Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0002205

Physical Location & Seq

Genomic Coordinates Forward (+)

23969223 .. 23973780

Gene Structure 4558 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG247600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGAGGGGGGGAAGCTACAGTTACAGCCCTTCACCGCCGAGAGGTTACAGCAGACGACGTCGTAGCCCTAGCCCTAGAGGCCGCTATGGAGGAGGCCGTGCTAGGGATCTTCCCACCAGTCTTTTGGTTCGCAATCTTCGCCATGACTGCCGGCCTGAAGATTTACGTGGGCCGTTCGGGCAATTTGGTCCCCTCAAGGACATCTACTTGCCTAGGGATTATTATACTGGGGATCCACGTGGCTTTGGATTTGTTCAGTTTGTAGACCCTGCTGATGCTGCAGATGCCAAGCACCATATGGATGGGCAAATTCTTCTTGGGCGGGAATTGACAGTTGTATTTGCTGAGGAGAATAGGAAGAAACCCTCGGAAATGAAGGCAAGAGACCGGGGTCAGTCATATGATAGCAGGCGGAGCATTTATTCTCGTTCACCACGCTATGCTCAAACCTACTCTCGAAGTCCAGGTTATTATTCACCCTCCCCTAGGAGAAGGCGGTACTCAAGGTCGATTTCACCAAGAGGTAGGAGGTACCGGGAGCGATCATACTCAAGGTCTCCCTATGGTTCAAGGAGCCGCAGTCGAAGTTGGAGCTATAGCAGGAGCCGCAGTCGAAGCCTGGACTACTCTCGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000244 GO:0000245 GO:0000375 GO:0000377 GO:0000381 GO:0000387 GO:0000395 GO:0000398 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006376 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016043 GO:0016070 GO:0016071 GO:0019219 GO:0019222 GO:0019904 GO:0022607 GO:0022613 GO:0022618 GO:0031323 GO:0031324 GO:0031974 GO:0031981 GO:0033119 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043484 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045292 GO:0045934 GO:0046483 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050733 GO:0050789 GO:0050794 GO:0051082 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065003 GO:0065007 GO:0070013 GO:0071704 GO:0071826 GO:0071840 GO:0080090 GO:0090304 GO:1901360 GO:1903311 GO:1903312

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

RRM_1

Protein Analysis

211

Amino Acids

24.65

Weight (kDa)

11.1

Isoelectric Point (pI)

103.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	41 - 110	3.2e-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)

