Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001498

Physical Location & Seq

Genomic Coordinates Forward (+)

24028169 .. 24030972

Gene Structure 2804 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG245500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGTCTCACTTCGGAAGGTCTGGCCCTCCGGACATTACCGATACCTACTCTCTCCTCGTCCTCAACATCACCTTCCGGACGAGTGCGGATGATCTGTTTCCGCTTTTCGATAAGTACGGCAAGGTCGTCGACATCTTCATCCCCAGAGACCGAAGGACTGGCGAGTCCAGGGGATTTGCTTTTGTGCGTTACAAATATGCAGATGAGGCACAGAAAGCTGTTGAGAGGCTCGATGGAAGAGTTGTTGATGGTCGCGAAATAACTGTTCAGTTTGCAAAATATGGGCCTAATGCAGAGAAGATTCATAAAGGAAGGATTGCTGAAACTCTACCAAAATCGACGCACAGGTCAAGAAGTCGCAGTCCTCGGAGAAGGTACCGTGATGACTATAGAGATCGGGACTACAGGAGGAGGAGAAGTCGCAGTAGGAGTTGGGATAGGTATGAGCGTGACAGATACCGCCATGGTAGGGACAGATACCGCCATAGACGAAGCAGGAGCCCTAGTGCCAGTCCTGATTACTACAGGAGCAGGGGAAGAGGACGCTATGATGATGATGATGATGATTATGATAGGCGGAGGCCGAGTCCGATTCGAAGCCGTTCTTTTGATAGTGCATCCCCTGCTCGGCGTAGCCTTACACCTCAAAGGAGCCTTTCTCCGTTAAGCAGAAGCCGCAGTGTCAGCCCTAATGGACATGGTCGTGATGGACGATCGCCTAATTCTCGAAGTGTTTCACCACGAGGTCGTCCTGCTGATTCTCGAAGTCCATCACCTCGCCATTCAGATGATGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0031974 GO:0031981 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:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1

Protein Analysis

265

Amino Acids

31.18

Weight (kDa)

10.99

Isoelectric Point (pI)

