Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0015500

Physical Location & Seq

Genomic Coordinates Reverse (-)

40654744 .. 40656866

Gene Structure 2123 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG271000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 774 bp

ATGGCGCCAAAGAAGAAGAGGAGCGACGACGACGACGACGAAGACGAATTGGAATCCCTCTGCAACCGCTACCCCTCCGCCCCGCAGGCCCAAAAGCCCACCACCAAGCCCACCGGGTCGGGTTCGGGTTCCGGAACCCTAGCCCCCTCGAAATCCACCCTCTACGTCTCCAACCTCGACTACTCCCTCACCAACTCCGACCTCCACACCCTCTTCTCCCGCTTCGGCAAGATCGCCCGCGTCACCGTCCTCAAAGACCGCGACACCCGCCGGAGCCGCGGCGTCGCCTTCGTCCAGTTCGTCACGCGCGACGACGCCGTAAAGTCGGCGCGTGAGATGCACGGGAAGATTCTTAACGGCCGGAAGCTCTCGGCGTCGATCGCGGAGGATAACGGACGCGCCGCCGAGTTTATAAAGAAGAGGGAGTACAAGGACAAGAGCCGGTGCTACGAGTGCGGCGCCGAGGGGCACTTGAGTTATGAGTGCCCCAAGAACCAGCTGGGGCCGAGGGAGCGGCCGCCGCAGAAGAAAGCAAGGAGAGGCGGCGGAGGAGGAGGTAGAGGGGGTGAGGCGCGTGGGGAGGACGAGGGGGAGTGGGAGAGTGGGGGTGAGAGGTTTGAGGATGATAATTGGGCGTCTGTGGTGGATGGTGGGGCCGGGCAGAGGTTGCTGTTGAGTGAGGAGATGGAGGAGGAGGAGGAGAAGAAGAGGAAGAAGAAGATTAAGAAAGCTGGGTATTTTAGTGATGAGAGTGATCATGATGATGAGGATTAG

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

257

Amino Acids

28.55

Weight (kDa)

6.2

Isoelectric Point (pI)

