Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0006995

Physical Location & Seq

Genomic Coordinates Reverse (-)

65040780 .. 65044990

Gene Structure 4211 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG468000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 960 bp

ATGCAATCCAACGGCTCGGATTCCTCCCTGCAGCAGCAGCAGCAGCAGCAACAGGACCAAAGTACTCAGCCACGTCAGCAGCCGCCGCCGCCGCCGCAGCAGTGGATGGCGATGCAGTACCCAGCGGCCGCGATGGTAATGCAGCACCAAATGATGCCACCGCAGCATTACGCGCCTCCGCCGCAACACTACATGGCGTACCACCAGTACCAGCAGCACCCGCAGCAGCACGTGCAGCAACAGCAGCAGCAGATGGGATCTGGCGGCGGCGGCAGCGGCGAGAACAAGACCATCTGGGTCGGCGATTTGCACCACTGGATGGACGAGAATTACCTCCACAGCTGCTTCGCTTCCGCCGGCGAGATTGCCTCCATCAAGGTTATCCGCAATAAGCAGACTCTTTTATCAGAGGGCTACGGATTTGTAGAATTCTTTTCACATGCTACAGCTGAGAAAGTCCTACAGAGCTATGCTGCAATTTTAATGCCTAACACGGAACAGCCCTTCCGTCTGAACTGGGCAACATTTAGTACGGGTGACAAGCGTTCAGATAATGCTCCTGATCTTTCCATTTTTGTAGGAGACTTAGCAGCAGATGTTACAGATAGTTTATTGCACGAAACTTTTTCTAGTAAATATCCATCTGTTAAAGCCGCAAAAGTTGTCTTTGATGCCAATACTGGCCGTTCAAAGGGCTATGGTTTTGTGAGGTTTGGCGACGAGAATGAAAGGTCACAGGCTATGACTGAAATGAATGGTGTTTATTGTTCTAGCAGGCCTATGCGTATTGGTGCTGCAACTCCTAGGAAATCATCTGGATATCAGCAGCAAGGGGGGTATGCTCTGAATGGTACACCAGCCCAAGGGTTCCAATCTGATGGAGATGCTACAAACACAACAGTGAGTAGTCTTCGAGGTTCTCATGGTTTAACCAATGGTTACTTTTCTCCATTTGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006950 GO:0008143 GO:0008150 GO:0009266 GO:0009408 GO:0009628 GO:0009987 GO:0010494 GO:0032991 GO:0033554 GO:0034605 GO:0035770 GO:0036464 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044424 GO:0044444 GO:0044464 GO:0050896 GO:0051716 GO:0070717 GO:0097159 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

319

Amino Acids

35.27

Weight (kDa)

6.29

Isoelectric Point (pI)