Image

Tree File

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Publication-ready

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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)
AatII	GACGTC	1 cut(s)	61
Acc65I	GGTACC	1 cut(s)	531
AccB1I	GGYRCC	1 cut(s)	531
AccI	GTMKAC	1 cut(s)	264
AciI	CCGC	7 cut(s)	35, 82, 322, 412, 496, 577, 607
AclWI	GGATC	3 cut(s)	114, 227, 240
AcsI	RAATTY	1 cut(s)	309
AcuI	CTGAAG	1 cut(s)	177
AcvI	CACGTG	1 cut(s)	239
AcyI	GRCGYC	1 cut(s)	58
AfaI	GTAC	2 cut(s)	500, 533
AfiI	CCNNNNNNNGG	3 cut(s)	41, 103, 486
AgsI	TTSAA	1 cut(s)	570
AjnI	CCWGG	2 cut(s)	463, 618
AluBI	AGCT	2 cut(s)	15, 594
AluI	AGCT	2 cut(s)	15, 594
Alw26I	GTCTC	2 cut(s)	378, 561
AlwI	GGATC	3 cut(s)	114, 227, 240
AoxI	GGCC	4 cut(s)	79, 94, 152, 170
ApeKI	GCWGC	1 cut(s)	278
ApoI	RAATTY	1 cut(s)	309
Asp718I	GGTACC	1 cut(s)	531
AspA2I	CCTAGG	2 cut(s)	212, 485
AspS9I	GGNCC	2 cut(s)	170, 188
AsuC2I	CCSGG	2 cut(s)	389, 536
AsuHPI	GGTGA	4 cut(s)	24, 423, 468, 507
AvaII	GGWCC	1 cut(s)	188
AvrII	CCTAGG	2 cut(s)	212, 485
BamHI	GGATCC	1 cut(s)	232
BanI	GGYRCC	1 cut(s)	531
BbrPI	CACGTG	1 cut(s)	239
BbvCI	CCTCAGC	1 cut(s)	345
BbvI	GCAGC	1 cut(s)	265
BccI	CCATC	1 cut(s)	296
BceAI	ACGGC	2 cut(s)	81, 157
BciT130I	CCWGG	2 cut(s)	465, 620
BcnI	CCSGG	2 cut(s)	389, 536
BcoDI	GTCTC	2 cut(s)	378, 561
BfaI	CTAG	6 cut(s)	69, 75, 102, 213, 486, 634
BfmI	CTRYAG	3 cut(s)	16, 279, 595
BglI	GCCNNNNNGGC	2 cut(s)	78, 178
BisI	GCNGC	4 cut(s)	82, 279, 577, 607
BlnI	CCTAGG	2 cut(s)	212, 485
BlsI	GCNGC	4 cut(s)	83, 280, 578, 608
Bme1390I	CCNGG	4 cut(s)	389, 465, 536, 620
Bme18I	GGWCC	1 cut(s)	188
BmgT120I	GGNCC	2 cut(s)	170, 188
BmiI	GGNNCC	5 cut(s)	190, 234, 533, 575, 605
BmrFI	CCNGG	4 cut(s)	389, 465, 536, 620
BmrI	ACTGGG	1 cut(s)	237
BmsI	GCATC	2 cut(s)	265, 274
BmuI	ACTGGG	1 cut(s)	237
BoxI	GACNNNNGTC	1 cut(s)	390
Bpu10I	CCTNAGC	1 cut(s)	345
BpuEI	CTTGAG	3 cut(s)	179, 487, 535
BpuMI	CCSGG	2 cut(s)	389, 536
BsaAI	YACGTR	2 cut(s)	167, 239
BsaHI	GRCGYC	1 cut(s)	58
BsaI	GGTCTC	2 cut(s)	378, 561
BsaJI	CCNNGG	4 cut(s)	212, 366, 388, 485
BsaXI	ACNNNNNCTCC	4 cut(s)	565, 595, 595, 625
Bsc4I	CCNNNNNNNGG	3 cut(s)	41, 103, 486
Bse118I	RCCGGY	1 cut(s)	150
Bse1I	ACTGG	2 cut(s)	117, 232
BseBI	CCWGG	2 cut(s)	465, 620
BseDI	CCNNGG	4 cut(s)	212, 366, 388, 485
BseGI	GGATG	1 cut(s)	307
BseLI	CCNNNNNNNGG	3 cut(s)	41, 103, 486
BseMII	CTCAG	1 cut(s)	336
BseNI	ACTGG	2 cut(s)	117, 232
BseRI	GAGGAG	2 cut(s)	105, 362
BseXI	GCAGC	1 cut(s)	265
BshFI	GGCC	4 cut(s)	81, 96, 154, 172
BshNI	GGYRCC	1 cut(s)	531
BsiSI	CCGG	3 cut(s)	151, 388, 535
BslFI	GGGAC	1 cut(s)	174
BslI	CCNNNNNNNGG	3 cut(s)	41, 103, 486
BsmAI	GTCTC	2 cut(s)	378, 561
BsmFI	GGGAC	1 cut(s)	174
BsnI	GGCC	4 cut(s)	81, 96, 154, 172
Bso31I	GGTCTC	2 cut(s)	378, 561
