s)	640, 664
BseLI	CCNNNNNNNGG	2 cut(s)	25, 675
BseNI	ACTGG	1 cut(s)	295
BseRI	GAGGAG	9 cut(s)	567, 570, 573, 707, 716, 719, 722, 725, 728
BseSI	GKGCMC	4 cut(s)	32, 91, 471, 488
BseX3I	CGGCCG	2 cut(s)	358, 515
BseYI	CCCAGC	3 cut(s)	83, 499, 746
Bsh1236I	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 586
Bsh1285I	CGRYCG	3 cut(s)	361, 381, 518
BshFI	GGCC	5 cut(s)	89, 360, 505, 517, 668
BshNI	GGYRCC	1 cut(s)	458
BsiEI	CGRYCG	3 cut(s)	361, 381, 518
BsiSI	CCGG	6 cut(s)	114, 132, 271, 361, 442, 669
BslI	CCNNNNNNNGG	2 cut(s)	25, 675
BsmAI	GTCTC	1 cut(s)	172
BsmBI	CGTCTC	1 cut(s)	172
BsnI	GGCC	5 cut(s)	89, 360, 505, 517, 668
Bsp120I	GGGCCC	1 cut(s)	87
Bsp1286I	GDGCHC	4 cut(s)	32, 91, 471, 488
Bsp13I	TCCGGA	1 cut(s)	131
Bsp143I	GATC	3 cut(s)	231, 378, 769
BspANI	GGCC	5 cut(s)	89, 360, 505, 517, 668
BspEI	TCCGGA	1 cut(s)	131
BspFNI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 586
BspHI	TCATGA	1 cut(s)	772
BspLI	GGNNCC	8 cut(s)	88, 89, 130, 136, 275, 460, 504, 667
BspT107I	GGYRCC	1 cut(s)	458
BsrBI	CCGCTC	1 cut(s)	514
BsrFI	RCCGGY	1 cut(s)	441
BsrI	ACTGG	1 cut(s)	295
BssAI	RCCGGY	1 cut(s)	441
BssECI	CCNNGG	3 cut(s)	277, 462, 506
BssMI	GATC	3 cut(s)	231, 378, 769
BssNI	GRCGYC	5 cut(s)	282, 315, 374, 459, 647
Bst4CI	ACNGT	1 cut(s)	247
Bst6I	CTCTTC	3 cut(s)	218, 413, 716
BstACI	GRCGYC	5 cut(s)	282, 315, 374, 459, 647
BstAPI	GCANNNNNTGC	1 cut(s)	679
BstC8I	GCNNGC	1 cut(s)	238
BstDSI	CCRYGG	1 cut(s)	277
BstF5I	GGATG	2 cut(s)	640, 664
BstFNI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 586
BstH2I	RGCGCY	1 cut(s)	462
BstHHI	GCGC	5 cut(s)	309, 331, 401, 461, 586
BstKTI	GATC	3 cut(s)	234, 381, 772
BstMAI	GTCTC	1 cut(s)	172
BstMBI	GATC	3 cut(s)	231, 378, 769
BstMCI	CGRYCG	3 cut(s)	361, 381, 518
BstMWI	GCNNNNNNNGC	8 cut(s)	267, 276, 337, 380, 453, 511, 520, 679
BstSCI	CCNGG	2 cut(s)	113, 668
BstSLI	GKGCMC	4 cut(s)	32, 91, 471, 488
BstUI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 586
BstZI	CGGCCG	2 cut(s)	358, 515
BsuRI	GGCC	5 cut(s)	89, 360, 505, 517, 668
BtgI	CCRYGG	1 cut(s)	277
BtsCI	GGATG	2 cut(s)	640, 664
Cac8I	GCNNGC	1 cut(s)	238
CciI	TCATGA	1 cut(s)	772
CciNI	GCGGCCGC	1 cut(s)	515
CfoI	GCGC	5 cut(s)	309, 331, 401, 461, 586
Cfr10I	RCCGGY	1 cut(s)	441
Cfr13I	GGNCC	4 cut(s)	87, 88, 503, 666
Cfr42I	CCGCGG	1 cut(s)	280
CseI	GACGC	6 cut(s)	229, 271, 323, 363, 405, 636
Csp6I	GTAC	1 cut(s)	427
