Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0011799

Physical Location & Seq

Genomic Coordinates Reverse (-)

62059676 .. 62062657

Gene Structure 2982 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G035280.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 600 bp

ATGACTCGCGTTTACGTTGGGAACTTGGATCCTCGAGTGAGTGATAGGGATCTTGAAGATGAGTTTCGCATGTTCGGCGTTCTTCGCAGTGTGTGGGTTGCTCGGAGGCCACCGGGATATGCCTTTGTTGAATTTGATGACCACAGGGATGCTCTCGATGCAATTCAGAGATTGGATGGAAAAAACGGTTGGCGTGTGGAACTGTCCCATAACTCTAAGGGGGGTGGTGGTGGTGGTGGTGGAGGCCGTGGCGGGCGTGGTGGTGGAGGGGACGACTTGAAGTGTTATGAATGTGGTGAACCTGGTCACTTTGCTCGAGAGTGTCGTATGCGTGTTGGTTCACGAGGATTGGGTAGCGGAAGGCGCAGAAGTCCTTCCCCTCGACGTGGCCGCAGAAGTCCCAGTTACGATGGTTATGGGCACGGGCGCAGGACTTATAGTCCACGTAGGAGGAGATCTCCTCCTCTACGACGTCGCACCCCATCACCTCTGCCTCGACGTGGACGCAGCTACAGCAGGTCTCCCCCGTACCGCCATGCTCGACGTGTTTCACCTATGCCAATGGGTAAGTACATGTGGATCCGTCAATCTGGTGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0019904 GO:0031323 GO:0031324 GO:0031974 GO:0031981 GO:0033119 GO:0034097 GO:0034641 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043484 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045934 GO:0046483 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0071310 GO:0071345 GO:0071704 GO:0080090 GO:0090304 GO:1901360 GO:1903311 GO:1903312 GO:1990823 GO:1990830

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

199

Amino Acids

22.49

Weight (kDa)

11.43

Isoelectric Point (pI)

103.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	4 - 61	4e-16	RNA recognition motif
zf-CCHC	PF00098	94 - 109	1.4e-07	Zinc knuckle

