Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0007169

Physical Location & Seq

Genomic Coordinates Forward (+)

52708561 .. 52713051

Gene Structure 4491 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG226100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 660 bp

ATGGCCAGGTACCGGAGCCGCAGCCGCAGCCTGAGCAGAAGCTACAGCCCCCCTCGCCGGCGTAGCAGAACTCCGCCACGTGGACGCAAGCGATACGACGAAGACGAGCCTCGCGACCGCTACCGTGACAGCCGCTCTTACCGAGACCGCCGCTCACCGGCTCCGTCTGGCTTGCTCGTTCGCAATCTTCCTCTTGACGCTCGGTCAGATGATCTTAGGATCCCTTTTGAGCGCTTTGGTCCAGTGAAGGATGTGTATCTTCCTAAGAATTACTACACCAGGGAGCCACGGGGCTTTGGCTTTGTGAAGTACCGTTATGCAGAGGACGCAGCGGAAGCAAAGCAACAAATGAACCATAAACTTATTGGTGGACGTGAAATAAGGATTGTTTTTGCTGAGGAGAACAGAAAAACTCCCCAAGAAATGCGCACAACAACTCGTGTAAGTGAAGGAAGCTCTAGAAGAAGAAGAACTCCACCTAGGTCTCCAAGACGGCAATATCGTTCCTACTCCCAGTCAGTTTCACCTCTTAGGCGCGACTCAAGGTCTGTATATTATCTCCAGAAGTTTATGCTACATTTTTATAATATTGTAGTTATCTGCACCATATGCGTGGTTGTTTTCTCTGAAAAATTTGCTGTGCTCCTTTTTTGGTGTTAA

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:0016604 GO:0016607 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:0044451 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

219

Amino Acids

26.31

Weight (kDa)

10.87

Isoelectric Point (pI)

