Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002205

Physical Location & Seq

Genomic Coordinates Forward (+)

23822098 .. 23824401

Gene Structure 2304 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG243900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 615 bp

ATGAGGGGGAGAAGCTACAGTTACAGCCCTTCACCGCCGAGAGGTTACAGCAGACGACGTCGTAGCCCTAGCCCTAGAGGCCGCTATGGAGGAGGCCGTGCTAGGGATCTTCCCACCAGTCTTTTGGTTCGCAATCTTCGCCATGACTGCCGGCCTGAGGATTTACGTGGGCCGTTCGGGCAATTTGGTCCCCTCAAGGACATCTACTTGCCTAGGGATTATTATACTGGGGATCCACGTGGCTTTGGATTTGTTCAGTTTGTAGACCCTGCTGATGCTGCCGATGCCAAGCACCATATGGATGGGCAAATTCTTCTTGGGCGGGAATTGACAGTTGTATTTGCTGAGGAGAATAGGAAGAAACCCTCGGAAATGAAGGCAAGAGACCGGGGTCAGTCATATGATAGCAGGCGGAGCATTTATTCTCGTTCACCACGCTATGCTCGAACCTACTCTCGAAGTCCAGGTTATTATTCACCCTCCCCTAGGAGAAGGCGGTACTCAAGTCGGCTCGAATTTGCCTTCAAAGTTAAGCCAACTGCCTTCCCAAGGTTTGTTCAGACTTTGTTTTATGATGATCAACTGTTCTGTTTGAATCGTCCCATGGTTCTGTAA

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

204

Amino Acids

23.82

Weight (kDa)

10.53

Isoelectric Point (pI)