94.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	18 - 88	2.2e-19	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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001498)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G64200 AT5G64200
fragaria_vesca	FvH4_5g37470 FvH4_5g37470 FvH4_5g37470 FvH4_5g37470 FvH4_6g21680
malus_domestica	MD08G1182200.v1.1 MD14G1052000.v1.1 MD15G1367900.v1.1
prunus_persica	Prupe.1G516100_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1 Prupe.7G083500_v2.0.a1
pyrus_communis	pycom08g15600 pycom12g04670 pycom14g04330 pycom15g32980
rosa_chinensis	RchiOBHm_Chr3g0478961 RchiOBHm_Chr7g0239081
rosa_laevigata	RLG00000000784 RLG00000023616
rosa_multiflora	Rmu_sc0004605.1_g000002 Rmu_sc0005645.1_g000001 Rmu_sc0012163.1_g000002
rosa_roxburghii	Rroxscaffold_3G00221270 Rroxscaffold_6G00402870
rosa_rugosa	Rorug03G0169300 Rorug03G0169400 Rorug03G0169400 Rorug03G0169400 Rorug03G0169500 Rorug03G0169600 Rorug07G0325500 Rorug07G0325600 Rorug07G0325700 Rorug07G0325800
rosa_samantha	Rh3AG220800 Rh3BG252800 Rh3CG249500 Rh3DG245500 Rh7AG480000 Rh7CG497500 Rh7DG465100
rosa_wichuraiana	Rw3G019860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	163, 346
Acc65I	GGTACC	1 cut(s)	375
AccB1I	GGYRCC	1 cut(s)	375
AccI	GTMKAC	1 cut(s)	129
AccII	CGCG	1 cut(s)	255
AccIII	TCCGGA	2 cut(s)	28, 75
AciI	CCGC	6 cut(s)	86, 101, 460, 481, 577, 676
AfaI	GTAC	2 cut(s)	116, 377
AfiI	CCNNNNNNNGG	2 cut(s)	469, 627
AjnI	CCWGG	1 cut(s)	167
AluBI	AGCT	1 cut(s)	218
AluI	AGCT	1 cut(s)	218
Alw26I	GTCTC	2 cut(s)	9, 141
Aor13HI	TCCGGA	2 cut(s)	28, 75
AoxI	GGCC	3 cut(s)	22, 284, 581
Asp700I	GAANNNNTTC	2 cut(s)	601, 733
Asp718I	GGTACC	1 cut(s)	375
AspS9I	GGNCC	2 cut(s)	23, 284
AsuHPI	GGTGA	3 cut(s)	61, 729, 765
AsuII	TTCGAA	1 cut(s)	595
BanI	GGYRCC	1 cut(s)	375
BanII	GRGCYC	1 cut(s)	503
BauI	CACGAG	1 cut(s)	741
BccI	CCATC	4 cut(s)	227, 242, 701, 778
BceAI	ACGGC	2 cut(s)	133, 585
BcgI	CGANNNNNNTGC	2 cut(s)	109, 143
BciT130I	CCWGG	1 cut(s)	169
BcoDI	GTCTC	2 cut(s)	9, 141
BfaI	CTAG	1 cut(s)	504
BfmI	CTRYAG	3 cut(s)	388, 403, 523
BisI	GCNGC	1 cut(s)	676
BlsI	GCNGC	1 cut(s)	677
Bme1390I	CCNGG	1 cut(s)	169
BmgT120I	GGNCC	2 cut(s)	23, 284
BmiI	GGNNCC	3 cut(s)	377, 500, 653
BmrFI	CCNGG	1 cut(s)	169
BmsI	GCATC	1 cut(s)	626
BplI	GAGNNNNNCTC	2 cut(s)	643, 675
Bpu14I	TTCGAA	1 cut(s)	595
BsaI	GGTCTC	1 cut(s)	141
BsaJI	CCNNGG	3 cut(s)	168, 365, 463
BsaWI	WCCGGW	2 cut(s)	28, 75
BsaXI	ACNNNNNCTCC	6 cut(s)	403, 433, 490, 520, 571, 601
Bsc4I	CCNNNNNNNGG	2 cut(s)	469, 627
Bse1I	ACTGG	2 cut(s)	163, 510
BseAI	TCCGGA	2 cut(s)	28, 75
BseBI	CCWGG	1 cut(s)	169
BseDI	CCNNGG	3 cut(s)	168, 365, 463
BseGI	GGATG	3 cut(s)	94, 138, 617
BseLI	CCNNNNNNNGG	2 cut(s)	469, 627
BseNI	ACTGG	2 cut(s)	163, 510
BseRI	GAGGAG	3 cut(s)	44, 424, 427
Bsh1236I	CGCG	1 cut(s)	255
Bsh1285I	CGRYCG	1 cut(s)	716
