Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0002205

Physical Location & Seq

Genomic Coordinates Reverse (-)

88859892 .. 88864015

Gene Structure 4124 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG559200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGGTGTGTAAAGTACTCATCACCATTTTTTCTTTTTGGTGTAGCCCCTTTTGTGACAGTTTTTTTCCCCCATTTTCCAGGCAACCTCGTGGTTTCGGTTTTGTCCAATTTGTTGATCCTACTGATGCTGCGGAGGCTAAATTTCAAATGGATGGTCACGTTCTTCTTGGTCGCGAGGTAACTGTTGTATTTGCAGAGGAGAACAGGAAGAAGCCGTCTGATATGAGGCAAAGGGAGGGTCCAAGCTCCAGGGGTAGTGGTCGACATCGTGATCGAAGAGGGTCTCCTCCACGCTATTCACGCTCTCCACGATATTCCCGATCTCCACCTCCACGTCATGCAAGATCTCGGCCCCGCAGCCCTTCTTATGATTCCCCTCCCCCAAAAAGAAGGGAATATTCGAGATCTGTCTCACCCCCAGGGAGAAGGTACAGTAGAGAGAGATCGTTTTCCCGATCTCCTCCTCAACCATATAATGGCTCAAGGGGCCGCAGTCAGAGTCCAGTTAGGGGTCCAAGCCGGAGCAGAAGCCAGAGTCCAAGGCAAATTGGTAGAAGCTTGGGTGGCAGGCCACAGAGTCCTGATCATGAAGATTACTCAAGGGAACCAAATGGAGACAGGTCTCCTAGTCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000245 GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005730 GO:0005737 GO:0005829 GO:0005886 GO:0006139 GO:0006355 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0006810 GO:0008150 GO:0008152 GO:0008380 GO:0009889 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010605 GO:0010629 GO:0016020 GO:0016043 GO:0016070 GO:0016071 GO:0016482 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0022607 GO:0022613 GO:0022618 GO:0031323 GO:0031324 GO:0031326 GO:0031974 GO:0031981 GO:0033119 GO:0034622 GO:0034641 GO:0035061 GO:0042802 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043484 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045934 GO:0046483 GO:0046907 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050789 GO:0050794 GO:0051082 GO:0051171 GO:0051172 GO:0051179 GO:0051234 GO:0051252 GO:0051253 GO:0051641 GO:0051649 GO:0060255 GO:0065003 GO:0065007 GO:0070013 GO:0071704 GO:0071826 GO:0071840 GO:0071944 GO:0080090 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1903311 GO:1903312 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

211

Amino Acids

24.09

Weight (kDa)

11.4

Isoelectric Point (pI)

114.7

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	16 - 60	2.5e-06	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