80.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	41 - 110	3e-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
AccI	GTMKAC	1 cut(s)	264
AciI	CCGC	5 cut(s)	35, 82, 322, 412, 496
AclWI	GGATC	3 cut(s)	114, 227, 240
AcsI	RAATTY	2 cut(s)	309, 515
AcvI	CACGTG	1 cut(s)	239
AcyI	GRCGYC	1 cut(s)	58
AfaI	GTAC	1 cut(s)	500
AfiI	CCNNNNNNNGG	5 cut(s)	41, 103, 157, 486, 549
AgsI	TTSAA	2 cut(s)	526, 595
AjnI	CCWGG	1 cut(s)	463
AluBI	AGCT	1 cut(s)	15
AluI	AGCT	1 cut(s)	15
Alw26I	GTCTC	1 cut(s)	378
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	2 cut(s)	309, 515
AspA2I	CCTAGG	2 cut(s)	212, 485
AspS9I	GGNCC	2 cut(s)	170, 188
AsuC2I	CCSGG	1 cut(s)	389
AsuHPI	GGTGA	3 cut(s)	24, 423, 468
AvaII	GGWCC	1 cut(s)	188
AvrII	CCTAGG	2 cut(s)	212, 485
AxyI	CCTNAGG	1 cut(s)	156
BaeI	ACNNNNGTAYC	2 cut(s)	490, 523
BamHI	GGATCC	1 cut(s)	232
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	1 cut(s)	465
BclI	TGATCA	1 cut(s)	577
BcnI	CCSGG	1 cut(s)	389
BcoDI	GTCTC	1 cut(s)	378
BfaI	CTAG	5 cut(s)	69, 75, 102, 213, 486
BfmI	CTRYAG	1 cut(s)	16
BglI	GCCNNNNNGGC	2 cut(s)	78, 178
BisI	GCNGC	2 cut(s)	82, 279
BlnI	CCTAGG	2 cut(s)	212, 485
BlsI	GCNGC	2 cut(s)	83, 280
Bme1390I	CCNGG	2 cut(s)	389, 465
Bme18I	GGWCC	1 cut(s)	188
BmgT120I	GGNCC	2 cut(s)	170, 188
BmiI	GGNNCC	2 cut(s)	190, 234
BmrFI	CCNGG	2 cut(s)	389, 465
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	2 cut(s)	179, 487
BpuMI	CCSGG	1 cut(s)	389
BsaAI	YACGTR	2 cut(s)	167, 239
BsaHI	GRCGYC	1 cut(s)	58
BsaI	GGTCTC	1 cut(s)	378
BsaJI	CCNNGG	6 cut(s)	212, 366, 388, 485, 548, 603
Bsc4I	CCNNNNNNNGG	5 cut(s)	41, 103, 157, 486, 549
Bse118I	RCCGGY	1 cut(s)	150
Bse1I	ACTGG	2 cut(s)	117, 232
Bse21I	CCTNAGG	1 cut(s)	156
BseBI	CCWGG	1 cut(s)	465
BseDI	CCNNGG	6 cut(s)	212, 366, 388, 485, 548, 603
BseGI	GGATG	1 cut(s)	307
BseLI	CCNNNNNNNGG	5 cut(s)	41, 103, 157, 486, 549
BseMII	CTCAG	2 cut(s)	147, 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
BsiSI	CCGG	2 cut(s)	151, 388
BslFI	GGGAC	2 cut(s)	174, 585
BslI	CCNNNNNNNGG	5 cut(s)	41, 103, 157, 486, 549
BsmAI	GTCTC	1 cut(s)	378
BsmFI	GGGAC	2 cut(s)	174, 585
BsnI	GGCC	4 cut(s)	81, 96, 154, 172
Bso31I	GGTCTC	1 cut(s)	378
Bsp143I	GATC	3 cut(s)	106, 232, 577
Bsp19I	CCATGG	1 cut(s)	603
BspACI	CCGC	5 cut(s)	35, 82, 322, 412, 496
BspANI	GGCC	4 cut(s)	81, 96, 154, 172
BspCNI	CTCAG	2 cut(s)	148, 337
BspLI	GGNNCC	2 cut(s)	190, 234
BspPI	GGATC	3 cut(s)	114, 227, 240
BspTNI	GGTCTC	1 cut(s)	378
BsrFI	RCCGGY	1 cut(s)	150
BsrI	ACTGG	2 cut(s)	117, 232
BssAI	RCCGGY	1 cut(s)	150