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: OG0011799)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23860 AT1G23860 AT1G23860 AT1G23860
fragaria_vesca	FvH4_4g34770
malus_domestica	MD13G1089900.v1.1 MD16G1090200.v1.1
prunus_persica	Prupe.1G255900_v2.0.a1 Prupe.1G255900_v2.0.a1
pyrus_communis	pycom13g07840 pycom16g07730
rosa_chinensis	RchiOBHm_Chr4g0444111
rosa_roxburghii	Rroxscaffold_5G00384700
rosa_rugosa	Rorug04G0349600 Rorug04G0349700
rosa_samantha	Rh4AG410700 Rh4BG422100 Rh4CG436500
rosa_wichuraiana	Rw4G035280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	475
Acc36I	ACCTGC	1 cut(s)	507
AccII	CGCG	1 cut(s)	9
AciI	CCGC	4 cut(s)	252, 357, 391, 532
AclWI	GGATC	5 cut(s)	23, 36, 57, 574, 587
AcoI	YGGCCR	1 cut(s)	388
AcsI	RAATTY	1 cut(s)	131
AcyI	GRCGYC	1 cut(s)	472
AfaI	GTAC	2 cut(s)	530, 572
AfiI	CCNNNNNNNGG	2 cut(s)	386, 500
AflIII	ACRYGT	2 cut(s)	544, 573
AgsI	TTSAA	3 cut(s)	56, 131, 280
AhdI	GACNNNNNGTC	1 cut(s)	438
AjiI	CACGTC	3 cut(s)	386, 500, 545
AjnI	CCWGG	1 cut(s)	301
AjuI	GAANNNNNNNTTGG	2 cut(s)	172, 204
AluBI	AGCT	1 cut(s)	510
AluI	AGCT	1 cut(s)	510
Alw26I	GTCTC	1 cut(s)	525
AlwI	GGATC	5 cut(s)	23, 36, 57, 574, 587
Ama87I	CYCGRG	2 cut(s)	33, 315
AoxI	GGCC	3 cut(s)	107, 244, 388
ApeKI	GCWGC	1 cut(s)	507
ApoI	RAATTY	1 cut(s)	131
Asp700I	GAANNNNTTC	1 cut(s)	373
AspLEI	GCGC	2 cut(s)	366, 429
AsuC2I	CCSGG	1 cut(s)	114
AsuHPI	GGTGA	3 cut(s)	308, 477, 543
AvaI	CYCGRG	2 cut(s)	33, 315
BaeGI	GKGCMC	1 cut(s)	423
BamHI	GGATCC	2 cut(s)	28, 579
BauI	CACGAG	1 cut(s)	342
BbvI	GCAGC	1 cut(s)	519
BccI	CCATC	3 cut(s)	170, 404, 490
BceAI	ACGGC	1 cut(s)	231
BciT130I	CCWGG	1 cut(s)	303
BcnI	CCSGG	1 cut(s)	114
BcoDI	GTCTC	1 cut(s)	525
BfmI	CTRYAG	1 cut(s)	511
BfuAI	ACCTGC	1 cut(s)	507
BglII	AGATCT	1 cut(s)	455
BisI	GCNGC	2 cut(s)	391, 508
BlsI	GCNGC	2 cut(s)	392, 509
Bme1390I	CCNGG	2 cut(s)	114, 303
BmeRI	GACNNNNNGTC	1 cut(s)	438
BmeT110I	CYCGRG	2 cut(s)	33, 315
BmgBI	CACGTC	3 cut(s)	386, 500, 545
BmiI	GGNNCC	2 cut(s)	30, 581
BmrFI	CCNGG	2 cut(s)	114, 303
BmrI	ACTGGG	1 cut(s)	396
BmsI	GCATC	2 cut(s)	139, 148
BmuI	ACTGGG	1 cut(s)	396
BplI	GAGNNNNNCTC	4 cut(s)	442, 474, 445, 477
BpuMI	CCSGG	1 cut(s)	114
BsaAI	YACGTR	1 cut(s)	446
BsaBI	GATNNNNATC	1 cut(s)	48
BsaHI	GRCGYC	1 cut(s)	472
BsaI	GGTCTC	1 cut(s)	525
BsaJI	CCNNGG	1 cut(s)	247
Bsc4I	CCNNNNNNNGG	2 cut(s)	386, 500
Bse1I	ACTGG	1 cut(s)	402
Bse8I	GATNNNNATC	1 cut(s)	48
BseBI	CCWGG	1 cut(s)	303
BseDI	CCNNGG	1 cut(s)	247
BseGI	GGATG	2 cut(s)	154, 181
BseJI	GATNNNNATC	1 cut(s)	48
BseLI	CCNNNNNNNGG	2 cut(s)	386, 500
BseNI	ACTGG	1 cut(s)	402
BseRI	GAGGAG	3 cut(s)	450, 453, 466
BseSI	GKGCMC	1 cut(s)	423
BseXI	GCAGC	1 cut(s)	519
Bsh1236I	CGCG	1 cut(s)	9
BshFI	GGCC	3 cut(s)	109, 246, 390
BsiHKCI	CYCGRG	2 cut(s)	33, 315
BsiSI	CCGG	1 cut(s)	113
BslFI	GGGAC	3 cut(s)	190, 284, 384
BslI	CCNNNNNNNGG	2 cut(s)	386, 500