Bsp143I	GATC	3 cut(s)	106, 232, 542
BspACI	CCGC	7 cut(s)	35, 82, 322, 412, 496, 577, 607
BspANI	GGCC	4 cut(s)	81, 96, 154, 172
BspCNI	CTCAG	1 cut(s)	337
BspLI	GGNNCC	5 cut(s)	190, 234, 533, 575, 605
BspMAI	CTGCAG	1 cut(s)	283
BspPI	GGATC	3 cut(s)	114, 227, 240
BspT107I	GGYRCC	1 cut(s)	531
BspTNI	GGTCTC	2 cut(s)	378, 561
BsrFI	RCCGGY	1 cut(s)	150
BsrI	ACTGG	2 cut(s)	117, 232
BssAI	RCCGGY	1 cut(s)	150
BssECI	CCNNGG	4 cut(s)	212, 366, 388, 485
BssMI	GATC	3 cut(s)	106, 232, 542
BssNI	GRCGYC	1 cut(s)	58
BssT1I	CCWWGG	2 cut(s)	212, 485
Bst2UI	CCWGG	2 cut(s)	465, 620
Bst4CI	ACNGT	2 cut(s)	20, 334
BstACI	GRCGYC	1 cut(s)	58
BstBAI	YACGTR	2 cut(s)	167, 239
BstC8I	GCNNGC	2 cut(s)	152, 410
BstDEI	CTNAG	1 cut(s)	345
BstENI	CCTNNNNNAGG	1 cut(s)	484
BstF5I	GGATG	1 cut(s)	307
BstKTI	GATC	3 cut(s)	109, 235, 545
BstMAI	GTCTC	2 cut(s)	378, 561
BstMBI	GATC	3 cut(s)	106, 232, 542
BstMWI	GCNNNNNNNGC	9 cut(s)	78, 138, 147, 178, 278, 284, 414, 606, 615
BstNI	CCWGG	2 cut(s)	465, 620
BstPAI	GACNNNNGTC	1 cut(s)	390
BstSCI	CCNGG	4 cut(s)	387, 463, 534, 618
BstSFI	CTRYAG	3 cut(s)	16, 279, 595
BstV1I	GCAGC	1 cut(s)	265
BstX2I	RGATCY	2 cut(s)	106, 232
BstXI	CCANNNNNNTGG	2 cut(s)	124, 302
BstYI	RGATCY	2 cut(s)	106, 232
BsuRI	GGCC	4 cut(s)	81, 96, 154, 172
BtsCI	GGATG	1 cut(s)	307
Cac8I	GCNNGC	2 cut(s)	152, 410
Cfr10I	RCCGGY	1 cut(s)	150
Cfr13I	GGNCC	2 cut(s)	170, 188
Csp6I	GTAC	2 cut(s)	499, 532
CviAII	CATG	1 cut(s)	143
CviQI	GTAC	2 cut(s)	499, 532
DdeI	CTNAG	1 cut(s)	345
DpnI	GATC	3 cut(s)	108, 234, 544
DpnII	GATC	3 cut(s)	106, 232, 542
EciI	GGCGGA	1 cut(s)	427
Eco130I	CCWWGG	2 cut(s)	212, 485
Eco31I	GGTCTC	2 cut(s)	378, 561
Eco47I	GGWCC	1 cut(s)	188
Eco57I	CTGAAG	1 cut(s)	177
Eco72I	CACGTG	1 cut(s)	239
EcoNI	CCTNNNNNAGG	1 cut(s)	484
EcoRII	CCWGG	2 cut(s)	463, 618
EcoT14I	CCWWGG	2 cut(s)	212, 485
ErhI	CCWWGG	2 cut(s)	212, 485
FaeI	CATG	1 cut(s)	146
FaqI	GGGAC	1 cut(s)	174
FatI	CATG	1 cut(s)	142
FauI	CCCGC	1 cut(s)	315
FauNDI	CATATG	2 cut(s)	297, 400
FblI	GTMKAC	1 cut(s)	264
Fnu4HI	GCNGC	4 cut(s)	82, 279, 577, 607
FokI	GGATG	1 cut(s)	314
Fsp4HI	GCNGC	4 cut(s)	82, 279, 577, 607
FspBI	CTAG	6 cut(s)	69, 75, 102, 213, 486, 634
GluI	GCNGC	4 cut(s)	82, 279, 577, 607
HaeIII	GGCC	4 cut(s)	81, 96, 154, 172
HapII	CCGG	3 cut(s)	151, 388, 535
Hin1I	GRCGYC	1 cut(s)	58
Hin1II	CATG	1 cut(s)	146
HpaII	CCGG	3 cut(s)	151, 388, 535
HphI	GGTGA	4 cut(s)	24, 423, 468, 507
Hpy166II	GTNNAC	2 cut(s)	265, 431
Hpy188I	TCNGA	1 cut(s)	370
Hpy188III	TCNNGA	1 cut(s)	456
Hpy8I	GTNNAC	2 cut(s)	265, 431
Hpy99I	CGWCG	2 cut(s)	60, 63
HpyAV	CCTTC	3 cut(s)	39, 370, 486
HpyCH4III	ACNGT	2 cut(s)	20, 334
HpyCH4IV	ACGT	3 cut(s)	58, 166, 238
HpyCH4V	TGCA	1 cut(s)	281
HpyF10VI	GCNNNNNNNGC	9 cut(s)	78, 138, 147, 178, 278, 284, 414, 606, 615