CviAII	CATG	1 cut(s)	773
CviQI	GTAC	1 cut(s)	427
DinI	GGCGCC	1 cut(s)	460
DpnI	GATC	3 cut(s)	233, 380, 771
DpnII	GATC	3 cut(s)	231, 378, 769
EaeI	YGGCCR	2 cut(s)	358, 515
EagI	CGGCCG	2 cut(s)	358, 515
Eam1104I	CTCTTC	3 cut(s)	218, 413, 716
EarI	CTCTTC	3 cut(s)	218, 413, 716
EciI	GGCGGA	1 cut(s)	564
EclXI	CGGCCG	2 cut(s)	358, 515
Eco24I	GRGCYC	1 cut(s)	91
Eco52I	CGGCCG	2 cut(s)	358, 515
EcoO109I	RGGNCCY	1 cut(s)	87
EcoT38I	GRGCYC	1 cut(s)	91
EgeI	GGCGCC	1 cut(s)	460
EheI	GGCGCC	1 cut(s)	460
Esp3I	CGTCTC	1 cut(s)	172
FaeI	CATG	1 cut(s)	776
FaiI	YATR	5 cut(s)	16, 21, 413, 480, 774
FatI	CATG	1 cut(s)	772
FauI	CCCGC	3 cut(s)	227, 245, 275
FbaI	TGATCA	1 cut(s)	769
Fnu4HI	GCNGC	9 cut(s)	277, 280, 402, 457, 515, 518, 521, 544, 547
FokI	GGATG	2 cut(s)	647, 671
FriOI	GRGCYC	1 cut(s)	91
Fsp4HI	GCNGC	9 cut(s)	277, 280, 402, 457, 515, 518, 521, 544, 547
FspBI	CTAG	1 cut(s)	140
GlaI	GCGC	5 cut(s)	308, 330, 400, 460, 585
GluI	GCNGC	9 cut(s)	277, 280, 402, 457, 515, 518, 521, 544, 547
GsaI	CCCAGC	3 cut(s)	87, 503, 750
HaeII	RGCGCY	1 cut(s)	462
HaeIII	GGCC	5 cut(s)	89, 360, 505, 517, 668
HapII	CCGG	6 cut(s)	114, 132, 271, 361, 442, 669
HgaI	GACGC	6 cut(s)	229, 271, 323, 363, 405, 636
HhaI	GCGC	5 cut(s)	309, 331, 401, 461, 586
Hin1I	GRCGYC	5 cut(s)	282, 315, 374, 459, 647
Hin1II	CATG	1 cut(s)	776
Hin6I	GCGC	5 cut(s)	307, 329, 399, 459, 584
HinP1I	GCGC	5 cut(s)	307, 329, 399, 459, 584
HinfI	GANTC	1 cut(s)	349
HpaII	CCGG	6 cut(s)	114, 132, 271, 361, 442, 669
HphI	GGTGA	3 cut(s)	181, 235, 590
Hpy188I	TCNGA	2 cut(s)	199, 354
Hpy188III	TCNNGA	2 cut(s)	132, 773
Hpy99I	CGWCG	5 cut(s)	151, 287, 314, 317, 379
HpyAV	CCTTC	1 cut(s)	298
HpyCH4III	ACNGT	1 cut(s)	247
HpyCH4IV	ACGT	1 cut(s)	165
HpyCH4V	TGCA	1 cut(s)	340
HpyF10VI	GCNNNNNNNGC	8 cut(s)	267, 276, 337, 380, 453, 511, 520, 679
HpySE526I	ACGT	1 cut(s)	165
Hsp92I	GRCGYC	5 cut(s)	282, 315, 374, 459, 647
Hsp92II	CATG	1 cut(s)	776
HspAI	GCGC	5 cut(s)	307, 329, 399, 459, 584
KasI	GGCGCC	1 cut(s)	458
Kpn2I	TCCGGA	1 cut(s)	131
Ksp22I	TGATCA	1 cut(s)	769
KspI	CCGCGG	1 cut(s)	280
Kzo9I	GATC	3 cut(s)	231, 378, 769
LmnI	GCTCC	2 cut(s)	273, 511
LweI	GCATC	1 cut(s)	327
MaeI	CTAG	1 cut(s)	140
MaeII	ACGT	1 cut(s)	165
MaeIII	GTNAC	2 cut(s)	241, 301
MalI	GATC	3 cut(s)	233, 380, 771
MbiI	CCGCTC	1 cut(s)	514
MboI	GATC	3 cut(s)	231, 378, 769
MboII	GAAGA	9 cut(s)	205, 358, 430, 538, 730, 733, 739, 742, 745