96.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	58 - 128	5.4e-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: OG0007169)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18810 AT5G18810
fragaria_vesca	FvH4_4g16920 FvH4_4g16920 FvH4_4g16920 FvH4_4g16920
malus_domestica	MD13G1175700.v1.1 MD16G1177500.v1.1
prunus_persica	Prupe.1G144400_v2.0.a1
pyrus_communis	pycom13g15140 pycom16g14890
rosa_chinensis	RchiOBHm_Chr4g0420501
rosa_laevigata	RLG00000007756
rosa_multiflora	Rmu_sc0002248.1_g000049 Rmu_sc0009913.1_g000001 Rmu_sc0020995.1_g000014
rosa_roxburghii	Rroxscaffold_5G00363120
rosa_rugosa	Rorug04G0164400 Rorug04G0164500 Rorug04G0164600
rosa_samantha	Rh4AG226100 Rh4BG228700 Rh4CG240400 Rh4DG224400
rosa_wichuraiana	Rw4G019510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	585
Acc16I	TGCGCA	1 cut(s)	428
Acc65I	GGTACC	1 cut(s)	9
AccB1I	GGYRCC	1 cut(s)	9
AccBSI	CCGCTC	2 cut(s)	135, 153
AccII	CGCG	2 cut(s)	114, 537
AciI	CCGC	8 cut(s)	19, 25, 74, 118, 133, 148, 151, 332
AclWI	GGATC	2 cut(s)	214, 227
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	1 cut(s)	632
AcvI	CACGTG	1 cut(s)	80
AfaI	GTAC	2 cut(s)	11, 311
AfeI	AGCGCT	1 cut(s)	233
AfiI	CCNNNNNNNGG	4 cut(s)	12, 57, 80, 157
AhdI	GACNNNNNGTC	2 cut(s)	202, 544
AjiI	CACGTC	1 cut(s)	374
AjnI	CCWGG	2 cut(s)	5, 278
AluBI	AGCT	2 cut(s)	42, 456
AluI	AGCT	2 cut(s)	42, 456
Alw21I	GWGCWC	1 cut(s)	645
Alw26I	GTCTC	2 cut(s)	138, 489
AlwI	GGATC	2 cut(s)	214, 227
Aor51HI	AGCGCT	1 cut(s)	233
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	3 cut(s)	21, 27, 329
ApoI	RAATTY	1 cut(s)	632
Asp718I	GGTACC	1 cut(s)	9
AspA2I	CCTAGG	1 cut(s)	479
AspLEI	GCGC	3 cut(s)	234, 429, 537
AspS9I	GGNCC	1 cut(s)	239
AsuHPI	GGTGA	2 cut(s)	147, 516
AvaII	GGWCC	1 cut(s)	239
AvrII	CCTAGG	1 cut(s)	479
BalI	TGGCCA	1 cut(s)	5
BamHI	GGATCC	1 cut(s)	219
BanI	GGYRCC	1 cut(s)	9
BauI	CACGAG	1 cut(s)	438
BbrPI	CACGTG	1 cut(s)	80
BbsI	GAAGAC	1 cut(s)	108
Bbv12I	GWGCWC	1 cut(s)	645
BbvCI	CCTCAGC	1 cut(s)	396
BbvI	GCAGC	3 cut(s)	33, 39, 341
BceAI	ACGGC	1 cut(s)	509
BciT130I	CCWGG	2 cut(s)	7, 280
BcoDI	GTCTC	2 cut(s)	138, 489
BfaI	CTAG	2 cut(s)	459, 480
BfmI	CTRYAG	1 cut(s)	43
BfoI	RGCGCY	1 cut(s)	235
BisI	GCNGC	7 cut(s)	19, 22, 25, 28, 133, 151, 330
BlnI	CCTAGG	1 cut(s)	479
BlsI	GCNGC	7 cut(s)	20, 23, 26, 29, 134, 152, 331
Bme1390I	CCNGG	2 cut(s)	7, 280
Bme18I	GGWCC	1 cut(s)	239
BmeRI	GACNNNNNGTC	2 cut(s)	202, 544
BmgBI	CACGTC	1 cut(s)	374
BmgT120I	GGNCC	1 cut(s)	239
BmiI	GGNNCC	5 cut(s)	11, 17, 162, 221, 285
BmrFI	CCNGG	2 cut(s)	7, 280