63.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	98 - 159	8.2e-11	RNA recognition motif
RRM_1	PF00076	191 - 260	8.8e-16	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0006995)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G47490 AT1G47490 AT1G47500 AT1G47500
fragaria_vesca	FvH4_2g34870 FvH4_2g34870 FvH4_2g34870 FvH4_2g34870
malus_domestica	MD08G1106300.v1.1 MD15G1087000.v1.1
prunus_persica	Prupe.1G440700_v2.0.a1 Prupe.1G440700_v2.0.a1 Prupe.1G440700_v2.0.a1
pyrus_communis	pycom08g08780 pycom15g08190
rosa_chinensis	RchiOBHm_Chr6g0307171
rosa_laevigata	RLG00000010731
rosa_multiflora	Rmu_sc0000031.1_g000001
rosa_roxburghii	Rroxscaffold_7G00161120
rosa_rugosa	Rorug06G0357100 Rorug06G0357200
rosa_samantha	Rh6AG468000 Rh6BG432500 Rh6CG483200
rosa_wichuraiana	Rw6G040780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	319
AccII	CGCG	2 cut(s)	131, 173
AclWI	GGATC	1 cut(s)	265
AcoI	YGGCCR	2 cut(s)	126, 682
AcsI	RAATTY	1 cut(s)	428
AcvI	CACGTG	1 cut(s)	232
AfaI	GTAC	6 cut(s)	64, 119, 200, 209, 532, 853
AfiI	CCNNNNNNNGG	3 cut(s)	319, 691, 863
AgsI	TTSAA	1 cut(s)	690
AjiI	CACGTC	1 cut(s)	74
AleI	CACNNNNGTG	1 cut(s)	899
AloI	GAACNNNNNNTCC	2 cut(s)	489, 521
AluBI	AGCT	3 cut(s)	342, 449, 468
AluI	AGCT	3 cut(s)	342, 449, 468
Alw26I	GTCTC	1 cut(s)	576
AlwI	GGATC	1 cut(s)	265
AoxI	GGCC	3 cut(s)	126, 682, 776
ApoI	RAATTY	1 cut(s)	428
AspA2I	CCTAGG	1 cut(s)	803
AspLEI	GCGC	1 cut(s)	175
AspS9I	GGNCC	1 cut(s)	55
AsuHPI	GGTGA	1 cut(s)	548
AvaII	GGWCC	1 cut(s)	55
AvrII	CCTAGG	1 cut(s)	803
BbrPI	CACGTG	1 cut(s)	232
BbsI	GAAGAC	1 cut(s)	902
BccI	CCATC	8 cut(s)	100, 127, 247, 299, 313, 380, 649, 872
BceAI	ACGGC	2 cut(s)	28, 669
BcgI	CGANNNNNNTGC	2 cut(s)	121, 155
BcoDI	GTCTC	1 cut(s)	576
BfaI	CTAG	3 cut(s)	630, 771, 804
BfmI	CTRYAG	3 cut(s)	29, 444, 461
BlnI	CCTAGG	1 cut(s)	803
BmcAI	AGTACT	1 cut(s)	64
Bme18I	GGWCC	1 cut(s)	55
BmgBI	CACGTC	1 cut(s)	74
BmgT120I	GGNCC	1 cut(s)	55
BmiI	GGNNCC	1 cut(s)	869
BmrI	ACTGGG	1 cut(s)	526
BmsI	GCATC	4 cut(s)	102, 144, 661, 874
BmuI	ACTGGG	1 cut(s)	526
BpiI	GAAGAC	1 cut(s)	902
BplI	GAGNNNNNCTC	2 cut(s)	353, 385
BsaAI	YACGTR	1 cut(s)	232
BsaJI	CCNNGG	2 cut(s)	803, 862
Bsc4I	CCNNNNNNNGG	3 cut(s)	319, 691, 863
Bse118I	RCCGGY	1 cut(s)	356
Bse1I	ACTGG	4 cut(s)	205, 320, 521, 685
BseDI	CCNNGG	2 cut(s)	803, 862
BseGI	GGATG	2 cut(s)	111, 324
BseLI	CCNNNNNNNGG	3 cut(s)	319, 691, 863
BseMII	CTCAG	2 cut(s)	80, 441
BseNI	ACTGG	4 cut(s)	205, 320, 521, 685
BseX3I	CGGCCG	1 cut(s)	126
BseYI	CCCAGC	1 cut(s)	121
BsgI	GTGCAG	1 cut(s)	254
Bsh1236I	CGCG	2 cut(s)	131, 173
Bsh1285I	CGRYCG	1 cut(s)	129
BshFI	GGCC	3 cut(s)	128, 684, 778
BsiEI	CGRYCG	1 cut(s)	129
BsiSI	CCGG	1 cut(s)	357
BslI	CCNNNNNNNGG	3 cut(s)	319, 691, 863
BsmAI	GTCTC	1 cut(s)	576