Tree File

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Orthologous Genes (Group: OG0002205)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT1G55310 AT3G13570
fragaria_vesca	FvH4_3g45331 FvH4_3g45331 FvH4_6g21490
malus_domestica	MD03G1005800.v1.1 MD11G1008700.v1.1 MD11G1008800.v1.1 MD14G1050400.v1.1 MD14G1050500.v1.1
prunus_persica	Prupe.6G005600_v2.0.a1 Prupe.6G005600_v2.0.a1 Prupe.6G005600_v2.0.a1 Prupe.7G085400_v2.0.a1
pyrus_communis	pycom03g00590 pycom11g00570
rosa_chinensis	RchiOBHm_Chr3g0478671 RchiOBHm_Chr5g0083131
rosa_laevigata	RLG00000023634 RLG00000037013
rosa_multiflora	Rmu_co8251633.1_g000001 Rmu_sc0002454.1_g000003 Rmu_sc0002900.1_g000004 Rmu_sc0008074.1_g000021
rosa_roxburghii	Rroxscaffold_1G00001380 Rroxscaffold_6G00403210
rosa_rugosa	Rorug03G0166900
rosa_samantha	Rh3AG219100 Rh3BG250800 Rh3CG247600 Rh3DG243900 Rh5AG532100 Rh5BG559200 Rh5CG582100 Rh5DG568000
rosa_wichuraiana	Rw3G019700 Rw5G049630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	476
AccI	GTMKAC	1 cut(s)	262
AccII	CGCG	1 cut(s)	174
AciI	CCGC	3 cut(s)	131, 355, 490
AclWI	GGATC	1 cut(s)	110
AcsI	RAATTY	1 cut(s)	140
AfaI	GTAC	2 cut(s)	15, 431
AfiI	CCNNNNNNNGG	2 cut(s)	476, 509
AgsI	TTSAA	1 cut(s)	146
AjiI	CACGTC	1 cut(s)	335
AjnI	CCWGG	3 cut(s)	77, 248, 418
AluBI	AGCT	2 cut(s)	246, 558
AluI	AGCT	2 cut(s)	246, 558
Alw26I	GTCTC	4 cut(s)	288, 415, 609, 627
AlwI	GGATC	1 cut(s)	110
AoxI	GGCC	3 cut(s)	350, 487, 569
ApeKI	GCWGC	2 cut(s)	128, 357
ApoI	RAATTY	1 cut(s)	140
ArsI	GACNNNNNNTTYG	4 cut(s)	139, 171, 223, 255
AspS9I	GGNCC	4 cut(s)	239, 351, 487, 512
AsuHPI	GGTGA	2 cut(s)	13, 405
AvaII	GGWCC	2 cut(s)	239, 512
BauI	CACGAG	1 cut(s)	87
BbvI	GCAGC	2 cut(s)	115, 369
BccI	CCATC	1 cut(s)	146
BceAI	ACGGC	1 cut(s)	199
BciT130I	CCWGG	3 cut(s)	79, 250, 420
BclI	TGATCA	1 cut(s)	583
BcoDI	GTCTC	4 cut(s)	288, 415, 609, 627
BfaI	CTAG	1 cut(s)	627
BglII	AGATCT	2 cut(s)	344, 404
BisI	GCNGC	3 cut(s)	129, 358, 490
BlsI	GCNGC	3 cut(s)	130, 359, 491
BmcAI	AGTACT	1 cut(s)	15
Bme1390I	CCNGG	3 cut(s)	79, 250, 420
Bme18I	GGWCC	2 cut(s)	239, 512
BmgBI	CACGTC	1 cut(s)	335
BmgT120I	GGNCC	4 cut(s)	239, 351, 487, 512
BmiI	GGNNCC	5 cut(s)	240, 353, 488, 513, 606
BmrFI	CCNGG	3 cut(s)	79, 250, 420
BmsI	GCATC	1 cut(s)	115
BpmI	CTGGAG	1 cut(s)	232
BpuEI	CTTGAG	2 cut(s)	466, 583
BsaI	GGTCTC	2 cut(s)	288, 627
BsaJI	CCNNGG	4 cut(s)	249, 418, 419, 539
Bsc4I	CCNNNNNNNGG	2 cut(s)	476, 509
Bse1I	ACTGG	1 cut(s)	503
BseBI	CCWGG	3 cut(s)	79, 250, 420
BseDI	CCNNGG	4 cut(s)	249, 418, 419, 539
BseGI	GGATG	1 cut(s)	157
BseLI	CCNNNNNNNGG	2 cut(s)	476, 509
BseNI	ACTGG	1 cut(s)	503
BseRI	GAGGAG	4 cut(s)	212, 276, 450, 453
BseXI	GCAGC	2 cut(s)	115, 369
Bsh1236I	CGCG	1 cut(s)	174
BshFI	GGCC	3 cut(s)	352, 489, 571
BsiSI	CCGG	1 cut(s)	520