BmrI	ACTGGG	1 cut(s)	508
BmuI	ACTGGG	1 cut(s)	508
BpiI	GAAGAC	1 cut(s)	108
BpmI	CTGGAG	1 cut(s)	545
Bpu10I	CCTNAGC	2 cut(s)	32, 396
BpuEI	CTTGAG	1 cut(s)	526
BsaAI	YACGTR	1 cut(s)	80
BsaBI	GATNNNNATC	1 cut(s)	255
BsaI	GGTCTC	2 cut(s)	138, 489
BsaJI	CCNNGG	3 cut(s)	279, 287, 479
BsaWI	WCCGGW	1 cut(s)	12
Bsc4I	CCNNNNNNNGG	4 cut(s)	12, 57, 80, 157
Bse118I	RCCGGY	2 cut(s)	57, 157
Bse1I	ACTGG	2 cut(s)	242, 514
Bse8I	GATNNNNATC	1 cut(s)	255
BseBI	CCWGG	2 cut(s)	7, 280
BseDI	CCNNGG	3 cut(s)	279, 287, 479
BseGI	GGATG	1 cut(s)	256
BseJI	GATNNNNATC	1 cut(s)	255
BseLI	CCNNNNNNNGG	4 cut(s)	12, 57, 80, 157
BseMII	CTCAG	2 cut(s)	23, 387
BseNI	ACTGG	2 cut(s)	242, 514
BseRI	GAGGAG	1 cut(s)	413
BseXI	GCAGC	3 cut(s)	33, 39, 341
BsgI	GTGCAG	1 cut(s)	586
Bsh1236I	CGCG	2 cut(s)	114, 537
Bsh1285I	CGRYCG	1 cut(s)	118
BshFI	GGCC	1 cut(s)	5
BshNI	GGYRCC	1 cut(s)	9
BsiEI	CGRYCG	1 cut(s)	118
BsiHKAI	GWGCWC	1 cut(s)	645
BsiSI	CCGG	3 cut(s)	13, 58, 158
BslI	CCNNNNNNNGG	4 cut(s)	12, 57, 80, 157
BsmAI	GTCTC	2 cut(s)	138, 489
BsnI	GGCC	1 cut(s)	5
Bso31I	GGTCTC	2 cut(s)	138, 489
Bsp1286I	GDGCHC	1 cut(s)	645
Bsp143I	GATC	2 cut(s)	211, 219
Bsp68I	TCGCGA	1 cut(s)	114
BspACI	CCGC	8 cut(s)	19, 25, 74, 118, 133, 148, 151, 332
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	2 cut(s)	24, 388
BspFNI	CGCG	2 cut(s)	114, 537
BspLI	GGNNCC	5 cut(s)	11, 17, 162, 221, 285
BspPI	GGATC	2 cut(s)	214, 227
BspT107I	GGYRCC	1 cut(s)	9
BspTNI	GGTCTC	2 cut(s)	138, 489
BsrBI	CCGCTC	2 cut(s)	135, 153
BsrFI	RCCGGY	2 cut(s)	57, 157
BsrI	ACTGG	2 cut(s)	242, 514
BssAI	RCCGGY	2 cut(s)	57, 157
BssECI	CCNNGG	3 cut(s)	279, 287, 479
BssMI	GATC	2 cut(s)	211, 219
BssSI	CACGAG	1 cut(s)	438
BssT1I	CCWWGG	1 cut(s)	479
Bst2BI	CACGAG	1 cut(s)	438
Bst2UI	CCWGG	2 cut(s)	7, 280
Bst4CI	ACNGT	2 cut(s)	125, 314
BstAPI	GCANNNNNTGC	1 cut(s)	609
BstBAI	YACGTR	1 cut(s)	80
BstC8I	GCNNGC	3 cut(s)	59, 89, 173
BstDEI	CTNAG	5 cut(s)	32, 215, 264, 396, 530
BstDSI	CCRYGG	1 cut(s)	287
BstF5I	GGATG	1 cut(s)	256
BstFNI	CGCG	2 cut(s)	114, 537
BstH2I	RGCGCY	1 cut(s)	235
BstHHI	GCGC	3 cut(s)	234, 429, 537
BstKTI	GATC	2 cut(s)	214, 222
BstMAI	GTCTC	2 cut(s)	138, 489
BstMBI	GATC	2 cut(s)	211, 219
BstMCI	CGRYCG	1 cut(s)	118
BstMWI	GCNNNNNNNGC	8 cut(s)	24, 27, 33, 54, 63, 326, 335, 609
BstNI	CCWGG	2 cut(s)	7, 280
BstSCI	CCNGG	2 cut(s)	5, 278
BstSFI	CTRYAG	1 cut(s)	43
BstUI	CGCG	2 cut(s)	114, 537
BstV1I	GCAGC	3 cut(s)	33, 39, 341
BstV2I	GAAGAC	1 cut(s)	108
BstX2I	RGATCY	1 cut(s)	219
BstXI	CCANNNNNNTGG	1 cut(s)	613
BstYI	RGATCY	1 cut(s)	219
