Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0007169

Physical Location & Seq

Genomic Coordinates Forward (+)

39298307 .. 39303145

Gene Structure 4839 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG228700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGGCCAGGTACCGGAGCCGCAGCCGCAGCCTGAGCAGAAGCTACAGCCCCCCTCGCCGGCGTAGCAGAACTCCGCCACGTGGACGCAAGCGATACGACGACGACGAGCCTCGCGACCGCTACCGTGACAGCCGCTCTTACCGAGACCGCCGCTCACCGGCTCCGTCTGGCTTGCTCGTTCGCAATCTTCCTCTTGACGCTAGGTCAGATGATCTTAGGATCCCTTTTGAGCGCTTTGGTCCAGTGAAGGATGTGTATCTTCCTAAGAATTACTACACCAGGGAGCCACGGGGCTTTGGCTTTGTGAAGTACCGTTATGCAGAGGATGCAGCGGAAGCAAAGCAACAAATGAACCATAAACTTATTGGTGGACGTGAAATAAGGATTGTTTTTGCTGAGGAGAACAGAAAAACTCCCCAAGAAATGCGCACAACAACTCGTGTAAGTGGAGGAAGCTCTAGAAGGAGAAGAACTCCACCTAGGTCTCCAAGACGGCAATATCGTTCCTACTCCCGGTCAGTTTCACCTCTTAGGCGCGACTCAAGGTCTGTATATTATCTCCAGAAGTTTATGCTACATTTTTATAATATTGAAGTAATCTGCACCATATGGTGGTTGTTTTCTCTGAAAAATTTGCTGTGCTCCTTTTTTGGTGTTAATAGTGATAATTTTGCATTGTTATTTCTCACGGATGAGTAG

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

232

Amino Acids

27.83

Weight (kDa)

10.86

Isoelectric Point (pI)