BshFI	GGCC	3 cut(s)	24, 286, 583
BshNI	GGYRCC	1 cut(s)	375
BsiEI	CGRYCG	1 cut(s)	716
BsiSI	CCGG	2 cut(s)	29, 76
BslFI	GGGAC	2 cut(s)	413, 485
BslI	CCNNNNNNNGG	2 cut(s)	469, 627
BsmAI	GTCTC	2 cut(s)	9, 141
BsmFI	GGGAC	2 cut(s)	413, 485
BsnI	GGCC	3 cut(s)	24, 286, 583
Bso31I	GGTCTC	1 cut(s)	141
Bsp119I	TTCGAA	1 cut(s)	595
Bsp1286I	GDGCHC	1 cut(s)	503
Bsp13I	TCCGGA	2 cut(s)	28, 75
Bsp143I	GATC	3 cut(s)	91, 394, 713
Bsp19I	CCATGG	1 cut(s)	463
Bsp68I	TCGCGA	1 cut(s)	255
BspACI	CCGC	6 cut(s)	86, 101, 460, 481, 577, 676
BspANI	GGCC	3 cut(s)	24, 286, 583
BspEI	TCCGGA	2 cut(s)	28, 75
BspFNI	CGCG	1 cut(s)	255
BspLI	GGNNCC	3 cut(s)	377, 500, 653
BspT104I	TTCGAA	1 cut(s)	595
BspT107I	GGYRCC	1 cut(s)	375
BspTNI	GGTCTC	1 cut(s)	141
BsrI	ACTGG	2 cut(s)	163, 510
BssECI	CCNNGG	3 cut(s)	168, 365, 463
BssMI	GATC	3 cut(s)	91, 394, 713
BssSI	CACGAG	1 cut(s)	741
BssT1I	CCWWGG	1 cut(s)	463
Bst2BI	CACGAG	1 cut(s)	741
Bst2UI	CCWGG	1 cut(s)	169
Bst4CI	ACNGT	2 cut(s)	265, 380
Bst6I	CTCTTC	2 cut(s)	232, 532
BstAPI	GCANNNNNTGC	1 cut(s)	623
BstBI	TTCGAA	1 cut(s)	595
BstDSI	CCRYGG	1 cut(s)	463
BstF5I	GGATG	3 cut(s)	94, 138, 617
BstFNI	CGCG	1 cut(s)	255
BstKTI	GATC	3 cut(s)	94, 397, 716
BstMAI	GTCTC	2 cut(s)	9, 141
BstMBI	GATC	3 cut(s)	91, 394, 713
BstMCI	CGRYCG	1 cut(s)	716
BstMWI	GCNNNNNNNGC	5 cut(s)	206, 215, 623, 675, 684
BstNI	CCWGG	1 cut(s)	169
BstSCI	CCNGG	1 cut(s)	167
BstSFI	CTRYAG	3 cut(s)	388, 403, 523
BstUI	CGCG	1 cut(s)	255
BsuRI	GGCC	3 cut(s)	24, 286, 583
BtgI	CCRYGG	1 cut(s)	463
BtsCI	GGATG	3 cut(s)	94, 138, 617
BtsI	GCAGTG	1 cut(s)	685
BtsIMutI	CAGTG	1 cut(s)	685
BtuMI	TCGCGA	1 cut(s)	255
Cfr13I	GGNCC	2 cut(s)	23, 284
CseI	GACGC	2 cut(s)	349, 552
Csp6I	GTAC	2 cut(s)	115, 376
CviAII	CATG	2 cut(s)	464, 698
CviQI	GTAC	2 cut(s)	115, 376
DpnI	GATC	3 cut(s)	93, 396, 715
DpnII	GATC	3 cut(s)	91, 394, 713
DrdI	GACNNNNNNGTC	2 cut(s)	163, 346
DseDI	GACNNNNNNGTC	2 cut(s)	163, 346
Eam1104I	CTCTTC	2 cut(s)	232, 532
EarI	CTCTTC	2 cut(s)	232, 532
EciI	GGCGGA	1 cut(s)	592
Eco130I	CCWWGG	1 cut(s)	463
Eco24I	GRGCYC	1 cut(s)	503
Eco31I	GGTCTC	1 cut(s)	141
EcoRII	CCWGG	1 cut(s)	167
EcoT14I	CCWWGG	1 cut(s)	463
EcoT38I	GRGCYC	1 cut(s)	503
ErhI	CCWWGG	1 cut(s)	463
FaeI	CATG	2 cut(s)	467, 701
FalI	AAGNNNNNCTT	2 cut(s)	589, 621
FaqI	GGGAC	2 cut(s)	413, 485
FatI	CATG	2 cut(s)	463, 697
FblI	GTMKAC	1 cut(s)	129
Fnu4HI	GCNGC	1 cut(s)	676
FokI	GGATG	3 cut(s)	101, 125, 604
FriOI	GRGCYC	1 cut(s)	503
Fsp4HI	GCNGC	1 cut(s)	676
FspBI	CTAG	1 cut(s)	504
GluI	GCNGC	1 cut(s)	676
HaeIII	GGCC	3 cut(s)	24, 286, 583
HapII	CCGG	2 cut(s)	29, 76
HgaI	GACGC	2 cut(s)	349, 552
Hin1II	CATG	2 cut(s)	467, 701
HincII	GTYRAC	1 cut(s)	130
HindII	GTYRAC	1 cut(s)	130
HinfI	GANTC	5 cut(s)	164, 301, 586, 592, 758
HpaII	CCGG	2 cut(s)	29, 76
HphI	GGTGA	3 cut(s)	61, 729, 765
Hpy166II	GTNNAC	1 cut(s)	130
Hpy188I	TCNGA	4 cut(s)	14, 369, 591, 787