BssECI	CCNNGG	6 cut(s)	212, 366, 388, 485, 548, 603
BssMI	GATC	3 cut(s)	106, 232, 577
BssNI	GRCGYC	1 cut(s)	58
BssT1I	CCWWGG	4 cut(s)	212, 485, 548, 603
Bst2UI	CCWGG	1 cut(s)	465
Bst4CI	ACNGT	3 cut(s)	20, 334, 585
BstACI	GRCGYC	1 cut(s)	58
BstBAI	YACGTR	2 cut(s)	167, 239
BstC8I	GCNNGC	2 cut(s)	152, 410
BstDEI	CTNAG	2 cut(s)	156, 345
BstDSI	CCRYGG	1 cut(s)	603
BstENI	CCTNNNNNAGG	2 cut(s)	484, 547
BstF5I	GGATG	1 cut(s)	307
BstKTI	GATC	3 cut(s)	109, 235, 580
BstMAI	GTCTC	1 cut(s)	378
BstMBI	GATC	3 cut(s)	106, 232, 577
BstMWI	GCNNNNNNNGC	7 cut(s)	78, 138, 147, 178, 278, 284, 414
BstNI	CCWGG	1 cut(s)	465
BstPAI	GACNNNNGTC	1 cut(s)	390
BstSCI	CCNGG	2 cut(s)	387, 463
BstSFI	CTRYAG	1 cut(s)	16
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
Bsu36I	CCTNAGG	1 cut(s)	156
BsuRI	GGCC	4 cut(s)	81, 96, 154, 172
BtgI	CCRYGG	1 cut(s)	603
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	1 cut(s)	499
CviAII	CATG	2 cut(s)	143, 604
CviQI	GTAC	1 cut(s)	499
DdeI	CTNAG	2 cut(s)	156, 345
DpnI	GATC	3 cut(s)	108, 234, 579
DpnII	GATC	3 cut(s)	106, 232, 577
EciI	GGCGGA	1 cut(s)	427
Eco130I	CCWWGG	4 cut(s)	212, 485, 548, 603
Eco31I	GGTCTC	1 cut(s)	378
Eco47I	GGWCC	1 cut(s)	188
Eco72I	CACGTG	1 cut(s)	239
Eco81I	CCTNAGG	1 cut(s)	156
EcoNI	CCTNNNNNAGG	2 cut(s)	484, 547
EcoRII	CCWGG	1 cut(s)	463
EcoT14I	CCWWGG	4 cut(s)	212, 485, 548, 603
ErhI	CCWWGG	4 cut(s)	212, 485, 548, 603
FaeI	CATG	2 cut(s)	146, 607
FaqI	GGGAC	2 cut(s)	174, 585
FatI	CATG	2 cut(s)	142, 603
FauI	CCCGC	1 cut(s)	315
FauNDI	CATATG	2 cut(s)	297, 400
FbaI	TGATCA	1 cut(s)	577
FblI	GTMKAC	1 cut(s)	264
Fnu4HI	GCNGC	2 cut(s)	82, 279
FokI	GGATG	1 cut(s)	314
Fsp4HI	GCNGC	2 cut(s)	82, 279
FspBI	CTAG	5 cut(s)	69, 75, 102, 213, 486
GluI	GCNGC	2 cut(s)	82, 279
HaeIII	GGCC	4 cut(s)	81, 96, 154, 172
HapII	CCGG	2 cut(s)	151, 388
Hin1I	GRCGYC	1 cut(s)	58
Hin1II	CATG	2 cut(s)	146, 607
HinfI	GANTC	1 cut(s)	595
HpaII	CCGG	2 cut(s)	151, 388
HphI	GGTGA	3 cut(s)	24, 423, 468
Hpy166II	GTNNAC	2 cut(s)	265, 431
Hpy188I	TCNGA	2 cut(s)	370, 561
Hpy188III	TCNNGA	1 cut(s)	456
Hpy8I	GTNNAC	2 cut(s)	265, 431
Hpy99I	CGWCG	2 cut(s)	60, 63
HpyAV	CCTTC	5 cut(s)	39, 370, 486, 532, 553
HpyCH4III	ACNGT	3 cut(s)	20, 334, 585
HpyCH4IV	ACGT	3 cut(s)	58, 166, 238
HpyF10VI	GCNNNNNNNGC	7 cut(s)	78, 138, 147, 178, 278, 284, 414
HpyF3I	CTNAG	2 cut(s)	156, 345
HpySE526I	ACGT	3 cut(s)	58, 166, 238
Hsp92I	GRCGYC	1 cut(s)	58
Hsp92II	CATG	2 cut(s)	146, 607
KroI	GCCGGC	1 cut(s)	150
KroNI	GCCGGC	1 cut(s)	152
Ksp22I	TGATCA	1 cut(s)	577
Kzo9I	GATC	3 cut(s)	106, 232, 577
LmnI	GCTCC	1 cut(s)	414