BslI	CCNNNNNNNGG	2 cut(s)	476, 509
BsmAI	GTCTC	4 cut(s)	288, 415, 609, 627
BsnI	GGCC	3 cut(s)	352, 489, 571
Bso31I	GGTCTC	2 cut(s)	288, 627
Bsp143I	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
Bsp68I	TCGCGA	1 cut(s)	174
BspACI	CCGC	3 cut(s)	131, 355, 490
BspANI	GGCC	3 cut(s)	352, 489, 571
BspFNI	CGCG	1 cut(s)	174
BspHI	TCATGA	1 cut(s)	586
BspLI	GGNNCC	5 cut(s)	240, 353, 488, 513, 606
BspPI	GGATC	1 cut(s)	110
BspTNI	GGTCTC	2 cut(s)	288, 627
BsrI	ACTGG	1 cut(s)	503
BssECI	CCNNGG	4 cut(s)	249, 418, 419, 539
BssMI	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
BssSI	CACGAG	1 cut(s)	87
BssT1I	CCWWGG	1 cut(s)	539
Bst2BI	CACGAG	1 cut(s)	87
Bst2UI	CCWGG	3 cut(s)	79, 250, 420
Bst4CI	ACNGT	3 cut(s)	59, 184, 434
Bst6I	CTCTTC	1 cut(s)	271
BstC8I	GCNNGC	1 cut(s)	569
BstF5I	GGATG	1 cut(s)	157
BstFNI	CGCG	1 cut(s)	174
BstKTI	GATC	8 cut(s)	118, 274, 323, 347, 407, 446, 458, 586
BstMAI	GTCTC	4 cut(s)	288, 415, 609, 627
BstMBI	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
BstMWI	GCNNNNNNNGC	4 cut(s)	134, 300, 486, 564
BstNI	CCWGG	3 cut(s)	79, 250, 420
BstSCI	CCNGG	3 cut(s)	77, 248, 418
BstUI	CGCG	1 cut(s)	174
BstV1I	GCAGC	2 cut(s)	115, 369
BstX2I	RGATCY	2 cut(s)	344, 404
BstYI	RGATCY	2 cut(s)	344, 404
BsuRI	GGCC	3 cut(s)	352, 489, 571
BtrI	CACGTC	1 cut(s)	335
BtsCI	GGATG	1 cut(s)	157
BtuMI	TCGCGA	1 cut(s)	174
Cac8I	GCNNGC	1 cut(s)	569
CciI	TCATGA	1 cut(s)	586
Cfr13I	GGNCC	4 cut(s)	239, 351, 487, 512
Csp6I	GTAC	2 cut(s)	14, 430
CviAII	CATG	3 cut(s)	338, 587, 633
CviQI	GTAC	2 cut(s)	14, 430
DpnI	GATC	8 cut(s)	117, 273, 322, 346, 406, 445, 457, 585
DpnII	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
Eam1104I	CTCTTC	1 cut(s)	271
EarI	CTCTTC	1 cut(s)	271
Eco130I	CCWWGG	1 cut(s)	539
Eco31I	GGTCTC	2 cut(s)	288, 627
Eco47I	GGWCC	2 cut(s)	239, 512
EcoRII	CCWGG	3 cut(s)	77, 248, 418
EcoT14I	CCWWGG	1 cut(s)	539
ErhI	CCWWGG	1 cut(s)	539
FaeI	CATG	3 cut(s)	341, 590, 636
FaiI	YATR	7 cut(s)	224, 339, 369, 472, 474, 588, 634
FatI	CATG	3 cut(s)	337, 586, 632
FauI	CCCGC	1 cut(s)	362
FbaI	TGATCA	1 cut(s)	583
FblI	GTMKAC	1 cut(s)	262
Fnu4HI	GCNGC	3 cut(s)	129, 358, 490
FokI	GGATG	1 cut(s)	164
Fsp4HI	GCNGC	3 cut(s)	129, 358, 490
FspBI	CTAG	1 cut(s)	627
GluI	GCNGC	3 cut(s)	129, 358, 490
GsuI	CTGGAG	1 cut(s)	232
HaeIII	GGCC	3 cut(s)	352, 489, 571
HapII	CCGG	1 cut(s)	520
Hin1II	CATG	3 cut(s)	341, 590, 636
HincII	GTYRAC	1 cut(s)	263
HindII	GTYRAC	1 cut(s)	263
HindIII	AAGCTT	1 cut(s)	556
HinfI	GANTC	4 cut(s)	371, 499, 535, 577
HpaII	CCGG	1 cut(s)	520
HphI	GGTGA	2 cut(s)	13, 405
Hpy166II	GTNNAC	1 cut(s)	263
Hpy188I	TCNGA	2 cut(s)	220, 498
Hpy188III	TCNNGA	7 cut(s)	173, 269, 318, 402, 453, 581, 587
Hpy8I	GTNNAC	1 cut(s)	263
HpyAV	CCTTC	3 cut(s)	372, 384, 420
HpyCH4III	ACNGT	3 cut(s)	59, 184, 434