BsnI	GGCC	3 cut(s)	128, 684, 778
Bsp143I	GATC	2 cut(s)	257, 562
BspANI	GGCC	3 cut(s)	128, 684, 778
BspCNI	CTCAG	2 cut(s)	79, 442
BspFNI	CGCG	2 cut(s)	131, 173
BspLI	GGNNCC	1 cut(s)	869
BspMAI	CTGCAG	1 cut(s)	33
BspPI	GGATC	1 cut(s)	265
BsrFI	RCCGGY	1 cut(s)	356
BsrI	ACTGG	4 cut(s)	205, 320, 521, 685
BssAI	RCCGGY	1 cut(s)	356
BssECI	CCNNGG	2 cut(s)	803, 862
BssMI	GATC	2 cut(s)	257, 562
BssT1I	CCWWGG	2 cut(s)	803, 862
Bst4CI	ACNGT	1 cut(s)	901
BstAPI	GCANNNNNTGC	1 cut(s)	232
BstBAI	YACGTR	1 cut(s)	232
BstC8I	GCNNGC	2 cut(s)	358, 776
BstDEI	CTNAG	3 cut(s)	66, 450, 586
BstF5I	GGATG	2 cut(s)	111, 324
BstFNI	CGCG	2 cut(s)	131, 173
BstHHI	GCGC	1 cut(s)	175
BstKTI	GATC	2 cut(s)	260, 565
BstMAI	GTCTC	1 cut(s)	576
BstMBI	GATC	2 cut(s)	257, 562
BstMCI	CGRYCG	1 cut(s)	129
BstNSI	RCATGY	1 cut(s)	443
BstSFI	CTRYAG	3 cut(s)	29, 444, 461
BstUI	CGCG	2 cut(s)	131, 173
BstV2I	GAAGAC	1 cut(s)	902
BstX2I	RGATCY	1 cut(s)	257
BstXI	CCANNNNNNTGG	1 cut(s)	878
BstYI	RGATCY	1 cut(s)	257
BstZI	CGGCCG	1 cut(s)	126
BsuRI	GGCC	3 cut(s)	128, 684, 778
BtgZI	GCGATG	2 cut(s)	125, 146
BtrI	CACGTC	1 cut(s)	74
BtsCI	GGATG	2 cut(s)	111, 324
BtsI	GCAGTG	1 cut(s)	107
BtsIMutI	CAGTG	3 cut(s)	107, 313, 906
Cac8I	GCNNGC	2 cut(s)	358, 776
CciNI	GCGGCCGC	1 cut(s)	126
CfoI	GCGC	1 cut(s)	175
Cfr10I	RCCGGY	1 cut(s)	356
Cfr13I	GGNCC	1 cut(s)	55
Csp6I	GTAC	6 cut(s)	63, 118, 199, 208, 531, 852
CviAII	CATG	3 cut(s)	193, 440, 923
CviQI	GTAC	6 cut(s)	63, 118, 199, 208, 531, 852
DdeI	CTNAG	3 cut(s)	66, 450, 586
DpnI	GATC	2 cut(s)	259, 564
DpnII	GATC	2 cut(s)	257, 562
EaeI	YGGCCR	2 cut(s)	126, 682
EagI	CGGCCG	1 cut(s)	126
EciI	GGCGGA	2 cut(s)	168, 343
EclXI	CGGCCG	1 cut(s)	126
Eco130I	CCWWGG	2 cut(s)	803, 862
Eco147I	AGGCCT	1 cut(s)	778
Eco32I	GATATC	1 cut(s)	821
Eco47I	GGWCC	1 cut(s)	55
Eco52I	CGGCCG	1 cut(s)	126
Eco72I	CACGTG	1 cut(s)	232
EcoRI	GAATTC	1 cut(s)	428
EcoRV	GATATC	1 cut(s)	821
EcoT14I	CCWWGG	2 cut(s)	803, 862
ErhI	CCWWGG	2 cut(s)	803, 862
FaeI	CATG	3 cut(s)	196, 443, 926
FaiI	YATR	8 cut(s)	194, 441, 471, 699, 743, 782, 840, 924
FatI	CATG	3 cut(s)	192, 439, 922
FauI	CCCGC	1 cut(s)	228
FokI	GGATG	2 cut(s)	118, 331
FspBI	CTAG	3 cut(s)	630, 771, 804
GlaI	GCGC	1 cut(s)	174
GsaI	CCCAGC	1 cut(s)	125
HaeIII	GGCC	3 cut(s)	128, 684, 778
HapII	CCGG	1 cut(s)	357
HhaI	GCGC	1 cut(s)	175
Hin1II	CATG	3 cut(s)	196, 443, 926
Hin6I	GCGC	1 cut(s)	173
HinP1I	GCGC	1 cut(s)	173
HinfI	GANTC	2 cut(s)	20, 397
HpaII	CCGG	1 cut(s)	357
HphI	GGTGA	1 cut(s)	548
Hpy166II	GTNNAC	1 cut(s)	854
Hpy188I	TCNGA	6 cut(s)	19, 409, 513, 550, 846, 877
Hpy188III	TCNNGA	2 cut(s)	560, 816
Hpy8I	GTNNAC	1 cut(s)	854
Hpy99I	CGWCG	1 cut(s)	722
HpyAV	CCTTC	1 cut(s)	514
HpyCH4III	ACNGT	1 cut(s)	901
HpyCH4IV	ACGT	2 cut(s)	73, 231
HpyCH4V	TGCA	9 cut(s)	4, 31, 115, 142, 235, 310, 476, 616, 797
