Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0005574

Physical Location & Seq

Genomic Coordinates Reverse (-)

2188307 .. 2192153

Gene Structure 3847 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG030700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGATGCAACCCGGCTCCGGTCTGGCTCCGTCGCAAATGGGCCAGCAGCCGGCCCAGCAGTACGGCCAGCAGCCGCCCGCCGCCCAGCCCTACATGATGATGCCGCCTCCGCCTCCCGCCGTCCAGGCCCCGCCGATGTGGGCCCCGCAGTCGCACGTGGCCCCGCCGCAGCCGCAGCCGGCCCAGCCCACCAGCGCCGACGAGGTCCGCACGCTCTGGATCGGCGACTTGCAGTACTGGATGGAAGAGACCTATCTTTTCAGTATCTTCGCCAACACCGGCGAGGTTGTTAGTGTGAAAGTCATCCGGAATAAGCAAACTACTCAATCGGAGGGCTATGGGTTTATTGAGTTTGTTAATCGAGCTGCTGCAGAAAGAGTGCTTCAGACGTACAATGGTACCCCTATGCCAAATGGTGGCCAGCCTTTCAGATTGAACTGGGCATCTGCAGGGGAGAAGCGTTCTGATGATACGCCTGATTATACAATATTTGTGGGCGACTTGGCTGTGGATGTGACAGATTATATGCTACAAGAGATATTTAAGGCTCGCTATCCATCATGCAAGGGAGCCAAGGTTGTTATTGACAGACTTACCGGGCGCACCAAGGGATATGGGTTTGTTAAGTTTGGAGATGAGAGTGAACAGTTGCGTGCAATGACCGAGATGAATGGAGTTGTTTGCTCTTCACGGCCCATGCGAATTGGGCCAGCTGCAAACAAAAATGCTGGGGGCAATCAGCAATATTCAAAAGGTATGTTTGTTATAGTTCTGGTATTCGAAGCTTTTTTGCTGTGGTTGTCTGCAAAGTACCAATTTCTTGTTTGTTGCTTCTTCCTCTACGACTTGCTTCTTTTTTCTTTTCTTTTTCTTTTTTCCCCCGTGTGCACTTCTAGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0003727 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006950 GO:0006979 GO:0008143 GO:0008150 GO:0009719 GO:0009725 GO:0009735 GO:0010033 GO:0010035 GO:0010193 GO:0042221 GO:0042493 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0046677 GO:0050896 GO:0070717 GO:0097159 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RRM_1

Protein Analysis

299

Amino Acids

33.26

Weight (kDa)

5.93

Isoelectric Point (pI)