39.61

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	2 cut(s)	4, 458
AccBSI	CCGCTC	1 cut(s)	514
AccII	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 574
AccIII	TCCGGA	1 cut(s)	131
AcoI	YGGCCR	2 cut(s)	358, 515
AcyI	GRCGYC	6 cut(s)	5, 282, 315, 374, 459, 635
AfaI	GTAC	1 cut(s)	428
AfiI	CCNNNNNNNGG	1 cut(s)	663
AluBI	AGCT	3 cut(s)	367, 499, 731
AluI	AGCT	3 cut(s)	367, 499, 731
Alw26I	GTCTC	1 cut(s)	172
Aor13HI	TCCGGA	1 cut(s)	131
AoxI	GGCC	5 cut(s)	87, 358, 503, 515, 654
AspLEI	GCGC	6 cut(s)	7, 309, 331, 401, 461, 574
AspS9I	GGNCC	3 cut(s)	88, 503, 654
AsuC2I	CCSGG	2 cut(s)	115, 658
AsuHPI	GGTGA	4 cut(s)	181, 235, 578, 620
BaeGI	GKGCMC	2 cut(s)	471, 488
BanI	GGYRCC	2 cut(s)	4, 458
BarI	GAAGNNNNNNTAC	2 cut(s)	410, 442
BbsI	GAAGAC	1 cut(s)	48
BccI	CCATC	2 cut(s)	641, 679
BceAI	ACGGC	2 cut(s)	302, 373
BclI	TGATCA	1 cut(s)	754
BcnI	CCSGG	2 cut(s)	115, 658
BcoDI	GTCTC	1 cut(s)	172
BfaI	CTAG	1 cut(s)	140
BfoI	RGCGCY	2 cut(s)	8, 462
BglI	GCCNNNNNGGC	1 cut(s)	86
BisI	GCNGC	8 cut(s)	277, 280, 402, 457, 515, 518, 521, 544
BlsI	GCNGC	8 cut(s)	278, 281, 403, 458, 516, 519, 522, 545
Bme1390I	CCNGG	2 cut(s)	115, 658
BmgT120I	GGNCC	3 cut(s)	88, 503, 654
BmiI	GGNNCC	7 cut(s)	6, 130, 136, 275, 460, 504, 655
BmrFI	CCNGG	2 cut(s)	115, 658
BmsI	GCATC	1 cut(s)	327
BpiI	GAAGAC	1 cut(s)	48
BpuEI	CTTGAG	1 cut(s)	493
BpuMI	CCSGG	2 cut(s)	115, 658
BsaHI	GRCGYC	6 cut(s)	5, 282, 315, 374, 459, 635
BsaJI	CCNNGG	3 cut(s)	277, 462, 506
BsaWI	WCCGGW	1 cut(s)	131
Bsc4I	CCNNNNNNNGG	1 cut(s)	663
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)	628, 652
BseLI	CCNNNNNNNGG	1 cut(s)	663
BseNI	ACTGG	1 cut(s)	295
BseRI	GAGGAG	8 cut(s)	34, 564, 567, 695, 704, 707, 710, 713
BseSI	GKGCMC	2 cut(s)	471, 488
BseX3I	CGGCCG	2 cut(s)	358, 515
BseYI	CCCAGC	2 cut(s)	499, 731
Bsh1236I	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 574
Bsh1285I	CGRYCG	3 cut(s)	361, 381, 518
BshFI	GGCC	5 cut(s)	89, 360, 505, 517, 656
BshNI	GGYRCC	2 cut(s)	4, 458
BsiEI	CGRYCG	3 cut(s)	361, 381, 518
BsiSI	CCGG	6 cut(s)	114, 132, 271, 361, 442, 657
BslI	CCNNNNNNNGG	1 cut(s)	663
BsmAI	GTCTC	1 cut(s)	172
BsmBI	CGTCTC	1 cut(s)	172
BsnI	GGCC	5 cut(s)	89, 360, 505, 517, 656
Bsp1286I	GDGCHC	2 cut(s)	471, 488
Bsp13I	TCCGGA	1 cut(s)	131
Bsp143I	GATC	3 cut(s)	231, 378, 754
BspANI	GGCC	5 cut(s)	89, 360, 505, 517, 656
BspEI	TCCGGA	1 cut(s)	131
BspFNI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 574
BspHI	TCATGA	1 cut(s)	757
BspLI	GGNNCC	7 cut(s)	6, 130, 136, 275, 460, 504, 655
BspT107I	GGYRCC	2 cut(s)	4, 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, 754
BssNI	GRCGYC	6 cut(s)	5, 282, 315, 374, 459, 635
Bst4CI	ACNGT	1 cut(s)	247