MhlI	GDGCHC	4 cut(s)	32, 91, 471, 488
MluCI	AATT	2 cut(s)	44, 640
Mly113I	GGCGCC	1 cut(s)	459
MmeI	TCCRAC	2 cut(s)	195, 222
MroI	TCCGGA	1 cut(s)	131
MseI	TTAA	2 cut(s)	75, 738
MslI	CAYNNNNRTG	1 cut(s)	777
MspA1I	CMGCKG	2 cut(s)	279, 499
MspI	CCGG	6 cut(s)	114, 132, 271, 361, 442, 669
MspR9I	CCNGG	2 cut(s)	115, 670
MvnI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 586
MwoI	GCNNNNNNNGC	8 cut(s)	267, 276, 337, 380, 453, 511, 520, 679
NarI	GGCGCC	1 cut(s)	459
NciI	CCSGG	2 cut(s)	115, 670
NdeII	GATC	3 cut(s)	231, 378, 769
NlaIII	CATG	1 cut(s)	776
NlaIV	GGNNCC	8 cut(s)	88, 89, 130, 136, 275, 460, 504, 667
NmeAIII	GCCGAG	4 cut(s)	350, 430, 487, 531
NmuCI	GTSAC	2 cut(s)	241, 301
NotI	GCGGCCGC	1 cut(s)	515
PagI	TCATGA	1 cut(s)	772
PcsI	WCGNNNNNNNCGW	2 cut(s)	297, 306
PfeI	GAWTC	1 cut(s)	349
PkrI	GCNGC	9 cut(s)	278, 281, 403, 458, 516, 519, 522, 545, 548
Ple19I	CGATCG	1 cut(s)	381
PluTI	GGCGCC	1 cut(s)	462
PsiI	TTATAA	1 cut(s)	413
PspFI	CCCAGC	3 cut(s)	83, 499, 746
PspN4I	GGNNCC	8 cut(s)	88, 89, 130, 136, 275, 460, 504, 667
PspOMI	GGGCCC	1 cut(s)	87
PspPI	GGNCC	4 cut(s)	87, 88, 503, 666
PvuI	CGATCG	1 cut(s)	381
PvuII	CAGCTG	1 cut(s)	499
RsaI	GTAC	1 cut(s)	428
RsaNI	GTAC	1 cut(s)	427
RseI	CAYNNNNRTG	1 cut(s)	777
SacII	CCGCGG	1 cut(s)	280
SaqAI	TTAA	2 cut(s)	75, 738
SatI	GCNGC	9 cut(s)	277, 280, 402, 457, 515, 518, 521, 544, 547
Sau3AI	GATC	3 cut(s)	231, 378, 769
Sau96I	GGNCC	4 cut(s)	87, 88, 503, 666
ScrFI	CCNGG	2 cut(s)	115, 670
SduI	GDGCHC	4 cut(s)	32, 91, 471, 488
SetI	ASST	9 cut(s)	168, 177, 204, 369, 501, 565, 629, 680, 748
SfaNI	GCATC	1 cut(s)	327
SfoI	GGCGCC	1 cut(s)	460
Sfr303I	CCGCGG	1 cut(s)	280
SgrBI	CCGCGG	1 cut(s)	280
SmiMI	CAYNNNNRTG	1 cut(s)	777
SmlI	CTYRAG	1 cut(s)	472
SmoI	CTYRAG	1 cut(s)	472
Sse9I	AATT	2 cut(s)	44, 640
SspDI	GGCGCC	1 cut(s)	458
SspMI	CTAG	1 cut(s)	140
StyD4I	CCNGG	2 cut(s)	113, 668
TaaI	ACNGT	1 cut(s)	247
TaiI	ACGT	1 cut(s)	168
TaqI	TCGA	3 cut(s)	149, 177, 377
TasI	AATT	2 cut(s)	44, 640
TatI	WGTACW	1 cut(s)	426
TauI	GCSGC	9 cut(s)	279, 282, 404, 459, 517, 520, 523, 546, 549
TfiI	GAWTC	1 cut(s)	349
Tru1I	TTAA	2 cut(s)	75, 738
Tru9I	TTAA	2 cut(s)	75, 738
TseFI	GTSAC	2 cut(s)	241, 301
Tsp45I	GTSAC	2 cut(s)	241, 301
TspGWI	ACGGA	1 cut(s)	408
XcmI	CCANNNNNNNNNTGG	1 cut(s)	496
XspI	CTAG	1 cut(s)	140

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