HpyF3I	CTNAG	1 cut(s)	345
HpySE526I	ACGT	3 cut(s)	58, 166, 238
Hsp92I	GRCGYC	1 cut(s)	58
Hsp92II	CATG	1 cut(s)	146
KpnI	GGTACC	1 cut(s)	535
KroI	GCCGGC	1 cut(s)	150
KroNI	GCCGGC	1 cut(s)	152
Kzo9I	GATC	3 cut(s)	106, 232, 542
LmnI	GCTCC	5 cut(s)	414, 538, 573, 591, 603
Lsp1109I	GCAGC	1 cut(s)	265
LweI	GCATC	2 cut(s)	265, 274
MaeI	CTAG	6 cut(s)	69, 75, 102, 213, 486, 634
MaeII	ACGT	3 cut(s)	58, 166, 238
MaeIII	GTNAC	2 cut(s)	20, 44
MalI	GATC	3 cut(s)	108, 234, 544
MboI	GATC	3 cut(s)	106, 232, 542
MboII	GAAGA	5 cut(s)	101, 128, 170, 305, 370
MflI	RGATCY	2 cut(s)	106, 232
MluCI	AATT	3 cut(s)	182, 309, 326
MmeI	TCCRAC	1 cut(s)	569
MroNI	GCCGGC	1 cut(s)	150
MslI	CAYNNNNRTG	1 cut(s)	300
MspI	CCGG	3 cut(s)	151, 388, 535
MspR9I	CCNGG	4 cut(s)	389, 465, 536, 620
MvaI	CCWGG	2 cut(s)	465, 620
MwoI	GCNNNNNNNGC	9 cut(s)	78, 138, 147, 178, 278, 284, 414, 606, 615
NaeI	GCCGGC	1 cut(s)	152
NciI	CCSGG	2 cut(s)	389, 536
NdeI	CATATG	2 cut(s)	297, 400
NdeII	GATC	3 cut(s)	106, 232, 542
NgoMIV	GCCGGC	1 cut(s)	150
NlaIII	CATG	1 cut(s)	146
NlaIV	GGNNCC	5 cut(s)	190, 234, 533, 575, 605
NmeAIII	GCCGAG	1 cut(s)	63
PdiI	GCCGGC	1 cut(s)	152
PflFI	GACNNNGTC	1 cut(s)	57
PkrI	GCNGC	4 cut(s)	83, 280, 578, 608
PmaCI	CACGTG	1 cut(s)	239
PmlI	CACGTG	1 cut(s)	239
Ppu21I	YACGTR	2 cut(s)	167, 239
PshAI	GACNNNNGTC	1 cut(s)	390
Psp6I	CCWGG	2 cut(s)	463, 618
PspCI	CACGTG	1 cut(s)	239
PspGI	CCWGG	2 cut(s)	463, 618
PspN4I	GGNNCC	5 cut(s)	190, 234, 533, 575, 605
PspPI	GGNCC	2 cut(s)	170, 188
PstI	CTGCAG	1 cut(s)	283
PsuI	RGATCY	2 cut(s)	106, 232
PsyI	GACNNNGTC	1 cut(s)	57
RsaI	GTAC	2 cut(s)	500, 533
RsaNI	GTAC	2 cut(s)	499, 532
RseI	CAYNNNNRTG	1 cut(s)	300
SatI	GCNGC	4 cut(s)	82, 279, 577, 607
Sau3AI	GATC	3 cut(s)	106, 232, 542
Sau96I	GGNCC	2 cut(s)	170, 188
ScrFI	CCNGG	4 cut(s)	389, 465, 536, 620
SfaNI	GCATC	2 cut(s)	265, 274
SfcI	CTRYAG	3 cut(s)	16, 279, 595
SinI	GGWCC	1 cut(s)	188
SmiMI	CAYNNNNRTG	1 cut(s)	300
SmlI	CTYRAG	3 cut(s)	194, 502, 550
SmoI	CTYRAG	3 cut(s)	194, 502, 550
Sse9I	AATT	3 cut(s)	182, 309, 326
SsiI	CCGC	7 cut(s)	35, 82, 322, 412, 496, 577, 607
SspMI	CTAG	6 cut(s)	69, 75, 102, 213, 486, 634
StyD4I	CCNGG	4 cut(s)	387, 463, 534, 618
StyI	CCWWGG	2 cut(s)	212, 485
TaaI	ACNGT	2 cut(s)	20, 334
TaiI	ACGT	3 cut(s)	61, 169, 241
TaqI	TCGA	4 cut(s)	457, 509, 583, 613
TasI	AATT	3 cut(s)	182, 309, 326
TauI	GCSGC	3 cut(s)	84, 579, 609
TseI	GCWGC	1 cut(s)	278
TspDTI	ATGAA	1 cut(s)	389
Tth111I	GACNNNGTC	1 cut(s)	57
VpaK11BI	GGWCC	1 cut(s)	188
XagI	CCTNNNNNAGG	1 cut(s)	484
XapI	RAATTY	1 cut(s)	309
XcmI	CCANNNNNNNNNTGG	2 cut(s)	121, 295
XmaJI	CCTAGG	2 cut(s)	212, 485
XmiI	GTMKAC	1 cut(s)	264
XspI	CTAG	6 cut(s)	69, 75, 102, 213, 486, 634
ZraI	GACGTC	1 cut(s)	59

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