HpyCH4IV	ACGT	2 cut(s)	159, 334
HpyCH4V	TGCA	2 cut(s)	194, 341
HpyF10VI	GCNNNNNNNGC	4 cut(s)	134, 300, 486, 564
HpySE526I	ACGT	2 cut(s)	159, 334
Hsp92II	CATG	3 cut(s)	341, 590, 636
Ksp22I	TGATCA	1 cut(s)	583
Kzo9I	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
LmnI	GCTCC	2 cut(s)	251, 522
Lsp1109I	GCAGC	2 cut(s)	115, 369
LweI	GCATC	1 cut(s)	115
MaeI	CTAG	1 cut(s)	627
MaeII	ACGT	2 cut(s)	159, 334
MaeIII	GTNAC	3 cut(s)	53, 155, 178
MalI	GATC	8 cut(s)	117, 273, 322, 346, 406, 445, 457, 585
MboI	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
MboII	GAAGA	4 cut(s)	155, 220, 288, 602
MflI	RGATCY	2 cut(s)	344, 404
MluCI	AATT	3 cut(s)	107, 140, 546
MlyI	GAGTC	3 cut(s)	508, 544, 586
MspI	CCGG	1 cut(s)	520
MspR9I	CCNGG	3 cut(s)	79, 250, 420
MvaI	CCWGG	3 cut(s)	79, 250, 420
MvnI	CGCG	1 cut(s)	174
MwoI	GCNNNNNNNGC	4 cut(s)	134, 300, 486, 564
NdeII	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
NlaIII	CATG	3 cut(s)	341, 590, 636
NlaIV	GGNNCC	5 cut(s)	240, 353, 488, 513, 606
NmeAIII	GCCGAG	1 cut(s)	328
NmuCI	GTSAC	2 cut(s)	53, 155
NruI	TCGCGA	1 cut(s)	174
PagI	TCATGA	1 cut(s)	586
PasI	CCCWGGG	1 cut(s)	419
PcsI	WCGNNNNNNNCGW	2 cut(s)	307, 316
PfeI	GAWTC	1 cut(s)	371
PflMI	CCANNNNNTGG	1 cut(s)	476
PkrI	GCNGC	3 cut(s)	130, 359, 491
PleI	GAGTC	3 cut(s)	507, 543, 585
PpsI	GAGTC	3 cut(s)	507, 543, 585
Psp6I	CCWGG	3 cut(s)	77, 248, 418
PspGI	CCWGG	3 cut(s)	77, 248, 418
PspN4I	GGNNCC	5 cut(s)	240, 353, 488, 513, 606
PspPI	GGNCC	4 cut(s)	239, 351, 487, 512
PsuI	RGATCY	2 cut(s)	344, 404
RruI	TCGCGA	1 cut(s)	174
RsaI	GTAC	2 cut(s)	15, 431
RsaNI	GTAC	2 cut(s)	14, 430
SalI	GTCGAC	1 cut(s)	261
SatI	GCNGC	3 cut(s)	129, 358, 490
Sau3AI	GATC	8 cut(s)	115, 271, 320, 344, 404, 443, 455, 583
Sau96I	GGNCC	4 cut(s)	239, 351, 487, 512
ScaI	AGTACT	1 cut(s)	15
SchI	GAGTC	3 cut(s)	508, 544, 586
ScrFI	CCNGG	3 cut(s)	79, 250, 420
SetI	ASST	9 cut(s)	88, 162, 180, 248, 331, 337, 431, 560, 623
SfaNI	GCATC	1 cut(s)	115
SinI	GGWCC	2 cut(s)	239, 512
SmlI	CTYRAG	2 cut(s)	481, 598
SmoI	CTYRAG	2 cut(s)	481, 598
Sse9I	AATT	3 cut(s)	107, 140, 546
SsiI	CCGC	3 cut(s)	131, 355, 490
SspI	AATATT	1 cut(s)	398
SspMI	CTAG	1 cut(s)	627
StyD4I	CCNGG	3 cut(s)	77, 248, 418
StyI	CCWWGG	1 cut(s)	539
TaaI	ACNGT	3 cut(s)	59, 184, 434
TaiI	ACGT	2 cut(s)	162, 337
TaqI	TCGA	3 cut(s)	262, 274, 401
TasI	AATT	3 cut(s)	107, 140, 546
TatI	WGTACW	1 cut(s)	13
TauI	GCSGC	1 cut(s)	492
TfiI	GAWTC	1 cut(s)	371
TseFI	GTSAC	2 cut(s)	53, 155
TseI	GCWGC	2 cut(s)	128, 357
Tsp45I	GTSAC	2 cut(s)	53, 155
TspDTI	ATGAA	1 cut(s)	603
Van91I	CCANNNNNTGG	1 cut(s)	476
VpaK11BI	GGWCC	2 cut(s)	239, 512
XapI	RAATTY	1 cut(s)	140
XmiI	GTMKAC	1 cut(s)	262
XspI	CTAG	1 cut(s)	627
ZrmI	AGTACT	1 cut(s)	15

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