91.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	58 - 128	6.1e-19	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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
AccB7I	CCANNNNNTGG	1 cut(s)	612
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)	631
AcvI	CACGTG	1 cut(s)	80
AfaI	GTAC	2 cut(s)	11, 311
AfeI	AGCGCT	1 cut(s)	233
AfiI	CCNNNNNNNGG	6 cut(s)	12, 57, 80, 157, 513, 612
AgsI	TTSAA	1 cut(s)	593
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)	644
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)	631
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
AsuC2I	CCSGG	1 cut(s)	514
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
Bbv12I	GWGCWC	1 cut(s)	644
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
BcnI	CCSGG	1 cut(s)	514
BcoDI	GTCTC	2 cut(s)	138, 489
BfaI	CTAG	3 cut(s)	201, 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	3 cut(s)	7, 280, 514
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	3 cut(s)	7, 280, 514
BmsI	GCATC	1 cut(s)	316
BplI	GAGNNNNNCTC	2 cut(s)	457, 489
BpmI	CTGGAG	1 cut(s)	545
Bpu10I	CCTNAGC	2 cut(s)	32, 396
BpuEI	CTTGAG	1 cut(s)	526
BpuMI	CCSGG	1 cut(s)	514
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	6 cut(s)	12, 57, 80, 157, 513, 612
Bse118I	RCCGGY	2 cut(s)	57, 157
Bse1I	ACTGG	1 cut(s)	242
Bse8I	GATNNNNATC	1 cut(s)	255
BseBI	CCWGG	2 cut(s)	7, 280
BseDI	CCNNGG	3 cut(s)	279, 287, 479
BseGI	GGATG	3 cut(s)	256, 331, 697
BseJI	GATNNNNATC	1 cut(s)	255
BseLI	CCNNNNNNNGG	6 cut(s)	12, 57, 80, 157, 513, 612
BseMII	CTCAG	2 cut(s)	23, 387
BseNI	ACTGG	1 cut(s)	242
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)	644
BsiSI	CCGG	4 cut(s)	13, 58, 158, 514
BslI	CCNNNNNNNGG	6 cut(s)	12, 57, 80, 157, 513, 612
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)	644
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	1 cut(s)	242
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)	326
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	3 cut(s)	256, 331, 697
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	7 cut(s)	24, 27, 33, 54, 63, 326, 335
BstNI	CCWGG	2 cut(s)	7, 280
BstSCI	CCNGG	3 cut(s)	5, 278, 512
BstSFI	CTRYAG	1 cut(s)	43
BstUI	CGCG	2 cut(s)	114, 537
BstV1I	GCAGC	3 cut(s)	33, 39, 341
BstX2I	RGATCY	1 cut(s)	219
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	3 cut(s)	256, 331, 697
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	2 cut(s)	93, 206
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	2 cut(s)	263, 338
Fsp4HI	GCNGC	7 cut(s)	19, 22, 25, 28, 133, 151, 330
FspAI	RTGCGCAY	1 cut(s)	428
FspBI	CTAG	3 cut(s)	201, 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	4 cut(s)	13, 58, 158, 514
HgaI	GACGC	2 cut(s)	93, 206
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	4 cut(s)	13, 58, 158, 514
HphI	GGTGA	2 cut(s)	147, 516
Hpy166II	GTNNAC	2 cut(s)	83, 371
Hpy188I	TCNGA	2 cut(s)	208, 627
Hpy188III	TCNNGA	4 cut(s)	113, 194, 459, 562
Hpy8I	GTNNAC	2 cut(s)	83, 371
Hpy99I	CGWCG	3 cut(s)	101, 104, 107
HpyAV	CCTTC	2 cut(s)	241, 456
HpyCH4III	ACNGT	2 cut(s)	125, 314
HpyCH4IV	ACGT	2 cut(s)	79, 373
HpyCH4V	TGCA	4 cut(s)	320, 329, 603, 674
HpyF10VI	GCNNNNNNNGC	7 cut(s)	24, 27, 33, 54, 63, 326, 335
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, 647
Lsp1109I	GCAGC	3 cut(s)	33, 39, 341
LweI	GCATC	1 cut(s)	316
MaeI	CTAG	3 cut(s)	201, 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	3 cut(s)	179, 251, 480
MflI	RGATCY	1 cut(s)	219
MhlI	GDGCHC	1 cut(s)	644
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	3 cut(s)	268, 631, 667
MluNI	TGGCCA	1 cut(s)	5
MlyI	GAGTC	1 cut(s)	533
MnlI	CCTC	7 cut(s)	63, 120, 201, 316, 391, 443, 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)	657
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	332
MspI	CCGG	4 cut(s)	13, 58, 158, 514
MspR9I	CCNGG	3 cut(s)	7, 280, 514
MvaI	CCWGG	2 cut(s)	7, 280
MvnI	CGCG	2 cut(s)	114, 537
MwoI	GCNNNNNNNGC	7 cut(s)	24, 27, 33, 54, 63, 326, 335
NaeI	GCCGGC	1 cut(s)	59
NciI	CCSGG	1 cut(s)	514
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
PflMI	CCANNNNNTGG	1 cut(s)	612
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
SaqAI	TTAA	1 cut(s)	657
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	3 cut(s)	7, 280, 514
SduI	GDGCHC	1 cut(s)	644
SfaNI	GCATC	1 cut(s)	316
SfcI	CTRYAG	1 cut(s)	43
SgrAI	CRCCGGYG	1 cut(s)	57
SinI	GGWCC	1 cut(s)	239
SmlI	CTYRAG	1 cut(s)	541
SmoI	CTYRAG	1 cut(s)	541
Sse9I	AATT	3 cut(s)	268, 631, 667
SsiI	CCGC	8 cut(s)	19, 25, 74, 118, 133, 148, 151, 332
SspI	AATATT	1 cut(s)	589
SspMI	CTAG	3 cut(s)	201, 459, 480
StyD4I	CCNGG	3 cut(s)	5, 278, 512
StyI	CCWWGG	1 cut(s)	479
TaaI	ACNGT	2 cut(s)	125, 314
TaiI	ACGT	2 cut(s)	82, 376
TasI	AATT	3 cut(s)	268, 631, 667
TauI	GCSGC	4 cut(s)	21, 27, 135, 153
Tru1I	TTAA	1 cut(s)	657
Tru9I	TTAA	1 cut(s)	657
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
Van91I	CCANNNNNTGG	1 cut(s)	612
VpaK11BI	GGWCC	1 cut(s)	239
XapI	RAATTY	1 cut(s)	631
XbaI	TCTAGA	1 cut(s)	458
XcmI	CCANNNNNNNNNTGG	1 cut(s)	362
XmaJI	CCTAGG	1 cut(s)	479
XspI	CTAG	3 cut(s)	201, 459, 480

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