BsmAI	GTCTC	1 cut(s)	525
BsmFI	GGGAC	3 cut(s)	190, 284, 384
BsnI	GGCC	3 cut(s)	109, 246, 390
Bso31I	GGTCTC	1 cut(s)	525
BsoBI	CYCGRG	2 cut(s)	33, 315
Bsp1286I	GDGCHC	1 cut(s)	423
Bsp143I	GATC	4 cut(s)	28, 49, 455, 579
BspACI	CCGC	4 cut(s)	252, 357, 391, 532
BspANI	GGCC	3 cut(s)	109, 246, 390
BspFNI	CGCG	1 cut(s)	9
BspLI	GGNNCC	2 cut(s)	30, 581
BspMI	ACCTGC	1 cut(s)	507
BspPI	GGATC	5 cut(s)	23, 36, 57, 574, 587
BspTNI	GGTCTC	1 cut(s)	525
BsrI	ACTGG	1 cut(s)	402
BssECI	CCNNGG	1 cut(s)	247
BssMI	GATC	4 cut(s)	28, 49, 455, 579
BssNI	GRCGYC	1 cut(s)	472
BssSI	CACGAG	1 cut(s)	342
Bst2BI	CACGAG	1 cut(s)	342
Bst2UI	CCWGG	1 cut(s)	303
Bst4CI	ACNGT	2 cut(s)	188, 204
BstACI	GRCGYC	1 cut(s)	472
BstBAI	YACGTR	1 cut(s)	446
BstC8I	GCNNGC	1 cut(s)	254
BstDEI	CTNAG	1 cut(s)	216
BstDSI	CCRYGG	1 cut(s)	247
BstF5I	GGATG	2 cut(s)	154, 181
BstFNI	CGCG	1 cut(s)	9
BstHHI	GCGC	2 cut(s)	366, 429
BstKTI	GATC	4 cut(s)	31, 52, 458, 582
BstMAI	GTCTC	1 cut(s)	525
BstMBI	GATC	4 cut(s)	28, 49, 455, 579
BstMWI	GCNNNNNNNGC	5 cut(s)	75, 84, 158, 363, 513
BstNI	CCWGG	1 cut(s)	303
BstNSI	RCATGY	2 cut(s)	73, 577
BstSCI	CCNGG	2 cut(s)	112, 301
BstSFI	CTRYAG	1 cut(s)	511
BstSLI	GKGCMC	1 cut(s)	423
BstUI	CGCG	1 cut(s)	9
BstV1I	GCAGC	1 cut(s)	519
BstX2I	RGATCY	4 cut(s)	28, 49, 455, 579
BstYI	RGATCY	4 cut(s)	28, 49, 455, 579
BsuRI	GGCC	3 cut(s)	109, 246, 390
BtgI	CCRYGG	1 cut(s)	247
BtrI	CACGTC	3 cut(s)	386, 500, 545
BtsCI	GGATG	2 cut(s)	154, 181
BtsI	GCAGTG	1 cut(s)	94
BtsIMutI	CAGTG	1 cut(s)	94
BveI	ACCTGC	1 cut(s)	507
Cac8I	GCNNGC	1 cut(s)	254
CfoI	GCGC	2 cut(s)	366, 429
CseI	GACGC	1 cut(s)	513
CsiI	ACCWGGT	1 cut(s)	301
Csp6I	GTAC	2 cut(s)	529, 571
CviAII	CATG	3 cut(s)	70, 536, 574
CviJI	RGCY	4 cut(s)	109, 246, 390, 510
CviKI_1	RGCY	4 cut(s)	109, 246, 390, 510
CviQI	GTAC	2 cut(s)	529, 571
DdeI	CTNAG	1 cut(s)	216
DpnI	GATC	4 cut(s)	30, 51, 457, 581
DpnII	GATC	4 cut(s)	28, 49, 455, 579
DriI	GACNNNNNGTC	1 cut(s)	438
EaeI	YGGCCR	1 cut(s)	388
Eam1105I	GACNNNNNGTC	1 cut(s)	438
Eco31I	GGTCTC	1 cut(s)	525
Eco88I	CYCGRG	2 cut(s)	33, 315
EcoRII	CCWGG	1 cut(s)	301
FaeI	CATG	3 cut(s)	73, 539, 577
FaqI	GGGAC	3 cut(s)	190, 284, 384
FatI	CATG	3 cut(s)	69, 535, 573
FauI	CCCGC	1 cut(s)	245
Fnu4HI	GCNGC	2 cut(s)	391, 508
FokI	GGATG	2 cut(s)	161, 188
Fsp4HI	GCNGC	2 cut(s)	391, 508
GlaI	GCGC	2 cut(s)	365, 428
GluI	GCNGC	2 cut(s)	391, 508
HaeIII	GGCC	3 cut(s)	109, 246, 390
HapII	CCGG	1 cut(s)	113
HgaI	GACGC	1 cut(s)	513
HhaI	GCGC	2 cut(s)	366, 429
Hin1I	GRCGYC	1 cut(s)	472
Hin1II	CATG	3 cut(s)	73, 539, 577
Hin6I	GCGC	2 cut(s)	364, 427
HinP1I	GCGC	2 cut(s)	364, 427
HinfI	GANTC	1 cut(s)	4
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	3 cut(s)	308, 477, 543
Hpy166II	GTNNAC	5 cut(s)	13, 299, 341, 443, 503
Hpy188I	TCNGA	2 cut(s)	105, 168
Hpy188III	TCNNGA	4 cut(s)	53, 155, 317, 342
Hpy8I	GTNNAC	5 cut(s)	13, 299, 341, 443, 503