HpyF3I	CTNAG	3 cut(s)	66, 450, 586
HpySE526I	ACGT	2 cut(s)	73, 231
Hsp92II	CATG	3 cut(s)	196, 443, 926
HspAI	GCGC	1 cut(s)	173
KroI	GCCGGC	1 cut(s)	356
KroNI	GCCGGC	1 cut(s)	358
Kzo9I	GATC	2 cut(s)	257, 562
LmnI	GCTCC	1 cut(s)	562
LweI	GCATC	4 cut(s)	102, 144, 661, 874
MaeI	CTAG	3 cut(s)	630, 771, 804
MaeII	ACGT	2 cut(s)	73, 231
MaeIII	GTNAC	4 cut(s)	536, 598, 732, 938
MalI	GATC	2 cut(s)	259, 564
MboI	GATC	2 cut(s)	257, 562
MboII	GAAGA	1 cut(s)	902
MflI	RGATCY	1 cut(s)	257
MluCI	AATT	3 cut(s)	328, 428, 477
MlyI	GAGTC	1 cut(s)	391
MmeI	TCCRAC	1 cut(s)	33
MnlI	CCTC	7 cut(s)	34, 186, 344, 379, 403, 702, 908
MreI	CGCCGGCG	1 cut(s)	356
MroNI	GCCGGC	1 cut(s)	356
MseI	TTAA	3 cut(s)	482, 648, 929
MslI	CAYNNNNRTG	1 cut(s)	899
MspA1I	CMGCKG	4 cut(s)	125, 276, 342, 449
MspI	CCGG	1 cut(s)	357
MvnI	CGCG	2 cut(s)	131, 173
NaeI	GCCGGC	1 cut(s)	358
NdeII	GATC	2 cut(s)	257, 562
NgoMIV	GCCGGC	1 cut(s)	356
NlaIII	CATG	3 cut(s)	196, 443, 926
NlaIV	GGNNCC	1 cut(s)	869
NmuCI	GTSAC	2 cut(s)	536, 732
NotI	GCGGCCGC	1 cut(s)	126
NspI	RCATGY	1 cut(s)	443
OliI	CACNNNNGTG	1 cut(s)	899
PceI	AGGCCT	1 cut(s)	778
PdiI	GCCGGC	1 cut(s)	358
PfeI	GAWTC	1 cut(s)	20
PflMI	CCANNNNNTGG	1 cut(s)	319
PleI	GAGTC	1 cut(s)	391
PmaCI	CACGTG	1 cut(s)	232
PmlI	CACGTG	1 cut(s)	232
PpsI	GAGTC	1 cut(s)	391
Ppu21I	YACGTR	1 cut(s)	232
PspCI	CACGTG	1 cut(s)	232
PspFI	CCCAGC	1 cut(s)	121
PspN4I	GGNNCC	1 cut(s)	869
PspPI	GGNCC	1 cut(s)	55
PstI	CTGCAG	1 cut(s)	33
PsuI	RGATCY	1 cut(s)	257
PvuII	CAGCTG	2 cut(s)	342, 449
RsaI	GTAC	6 cut(s)	64, 119, 200, 209, 532, 853
RsaNI	GTAC	6 cut(s)	63, 118, 199, 208, 531, 852
RseI	CAYNNNNRTG	1 cut(s)	899
SaqAI	TTAA	3 cut(s)	482, 648, 929
Sau3AI	GATC	2 cut(s)	257, 562
Sau96I	GGNCC	1 cut(s)	55
ScaI	AGTACT	1 cut(s)	64
SchI	GAGTC	1 cut(s)	391
SfaNI	GCATC	4 cut(s)	102, 144, 661, 874
SfcI	CTRYAG	3 cut(s)	29, 444, 461
SgrAI	CRCCGGYG	1 cut(s)	356
SinI	GGWCC	1 cut(s)	55
SmiMI	CAYNNNNRTG	1 cut(s)	899
Sse9I	AATT	3 cut(s)	328, 428, 477
SseBI	AGGCCT	1 cut(s)	778
SspMI	CTAG	3 cut(s)	630, 771, 804
StuI	AGGCCT	1 cut(s)	778
StyI	CCWWGG	2 cut(s)	803, 862
TaaI	ACNGT	1 cut(s)	901
TaiI	ACGT	2 cut(s)	76, 234
TaqI	TCGA	1 cut(s)	913
TasI	AATT	3 cut(s)	328, 428, 477
TatI	WGTACW	1 cut(s)	62
TfiI	GAWTC	1 cut(s)	20
Tru1I	TTAA	3 cut(s)	482, 648, 929
Tru9I	TTAA	3 cut(s)	482, 648, 929
TscAI	CASTG	3 cut(s)	107, 320, 906
TseFI	GTSAC	2 cut(s)	536, 732
Tsp45I	GTSAC	2 cut(s)	536, 732
TspDTI	ATGAA	2 cut(s)	741, 767
TspGWI	ACGGA	3 cut(s)	432, 497, 509
TspRI	CASTG	3 cut(s)	107, 320, 906
Van91I	CCANNNNNTGG	1 cut(s)	319
VpaK11BI	GGWCC	1 cut(s)	55
XapI	RAATTY	1 cut(s)	428
XceI	RCATGY	1 cut(s)	443
XmaJI	CCTAGG	1 cut(s)	803
XspI	CTAG	3 cut(s)	630, 771, 804
ZrmI	AGTACT	1 cut(s)	64

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