Bst6I	CTCTTC	4 cut(s)	11, 218, 413, 701
BstACI	GRCGYC	6 cut(s)	5, 282, 315, 374, 459, 635
BstAPI	GCANNNNNTGC	1 cut(s)	667
BstC8I	GCNNGC	2 cut(s)	87, 238
BstDSI	CCRYGG	1 cut(s)	277
BstF5I	GGATG	2 cut(s)	628, 652
BstFNI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 574
BstH2I	RGCGCY	2 cut(s)	8, 462
BstHHI	GCGC	6 cut(s)	7, 309, 331, 401, 461, 574
BstKTI	GATC	3 cut(s)	234, 381, 757
BstMAI	GTCTC	1 cut(s)	172
BstMBI	GATC	3 cut(s)	231, 378, 754
BstMCI	CGRYCG	3 cut(s)	361, 381, 518
BstMWI	GCNNNNNNNGC	9 cut(s)	86, 267, 276, 337, 380, 453, 511, 520, 667
BstSCI	CCNGG	2 cut(s)	113, 656
BstSLI	GKGCMC	2 cut(s)	471, 488
BstUI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 574
BstV2I	GAAGAC	1 cut(s)	48
BstZI	CGGCCG	2 cut(s)	358, 515
BsuRI	GGCC	5 cut(s)	89, 360, 505, 517, 656
BtgI	CCRYGG	1 cut(s)	277
BtsCI	GGATG	2 cut(s)	628, 652
Cac8I	GCNNGC	2 cut(s)	87, 238
CciI	TCATGA	1 cut(s)	757
CciNI	GCGGCCGC	1 cut(s)	515
CfoI	GCGC	6 cut(s)	7, 309, 331, 401, 461, 574
Cfr10I	RCCGGY	1 cut(s)	441
Cfr13I	GGNCC	3 cut(s)	88, 503, 654
Cfr42I	CCGCGG	1 cut(s)	280
CseI	GACGC	6 cut(s)	229, 271, 323, 363, 405, 624
Csp6I	GTAC	1 cut(s)	427
CviAII	CATG	1 cut(s)	758
CviQI	GTAC	1 cut(s)	427
DinI	GGCGCC	2 cut(s)	6, 460
DpnI	GATC	3 cut(s)	233, 380, 756
DpnII	GATC	3 cut(s)	231, 378, 754
EaeI	YGGCCR	2 cut(s)	358, 515
EagI	CGGCCG	2 cut(s)	358, 515
Eam1104I	CTCTTC	4 cut(s)	11, 218, 413, 701
EarI	CTCTTC	4 cut(s)	11, 218, 413, 701
EciI	GGCGGA	2 cut(s)	67, 561
EclXI	CGGCCG	2 cut(s)	358, 515
Eco52I	CGGCCG	2 cut(s)	358, 515
EgeI	GGCGCC	2 cut(s)	6, 460
EheI	GGCGCC	2 cut(s)	6, 460
Esp3I	CGTCTC	1 cut(s)	172
FaeI	CATG	1 cut(s)	761
FaiI	YATR	3 cut(s)	413, 480, 759
FatI	CATG	1 cut(s)	757
FauI	CCCGC	4 cut(s)	90, 227, 245, 275
FbaI	TGATCA	1 cut(s)	754
Fnu4HI	GCNGC	8 cut(s)	277, 280, 402, 457, 515, 518, 521, 544
FokI	GGATG	2 cut(s)	635, 659
Fsp4HI	GCNGC	8 cut(s)	277, 280, 402, 457, 515, 518, 521, 544
FspBI	CTAG	1 cut(s)	140
GlaI	GCGC	6 cut(s)	6, 308, 330, 400, 460, 573
GluI	GCNGC	8 cut(s)	277, 280, 402, 457, 515, 518, 521, 544
GsaI	CCCAGC	2 cut(s)	503, 735
HaeII	RGCGCY	2 cut(s)	8, 462
HaeIII	GGCC	5 cut(s)	89, 360, 505, 517, 656
HapII	CCGG	6 cut(s)	114, 132, 271, 361, 442, 657
HgaI	GACGC	6 cut(s)	229, 271, 323, 363, 405, 624
HhaI	GCGC	6 cut(s)	7, 309, 331, 401, 461, 574
Hin1I	GRCGYC	6 cut(s)	5, 282, 315, 374, 459, 635
Hin1II	CATG	1 cut(s)	761
Hin6I	GCGC	6 cut(s)	5, 307, 329, 399, 459, 572
HinP1I	GCGC	6 cut(s)	5, 307, 329, 399, 459, 572
HinfI	GANTC	2 cut(s)	53, 349
HpaII	CCGG	6 cut(s)	114, 132, 271, 361, 442, 657
HphI	GGTGA	4 cut(s)	181, 235, 578, 620
Hpy188I	TCNGA	1 cut(s)	199
Hpy188III	TCNNGA	2 cut(s)	132, 758