Hpy99I	CGWCG	5 cut(s)	387, 474, 477, 501, 546
HpyAV	CCTTC	2 cut(s)	354, 384
HpyCH4III	ACNGT	2 cut(s)	188, 204
HpyCH4IV	ACGT	6 cut(s)	15, 385, 445, 472, 499, 544
HpyCH4V	TGCA	1 cut(s)	161
HpyF10VI	GCNNNNNNNGC	5 cut(s)	75, 84, 158, 363, 513
HpyF3I	CTNAG	1 cut(s)	216
HpySE526I	ACGT	6 cut(s)	15, 385, 445, 472, 499, 544
Hsp92I	GRCGYC	1 cut(s)	472
Hsp92II	CATG	3 cut(s)	73, 539, 577
HspAI	GCGC	2 cut(s)	364, 427
Kzo9I	GATC	4 cut(s)	28, 49, 455, 579
LpnPI	CCDG	8 cut(s)	126, 130, 288, 315, 415, 415, 502, 576
Lsp1109I	GCAGC	1 cut(s)	519
LweI	GCATC	2 cut(s)	139, 148
MabI	ACCWGGT	1 cut(s)	301
MaeII	ACGT	6 cut(s)	15, 385, 445, 472, 499, 544
MaeIII	GTNAC	2 cut(s)	305, 404
MalI	GATC	4 cut(s)	30, 51, 457, 581
MboI	GATC	4 cut(s)	28, 49, 455, 579
MboII	GAAGA	2 cut(s)	68, 74
MflI	RGATCY	4 cut(s)	28, 49, 455, 579
MhlI	GDGCHC	1 cut(s)	423
MluCI	AATT	2 cut(s)	131, 162
MroXI	GAANNNNTTC	1 cut(s)	373
MseI	TTAA	1 cut(s)	598
MslI	CAYNNNNRTG	1 cut(s)	147
MspI	CCGG	1 cut(s)	113
MspR9I	CCNGG	2 cut(s)	114, 303
MvaI	CCWGG	1 cut(s)	303
MvnI	CGCG	1 cut(s)	9
MwoI	GCNNNNNNNGC	5 cut(s)	75, 84, 158, 363, 513
NciI	CCSGG	1 cut(s)	114
NdeII	GATC	4 cut(s)	28, 49, 455, 579
NlaIII	CATG	3 cut(s)	73, 539, 577
NlaIV	GGNNCC	2 cut(s)	30, 581
NmuCI	GTSAC	1 cut(s)	305
NspI	RCATGY	2 cut(s)	73, 577
PaeR7I	CTCGAG	2 cut(s)	33, 315
PciI	ACATGT	1 cut(s)	573
PcsI	WCGNNNNNNNCGW	1 cut(s)	322
PdmI	GAANNNNTTC	1 cut(s)	373
PkrI	GCNGC	2 cut(s)	392, 509
Ppu21I	YACGTR	1 cut(s)	446
PscI	ACATGT	1 cut(s)	573
Psp6I	CCWGG	1 cut(s)	301
PspGI	CCWGG	1 cut(s)	301
PspN4I	GGNNCC	2 cut(s)	30, 581
PspXI	VCTCGAGB	1 cut(s)	33
PsuI	RGATCY	4 cut(s)	28, 49, 455, 579
RsaI	GTAC	2 cut(s)	530, 572
RsaNI	GTAC	2 cut(s)	529, 571
RseI	CAYNNNNRTG	1 cut(s)	147
SaqAI	TTAA	1 cut(s)	598
SatI	GCNGC	2 cut(s)	391, 508
Sau3AI	GATC	4 cut(s)	28, 49, 455, 579
ScrFI	CCNGG	2 cut(s)	114, 303
SduI	GDGCHC	1 cut(s)	423
SexAI	ACCWGGT	1 cut(s)	301
SfaNI	GCATC	2 cut(s)	139, 148
SfcI	CTRYAG	1 cut(s)	511
Sfr274I	CTCGAG	2 cut(s)	33, 315
SlaI	CTCGAG	2 cut(s)	33, 315
SmiMI	CAYNNNNRTG	1 cut(s)	147
SmlI	CTYRAG	2 cut(s)	33, 315
SmoI	CTYRAG	2 cut(s)	33, 315
Sse9I	AATT	2 cut(s)	131, 162
SsiI	CCGC	4 cut(s)	252, 357, 391, 532
StyD4I	CCNGG	2 cut(s)	112, 301
TaaI	ACNGT	2 cut(s)	188, 204
TaiI	ACGT	6 cut(s)	18, 388, 448, 475, 502, 547
TaqI	TCGA	6 cut(s)	34, 156, 316, 382, 496, 541
TasI	AATT	2 cut(s)	131, 162
TatI	WGTACW	1 cut(s)	570
TauI	GCSGC	1 cut(s)	393
Tru1I	TTAA	1 cut(s)	598
Tru9I	TTAA	1 cut(s)	598
TscAI	CASTG	1 cut(s)	94
TseFI	GTSAC	1 cut(s)	305
TseI	GCWGC	1 cut(s)	507
Tsp45I	GTSAC	1 cut(s)	305
TspDTI	ATGAA	1 cut(s)	303
TspGWI	ACGGA	1 cut(s)	572
TspRI	CASTG	1 cut(s)	94
XapI	RAATTY	1 cut(s)	131
XceI	RCATGY	2 cut(s)	73, 577
XhoI	CTCGAG	2 cut(s)	33, 315
XmnI	GAANNNNTTC	1 cut(s)	373
ZraI	GACGTC	1 cut(s)	473

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