LpnPI	CCDG	9 cut(s)	130, 164, 168, 213, 282, 394, 401, 450, 477
Lsp1109I	GCAGC	1 cut(s)	265
LweI	GCATC	2 cut(s)	265, 274
MaeI	CTAG	5 cut(s)	69, 75, 102, 213, 486
MaeII	ACGT	3 cut(s)	58, 166, 238
MaeIII	GTNAC	2 cut(s)	20, 44
MalI	GATC	3 cut(s)	108, 234, 579
MboI	GATC	3 cut(s)	106, 232, 577
MboII	GAAGA	4 cut(s)	101, 128, 305, 370
MflI	RGATCY	2 cut(s)	106, 232
MluCI	AATT	4 cut(s)	182, 309, 326, 515
MnlI	CCTC	9 cut(s)	35, 71, 83, 86, 151, 203, 340, 376, 490
MroNI	GCCGGC	1 cut(s)	150
MseI	TTAA	1 cut(s)	531
MslI	CAYNNNNRTG	1 cut(s)	300
MspI	CCGG	2 cut(s)	151, 388
MspR9I	CCNGG	2 cut(s)	389, 465
MvaI	CCWGG	1 cut(s)	465
MwoI	GCNNNNNNNGC	7 cut(s)	78, 138, 147, 178, 278, 284, 414
NaeI	GCCGGC	1 cut(s)	152
NciI	CCSGG	1 cut(s)	389
NcoI	CCATGG	1 cut(s)	603
NdeI	CATATG	2 cut(s)	297, 400
NdeII	GATC	3 cut(s)	106, 232, 577
NgoMIV	GCCGGC	1 cut(s)	150
NlaIII	CATG	2 cut(s)	146, 607
NlaIV	GGNNCC	2 cut(s)	190, 234
NmeAIII	GCCGAG	1 cut(s)	63
PcsI	WCGNNNNNNNCGW	1 cut(s)	442
PdiI	GCCGGC	1 cut(s)	152
PfeI	GAWTC	1 cut(s)	595
PflFI	GACNNNGTC	1 cut(s)	57
PkrI	GCNGC	2 cut(s)	83, 280
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	1 cut(s)	463
PspCI	CACGTG	1 cut(s)	239
PspGI	CCWGG	1 cut(s)	463
PspN4I	GGNNCC	2 cut(s)	190, 234
PspPI	GGNCC	2 cut(s)	170, 188
PsuI	RGATCY	2 cut(s)	106, 232
PsyI	GACNNNGTC	1 cut(s)	57
RsaI	GTAC	1 cut(s)	500
RsaNI	GTAC	1 cut(s)	499
RseI	CAYNNNNRTG	1 cut(s)	300
SaqAI	TTAA	1 cut(s)	531
SatI	GCNGC	2 cut(s)	82, 279
Sau3AI	GATC	3 cut(s)	106, 232, 577
Sau96I	GGNCC	2 cut(s)	170, 188
ScrFI	CCNGG	2 cut(s)	389, 465
SetI	ASST	8 cut(s)	17, 46, 61, 169, 241, 452, 469, 554
SfaNI	GCATC	2 cut(s)	265, 274
SfcI	CTRYAG	1 cut(s)	16
SinI	GGWCC	1 cut(s)	188
SmiMI	CAYNNNNRTG	1 cut(s)	300
SmlI	CTYRAG	2 cut(s)	194, 502
SmoI	CTYRAG	2 cut(s)	194, 502
Sse9I	AATT	4 cut(s)	182, 309, 326, 515
SsiI	CCGC	5 cut(s)	35, 82, 322, 412, 496
SspMI	CTAG	5 cut(s)	69, 75, 102, 213, 486
StyD4I	CCNGG	2 cut(s)	387, 463
StyI	CCWWGG	4 cut(s)	212, 485, 548, 603
TaaI	ACNGT	3 cut(s)	20, 334, 585
TaiI	ACGT	3 cut(s)	61, 169, 241
TaqI	TCGA	3 cut(s)	445, 457, 513
TasI	AATT	4 cut(s)	182, 309, 326, 515
TauI	GCSGC	1 cut(s)	84
TfiI	GAWTC	1 cut(s)	595
Tru1I	TTAA	1 cut(s)	531
Tru9I	TTAA	1 cut(s)	531
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	2 cut(s)	484, 547
XapI	RAATTY	2 cut(s)	309, 515
XcmI	CCANNNNNNNNNTGG	2 cut(s)	121, 295
XmaJI	CCTAGG	2 cut(s)	212, 485
XmiI	GTMKAC	1 cut(s)	264
XspI	CTAG	5 cut(s)	69, 75, 102, 213, 486
ZraI	GACGTC	1 cut(s)	59

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