Hpy99I	CGWCG	9 cut(s)	29, 32, 35, 38, 41, 287, 314, 317, 379
HpyAV	CCTTC	1 cut(s)	298
HpyCH4III	ACNGT	1 cut(s)	247
HpyCH4IV	ACGT	1 cut(s)	165
HpyCH4V	TGCA	2 cut(s)	63, 340
HpyF10VI	GCNNNNNNNGC	9 cut(s)	86, 267, 276, 337, 380, 453, 511, 520, 667
HpySE526I	ACGT	1 cut(s)	165
Hsp92I	GRCGYC	6 cut(s)	5, 282, 315, 374, 459, 635
Hsp92II	CATG	1 cut(s)	761
HspAI	GCGC	6 cut(s)	5, 307, 329, 399, 459, 572
KasI	GGCGCC	2 cut(s)	4, 458
Kpn2I	TCCGGA	1 cut(s)	131
Ksp22I	TGATCA	1 cut(s)	754
KspI	CCGCGG	1 cut(s)	280
Kzo9I	GATC	3 cut(s)	231, 378, 754
LmnI	GCTCC	3 cut(s)	21, 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, 756
MbiI	CCGCTC	1 cut(s)	514
MboI	GATC	3 cut(s)	231, 378, 754
MhlI	GDGCHC	2 cut(s)	471, 488
MluCI	AATT	2 cut(s)	47, 628
Mly113I	GGCGCC	2 cut(s)	5, 459
MmeI	TCCRAC	2 cut(s)	195, 222
MroI	TCCGGA	1 cut(s)	131
MseI	TTAA	2 cut(s)	354, 723
MslI	CAYNNNNRTG	1 cut(s)	762
MspA1I	CMGCKG	2 cut(s)	279, 499
MspI	CCGG	6 cut(s)	114, 132, 271, 361, 442, 657
MspR9I	CCNGG	2 cut(s)	115, 658
MvnI	CGCG	9 cut(s)	240, 261, 279, 307, 309, 331, 383, 399, 574
MwoI	GCNNNNNNNGC	9 cut(s)	86, 267, 276, 337, 380, 453, 511, 520, 667
NarI	GGCGCC	2 cut(s)	5, 459
NciI	CCSGG	2 cut(s)	115, 658
NdeII	GATC	3 cut(s)	231, 378, 754
NlaIII	CATG	1 cut(s)	761
NlaIV	GGNNCC	7 cut(s)	6, 130, 136, 275, 460, 504, 655
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)	757
PcsI	WCGNNNNNNNCGW	5 cut(s)	33, 36, 42, 297, 306
PfeI	GAWTC	2 cut(s)	53, 349
PkrI	GCNGC	8 cut(s)	278, 281, 403, 458, 516, 519, 522, 545
Ple19I	CGATCG	1 cut(s)	381
PluTI	GGCGCC	2 cut(s)	8, 462
PsiI	TTATAA	1 cut(s)	413
PspFI	CCCAGC	2 cut(s)	499, 731
PspN4I	GGNNCC	7 cut(s)	6, 130, 136, 275, 460, 504, 655
PspPI	GGNCC	3 cut(s)	88, 503, 654
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)	762
SacII	CCGCGG	1 cut(s)	280
SaqAI	TTAA	2 cut(s)	354, 723
SatI	GCNGC	8 cut(s)	277, 280, 402, 457, 515, 518, 521, 544
Sau3AI	GATC	3 cut(s)	231, 378, 754
Sau96I	GGNCC	3 cut(s)	88, 503, 654
ScrFI	CCNGG	2 cut(s)	115, 658
SduI	GDGCHC	2 cut(s)	471, 488
SetI	ASST	9 cut(s)	168, 177, 204, 369, 501, 559, 617, 668, 733
SfaNI	GCATC	1 cut(s)	327
SfoI	GGCGCC	2 cut(s)	6, 460
Sfr303I	CCGCGG	1 cut(s)	280
SgrBI	CCGCGG	1 cut(s)	280
SmiMI	CAYNNNNRTG	1 cut(s)	762
SmlI	CTYRAG	1 cut(s)	472
SmoI	CTYRAG	1 cut(s)	472
Sse9I	AATT	2 cut(s)	47, 628
SspDI	GGCGCC	2 cut(s)	4, 458
SspMI	CTAG	1 cut(s)	140
StyD4I	CCNGG	2 cut(s)	113, 656
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)	47, 628
TatI	WGTACW	1 cut(s)	426
TauI	GCSGC	8 cut(s)	279, 282, 404, 459, 517, 520, 523, 546
TfiI	GAWTC	2 cut(s)	53, 349
Tru1I	TTAA	2 cut(s)	354, 723
Tru9I	TTAA	2 cut(s)	354, 723
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.