BsuRI	GGCC	1 cut(s)	5
BtgI	CCRYGG	1 cut(s)	287
BtrI	CACGTC	1 cut(s)	374
BtsCI	GGATG	1 cut(s)	256
BtsIMutI	CAGTG	1 cut(s)	249
BtuMI	TCGCGA	1 cut(s)	114
Cac8I	GCNNGC	3 cut(s)	59, 89, 173
CfoI	GCGC	3 cut(s)	234, 429, 537
Cfr10I	RCCGGY	2 cut(s)	57, 157
Cfr13I	GGNCC	1 cut(s)	239
CseI	GACGC	3 cut(s)	93, 206, 335
Csp6I	GTAC	2 cut(s)	10, 310
CviQI	GTAC	2 cut(s)	10, 310
DdeI	CTNAG	5 cut(s)	32, 215, 264, 396, 530
DpnI	GATC	2 cut(s)	213, 221
DpnII	GATC	2 cut(s)	211, 219
DriI	GACNNNNNGTC	2 cut(s)	202, 544
EaeI	YGGCCR	1 cut(s)	3
Eam1105I	GACNNNNNGTC	2 cut(s)	202, 544
EciI	GGCGGA	1 cut(s)	63
Eco130I	CCWWGG	1 cut(s)	479
Eco31I	GGTCTC	2 cut(s)	138, 489
Eco47I	GGWCC	1 cut(s)	239
Eco47III	AGCGCT	1 cut(s)	233
Eco72I	CACGTG	1 cut(s)	80
EcoRII	CCWGG	2 cut(s)	5, 278
EcoT14I	CCWWGG	1 cut(s)	479
ErhI	CCWWGG	1 cut(s)	479
FaiI	YATR	7 cut(s)	318, 357, 553, 572, 585, 608, 610
FauNDI	CATATG	1 cut(s)	608
Fnu4HI	GCNGC	7 cut(s)	19, 22, 25, 28, 133, 151, 330
FokI	GGATG	1 cut(s)	263
Fsp4HI	GCNGC	7 cut(s)	19, 22, 25, 28, 133, 151, 330
FspAI	RTGCGCAY	1 cut(s)	428
FspBI	CTAG	2 cut(s)	459, 480
FspI	TGCGCA	1 cut(s)	428
GlaI	GCGC	3 cut(s)	233, 428, 536
GluI	GCNGC	7 cut(s)	19, 22, 25, 28, 133, 151, 330
GsuI	CTGGAG	1 cut(s)	545
HaeII	RGCGCY	1 cut(s)	235
HaeIII	GGCC	1 cut(s)	5
HapII	CCGG	3 cut(s)	13, 58, 158
HgaI	GACGC	3 cut(s)	93, 206, 335
HhaI	GCGC	3 cut(s)	234, 429, 537
Hin6I	GCGC	3 cut(s)	232, 427, 535
HinP1I	GCGC	3 cut(s)	232, 427, 535
HinfI	GANTC	1 cut(s)	539
HpaII	CCGG	3 cut(s)	13, 58, 158
HphI	GGTGA	2 cut(s)	147, 516
Hpy166II	GTNNAC	2 cut(s)	83, 371
Hpy188I	TCNGA	2 cut(s)	208, 628
Hpy188III	TCNNGA	4 cut(s)	113, 194, 459, 562
Hpy8I	GTNNAC	2 cut(s)	83, 371
Hpy99I	CGWCG	1 cut(s)	101
HpyAV	CCTTC	2 cut(s)	241, 443
HpyCH4III	ACNGT	2 cut(s)	125, 314
HpyCH4IV	ACGT	2 cut(s)	79, 373
HpyCH4V	TGCA	2 cut(s)	320, 603
HpyF10VI	GCNNNNNNNGC	8 cut(s)	24, 27, 33, 54, 63, 326, 335, 609
HpyF3I	CTNAG	5 cut(s)	32, 215, 264, 396, 530
HpySE526I	ACGT	2 cut(s)	79, 373
HspAI	GCGC	3 cut(s)	232, 427, 535
KpnI	GGTACC	1 cut(s)	13
KroI	GCCGGC	1 cut(s)	57
KroNI	GCCGGC	1 cut(s)	59
Kzo9I	GATC	2 cut(s)	211, 219
LmnI	GCTCC	4 cut(s)	15, 166, 283, 648
Lsp1109I	GCAGC	3 cut(s)	33, 39, 341
MaeI	CTAG	2 cut(s)	459, 480
MaeII	ACGT	2 cut(s)	79, 373
MaeIII	GTNAC	1 cut(s)	125
MalI	GATC	2 cut(s)	213, 221
MbiI	CCGCTC	2 cut(s)	135, 153
MboI	GATC	2 cut(s)	211, 219
MboII	GAAGA	6 cut(s)	113, 179, 251, 474, 477, 480
MflI	RGATCY	1 cut(s)	219
MhlI	GDGCHC	1 cut(s)	645
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	2 cut(s)	268, 632