54.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	72 - 136	5.4e-13	RNA recognition motif
RRM_1	PF00076	163 - 232	2.6e-13	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0005574)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11650 AT1G11650
fragaria_vesca	FvH4_3g02320
malus_domestica	MD10G1319600.v1.1
prunus_persica	Prupe.4G022900_v2.0.a1 Prupe.4G022900_v2.0.a1
pyrus_communis	pycom10g27050
rosa_chinensis	RchiOBHm_Chr5g0003511 RchiOBHm_Chr5g0003531
rosa_laevigata	RLG00000015982 RLG00000031149
rosa_multiflora	Rmu_sc0004279.1_g000010 Rmu_sc0004279.1_g000022 Rmu_sc0009787.1_g000004 Rmu_sc0009787.1_g000007
rosa_roxburghii	Rroxscaffold_1G00072430
rosa_rugosa	Rorug01G0486600 Rorug04G0403900
rosa_samantha	Rh2AG042000 Rh2CG041400 Rh2DG041000 Rh5AG030600 Rh5AG031000 Rh5BG030100 Rh5CG033500 Rh5DG030700
rosa_wichuraiana	Rw5G002850 Rw5G002890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	398
AccB1I	GGYRCC	1 cut(s)	398
AccB7I	CCANNNNNTGG	1 cut(s)	416
AccIII	TCCGGA	1 cut(s)	306
AclWI	GGATC	1 cut(s)	227
AcoI	YGGCCR	2 cut(s)	64, 418
AcuI	CTGAAG	1 cut(s)	368
AcvI	CACGTG	1 cut(s)	157
AfaI	GTAC	5 cut(s)	62, 236, 392, 400, 812
AfiI	CCNNNNNNNGG	3 cut(s)	17, 49, 416
AgsI	TTSAA	2 cut(s)	436, 750
AjnI	CCWGG	1 cut(s)	123
AluBI	AGCT	3 cut(s)	365, 713, 785
AluI	AGCT	3 cut(s)	365, 713, 785
Alw21I	GWGCWC	1 cut(s)	890
Alw26I	GTCTC	1 cut(s)	242
Alw44I	GTGCAC	1 cut(s)	886
AlwI	GGATC	1 cut(s)	227
Aor13HI	TCCGGA	1 cut(s)	306
ApaI	GGGCCC	1 cut(s)	145
ApaLI	GTGCAC	1 cut(s)	886
ApeKI	GCWGC	7 cut(s)	46, 70, 169, 175, 365, 368, 713
Asp718I	GGTACC	1 cut(s)	398
AspLEI	GCGC	2 cut(s)	197, 603
AsuC2I	CCSGG	2 cut(s)	12, 598
AsuII	TTCGAA	1 cut(s)	780
AvaII	GGWCC	1 cut(s)	205
BaeGI	GKGCMC	2 cut(s)	145, 890
BaeI	ACNNNNGTAYC	2 cut(s)	382, 415
BalI	TGGCCA	1 cut(s)	420
BanI	GGYRCC	1 cut(s)	398
BanII	GRGCYC	1 cut(s)	145
BbrPI	CACGTG	1 cut(s)	157
Bbv12I	GWGCWC	1 cut(s)	890
BbvI	GCAGC	7 cut(s)	58, 82, 181, 187, 352, 355, 700
BccI	CCATC	2 cut(s)	235, 565
BceAI	ACGGC	3 cut(s)	79, 104, 707
BciT130I	CCWGG	1 cut(s)	125
BcnI	CCSGG	2 cut(s)	12, 598
BcoDI	GTCTC	1 cut(s)	242
BfaI	CTAG	1 cut(s)	894
BfmI	CTRYAG	2 cut(s)	369, 447
BfoI	RGCGCY	1 cut(s)	198
BglI	GCCNNNNNGGC	1 cut(s)	125
BmcAI	AGTACT	1 cut(s)	236
Bme1390I	CCNGG	3 cut(s)	12, 125, 598
Bme18I	GGWCC	1 cut(s)	205
BmiI	GGNNCC	8 cut(s)	16, 27, 129, 143, 144, 162, 400, 571
BmrFI	CCNGG	3 cut(s)	12, 125, 598
BmrI	ACTGGG	1 cut(s)	448
BmsI	GCATC	2 cut(s)	90, 452
BmuI	ACTGGG	1 cut(s)	448
Bpu14I	TTCGAA	1 cut(s)	780
BpuMI	CCSGG	2 cut(s)	12, 598
BsaAI	YACGTR	1 cut(s)	157
BsaI	GGTCTC	1 cut(s)	242
BsaJI	CCNNGG	2 cut(s)	573, 606
BsaWI	WCCGGW	2 cut(s)	17, 306
BsaXI	ACNNNNNCTCC	2 cut(s)	561, 591
Bsc4I	CCNNNNNNNGG	3 cut(s)	17, 49, 416
Bse118I	RCCGGY	3 cut(s)	49, 178, 278
Bse1I	ACTGG	2 cut(s)	242, 443
Bse3DI	GCAATG	1 cut(s)	663
BseAI	TCCGGA	1 cut(s)	306
BseBI	CCWGG	1 cut(s)	125
BseDI	CCNNGG	2 cut(s)	573, 606
BseGI	GGATG	3 cut(s)	246, 303, 517
BseLI	CCNNNNNNNGG	3 cut(s)	17, 49, 416
BseMI	GCAATG	1 cut(s)	663
BseNI	ACTGG	2 cut(s)	242, 443