Hpy188III	TCNNGA	9 cut(s)	29, 76, 254, 351, 398, 515, 704, 726, 762
Hpy8I	GTNNAC	1 cut(s)	130
Hpy99I	CGWCG	2 cut(s)	131, 343
HpyAV	CCTTC	5 cut(s)	9, 82, 147, 306, 366
HpyCH4III	ACNGT	2 cut(s)	265, 380
HpyCH4V	TGCA	4 cut(s)	200, 275, 293, 617
HpyF10VI	GCNNNNNNNGC	5 cut(s)	206, 215, 623, 675, 684
Hsp92II	CATG	2 cut(s)	467, 701
Kpn2I	TCCGGA	2 cut(s)	28, 75
KpnI	GGTACC	1 cut(s)	379
Kzo9I	GATC	3 cut(s)	91, 394, 713
LmnI	GCTCC	3 cut(s)	498, 528, 651
LweI	GCATC	1 cut(s)	626
MaeI	CTAG	1 cut(s)	504
MaeIII	GTNAC	2 cut(s)	188, 449
MalI	GATC	3 cut(s)	93, 396, 715
MboI	GATC	3 cut(s)	91, 394, 713
MboII	GAAGA	4 cut(s)	127, 249, 310, 549
MhlI	GDGCHC	1 cut(s)	503
MluCI	AATT	1 cut(s)	721
MlyI	GAGTC	2 cut(s)	173, 595
MroI	TCCGGA	2 cut(s)	28, 75
MroXI	GAANNNNTTC	2 cut(s)	601, 733
MseI	TTAA	1 cut(s)	665
MslI	CAYNNNNRTG	2 cut(s)	702, 786
MspI	CCGG	2 cut(s)	29, 76
MspR9I	CCNGG	1 cut(s)	169
MvaI	CCWGG	1 cut(s)	169
MvnI	CGCG	1 cut(s)	255
MwoI	GCNNNNNNNGC	5 cut(s)	206, 215, 623, 675, 684
NcoI	CCATGG	1 cut(s)	463
NdeII	GATC	3 cut(s)	91, 394, 713
NlaIII	CATG	2 cut(s)	467, 701
NlaIV	GGNNCC	3 cut(s)	377, 500, 653
NmeAIII	GCCGAG	2 cut(s)	607, 609
NmuCI	GTSAC	1 cut(s)	449
NruI	TCGCGA	1 cut(s)	255
NspV	TTCGAA	1 cut(s)	595
PcsI	WCGNNNNNNNCGW	2 cut(s)	123, 709
PdmI	GAANNNNTTC	2 cut(s)	601, 733
PfeI	GAWTC	3 cut(s)	301, 592, 758
PflFI	GACNNNGTC	1 cut(s)	699
PkrI	GCNGC	1 cut(s)	677
Ple19I	CGATCG	1 cut(s)	716
PleI	GAGTC	2 cut(s)	172, 594
PpsI	GAGTC	2 cut(s)	172, 594
Psp6I	CCWGG	1 cut(s)	167
PspGI	CCWGG	1 cut(s)	167
PspN4I	GGNNCC	3 cut(s)	377, 500, 653
PspPI	GGNCC	2 cut(s)	23, 284
PsyI	GACNNNGTC	1 cut(s)	699
PvuI	CGATCG	1 cut(s)	716
RruI	TCGCGA	1 cut(s)	255
RsaI	GTAC	2 cut(s)	116, 377
RsaNI	GTAC	2 cut(s)	115, 376
RseI	CAYNNNNRTG	2 cut(s)	702, 786
SalI	GTCGAC	1 cut(s)	128
SaqAI	TTAA	1 cut(s)	665
SatI	GCNGC	1 cut(s)	676
Sau3AI	GATC	3 cut(s)	91, 394, 713
Sau96I	GGNCC	2 cut(s)	23, 284
SchI	GAGTC	2 cut(s)	173, 595
ScrFI	CCNGG	1 cut(s)	169
SduI	GDGCHC	1 cut(s)	503
SfaNI	GCATC	1 cut(s)	626
SfcI	CTRYAG	3 cut(s)	388, 403, 523
SfuI	TTCGAA	1 cut(s)	595
SmiMI	CAYNNNNRTG	2 cut(s)	702, 786
Sse9I	AATT	1 cut(s)	721
SsiI	CCGC	6 cut(s)	86, 101, 460, 481, 577, 676
SspMI	CTAG	1 cut(s)	504
StyD4I	CCNGG	1 cut(s)	167
StyI	CCWWGG	1 cut(s)	463
TaaI	ACNGT	2 cut(s)	265, 380
TaqI	TCGA	7 cut(s)	108, 129, 231, 338, 595, 727, 763
TaqII	GACCGA	1 cut(s)	165
TasI	AATT	1 cut(s)	721
TauI	GCSGC	1 cut(s)	678
TfiI	GAWTC	3 cut(s)	301, 592, 758
Tru1I	TTAA	1 cut(s)	665
Tru9I	TTAA	1 cut(s)	665
TscAI	CASTG	1 cut(s)	685
TseFI	GTSAC	1 cut(s)	449
Tsp45I	GTSAC	1 cut(s)	449
TspDTI	ATGAA	2 cut(s)	127, 293
TspGWI	ACGGA	1 cut(s)	651
TspRI	CASTG	1 cut(s)	685
Tth111I	GACNNNGTC	1 cut(s)	699
XmiI	GTMKAC	1 cut(s)	129
XmnI	GAANNNNTTC	2 cut(s)	601, 733
XspI	CTAG	1 cut(s)	504

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