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	1 cut(s)	533
MnlI	CCTC	6 cut(s)	63, 120, 201, 316, 391, 537
Mox20I	TGGCCA	1 cut(s)	5
MreI	CGCCGGCG	1 cut(s)	57
MroNI	GCCGGC	1 cut(s)	57
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	658
MslI	CAYNNNNRTG	1 cut(s)	611
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	332
MspI	CCGG	3 cut(s)	13, 58, 158
MspR9I	CCNGG	2 cut(s)	7, 280
MvaI	CCWGG	2 cut(s)	7, 280
MvnI	CGCG	2 cut(s)	114, 537
MwoI	GCNNNNNNNGC	8 cut(s)	24, 27, 33, 54, 63, 326, 335, 609
NaeI	GCCGGC	1 cut(s)	59
NdeI	CATATG	1 cut(s)	608
NdeII	GATC	2 cut(s)	211, 219
NgoMIV	GCCGGC	1 cut(s)	57
NlaIV	GGNNCC	5 cut(s)	11, 17, 162, 221, 285
NmuCI	GTSAC	1 cut(s)	125
NruI	TCGCGA	1 cut(s)	114
NsbI	TGCGCA	1 cut(s)	428
PcsI	WCGNNNNNNNCGW	3 cut(s)	102, 111, 499
PdiI	GCCGGC	1 cut(s)	59
PkrI	GCNGC	7 cut(s)	20, 23, 26, 29, 134, 152, 331
PleI	GAGTC	1 cut(s)	533
PmaCI	CACGTG	1 cut(s)	80
PmlI	CACGTG	1 cut(s)	80
PpsI	GAGTC	1 cut(s)	533
Ppu21I	YACGTR	1 cut(s)	80
PsiI	TTATAA	1 cut(s)	585
Psp6I	CCWGG	2 cut(s)	5, 278
PspCI	CACGTG	1 cut(s)	80
PspGI	CCWGG	2 cut(s)	5, 278
PspN4I	GGNNCC	5 cut(s)	11, 17, 162, 221, 285
PspPI	GGNCC	1 cut(s)	239
PsuI	RGATCY	1 cut(s)	219
RruI	TCGCGA	1 cut(s)	114
RsaI	GTAC	2 cut(s)	11, 311
RsaNI	GTAC	2 cut(s)	10, 310
RseI	CAYNNNNRTG	1 cut(s)	611
SaqAI	TTAA	1 cut(s)	658
SatI	GCNGC	7 cut(s)	19, 22, 25, 28, 133, 151, 330
Sau3AI	GATC	2 cut(s)	211, 219
Sau96I	GGNCC	1 cut(s)	239
SchI	GAGTC	1 cut(s)	533
ScrFI	CCNGG	2 cut(s)	7, 280
SduI	GDGCHC	1 cut(s)	645
SetI	ASST	9 cut(s)	11, 44, 82, 376, 458, 481, 485, 529, 548
SfcI	CTRYAG	1 cut(s)	43
SgrAI	CRCCGGYG	1 cut(s)	57
SinI	GGWCC	1 cut(s)	239
SmiMI	CAYNNNNRTG	1 cut(s)	611
SmlI	CTYRAG	1 cut(s)	541
SmoI	CTYRAG	1 cut(s)	541
Sse9I	AATT	2 cut(s)	268, 632
SsiI	CCGC	8 cut(s)	19, 25, 74, 118, 133, 148, 151, 332
SspI	AATATT	1 cut(s)	589
SspMI	CTAG	2 cut(s)	459, 480
StyD4I	CCNGG	2 cut(s)	5, 278
StyI	CCWWGG	1 cut(s)	479
TaaI	ACNGT	2 cut(s)	125, 314
TaiI	ACGT	2 cut(s)	82, 376
TaqII	GACCGA	1 cut(s)	192
TasI	AATT	2 cut(s)	268, 632
TauI	GCSGC	4 cut(s)	21, 27, 135, 153
Tru1I	TTAA	1 cut(s)	658
Tru9I	TTAA	1 cut(s)	658
TscAI	CASTG	1 cut(s)	249
TseFI	GTSAC	1 cut(s)	125
TseI	GCWGC	3 cut(s)	21, 27, 329
Tsp45I	GTSAC	1 cut(s)	125
TspDTI	ATGAA	1 cut(s)	365
TspGWI	ACGGA	1 cut(s)	153
TspRI	CASTG	1 cut(s)	249
VpaK11BI	GGWCC	1 cut(s)	239
XapI	RAATTY	1 cut(s)	632
XbaI	TCTAGA	1 cut(s)	458
XcmI	CCANNNNNNNNNTGG	1 cut(s)	362
XmaJI	CCTAGG	1 cut(s)	479
XspI	CTAG	2 cut(s)	459, 480

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