BseSI	GKGCMC	2 cut(s)	145, 890
BseXI	GCAGC	7 cut(s)	58, 82, 181, 187, 352, 355, 700
BseYI	CCCAGC	4 cut(s)	54, 84, 183, 728
BshNI	GGYRCC	1 cut(s)	398
BsiHKAI	GWGCWC	1 cut(s)	890
BsiSI	CCGG	7 cut(s)	12, 18, 50, 179, 279, 307, 597
BslI	CCNNNNNNNGG	3 cut(s)	17, 49, 416
BsmAI	GTCTC	1 cut(s)	242
Bso31I	GGTCTC	1 cut(s)	242
Bsp119I	TTCGAA	1 cut(s)	780
Bsp120I	GGGCCC	1 cut(s)	141
Bsp1286I	GDGCHC	2 cut(s)	145, 890
Bsp13I	TCCGGA	1 cut(s)	306
Bsp143I	GATC	1 cut(s)	219
BspEI	TCCGGA	1 cut(s)	306
BspLI	GGNNCC	8 cut(s)	16, 27, 129, 143, 144, 162, 400, 571
BspMAI	CTGCAG	2 cut(s)	373, 451
BspPI	GGATC	1 cut(s)	227
BspQI	GCTCTTC	1 cut(s)	691
BspT104I	TTCGAA	1 cut(s)	780
BspT107I	GGYRCC	1 cut(s)	398
BspTNI	GGTCTC	1 cut(s)	242
BsrDI	GCAATG	1 cut(s)	663
BsrFI	RCCGGY	3 cut(s)	49, 178, 278
BsrI	ACTGG	2 cut(s)	242, 443
BssAI	RCCGGY	3 cut(s)	49, 178, 278
BssECI	CCNNGG	2 cut(s)	573, 606
BssMI	GATC	1 cut(s)	219
BssT1I	CCWWGG	2 cut(s)	573, 606
Bst2UI	CCWGG	1 cut(s)	125
Bst4CI	ACNGT	1 cut(s)	648
Bst6I	CTCTTC	2 cut(s)	240, 691
BstBAI	YACGTR	1 cut(s)	157
BstBI	TTCGAA	1 cut(s)	780
BstF5I	GGATG	3 cut(s)	246, 303, 517
BstH2I	RGCGCY	1 cut(s)	198
BstHHI	GCGC	2 cut(s)	197, 603
BstKTI	GATC	1 cut(s)	222
BstMAI	GTCTC	1 cut(s)	242
BstMBI	GATC	1 cut(s)	219
BstMWI	GCNNNNNNNGC	7 cut(s)	55, 109, 125, 172, 175, 184, 706
BstNI	CCWGG	1 cut(s)	125
BstSCI	CCNGG	3 cut(s)	10, 123, 596
BstSFI	CTRYAG	2 cut(s)	369, 447
BstSLI	GKGCMC	2 cut(s)	145, 890
BstV1I	GCAGC	7 cut(s)	58, 82, 181, 187, 352, 355, 700
BtsCI	GGATG	3 cut(s)	246, 303, 517
CfoI	GCGC	2 cut(s)	197, 603
Cfr10I	RCCGGY	3 cut(s)	49, 178, 278
Csp6I	GTAC	5 cut(s)	61, 235, 391, 399, 811
CspCI	CAANNNNNGTGG	2 cut(s)	474, 509
CviAII	CATG	3 cut(s)	94, 561, 697
CviQI	GTAC	5 cut(s)	61, 235, 391, 399, 811
DpnI	GATC	1 cut(s)	221
DpnII	GATC	1 cut(s)	219
EaeI	YGGCCR	2 cut(s)	64, 418
Eam1104I	CTCTTC	2 cut(s)	240, 691
EarI	CTCTTC	2 cut(s)	240, 691
EciI	GGCGGA	1 cut(s)	99
Eco130I	CCWWGG	2 cut(s)	573, 606
Eco24I	GRGCYC	1 cut(s)	145
Eco31I	GGTCTC	1 cut(s)	242
Eco47I	GGWCC	1 cut(s)	205
Eco57I	CTGAAG	1 cut(s)	368
Eco72I	CACGTG	1 cut(s)	157
EcoO109I	RGGNCCY	2 cut(s)	127, 142
EcoRII	CCWGG	1 cut(s)	123
EcoT14I	CCWWGG	2 cut(s)	573, 606
EcoT38I	GRGCYC	1 cut(s)	145
ErhI	CCWWGG	2 cut(s)	573, 606
FaeI	CATG	3 cut(s)	97, 564, 700
FatI	CATG	3 cut(s)	93, 560, 696
FauI	CCCGC	5 cut(s)	85, 124, 138, 153, 171
FokI	GGATG	3 cut(s)	253, 290, 524
FriOI	GRGCYC	1 cut(s)	145
FspBI	CTAG	1 cut(s)	894
GlaI	GCGC	2 cut(s)	196, 602
GsaI	CCCAGC	4 cut(s)	58, 88, 187, 732
HaeII	RGCGCY	1 cut(s)	198
HapII	CCGG	7 cut(s)	12, 18, 50, 179, 279, 307, 597
HhaI	GCGC	2 cut(s)	197, 603
Hin1II	CATG	3 cut(s)	97, 564, 700
Hin6I	GCGC	2 cut(s)	195, 601
HinP1I	GCGC	2 cut(s)	195, 601
HindIII	AAGCTT	1 cut(s)	783
HpaII	CCGG	7 cut(s)	12, 18, 50, 179, 279, 307, 597
Hpy166II	GTNNAC	2 cut(s)	644, 888
Hpy188I	TCNGA	4 cut(s)	331, 387, 431, 466
Hpy188III	TCNNGA	2 cut(s)	217, 307
Hpy8I	GTNNAC	2 cut(s)	644, 888
Hpy99I	CGWCG	2 cut(s)	34, 203
HpyCH4III	ACNGT	1 cut(s)	648
HpyCH4IV	ACGT	2 cut(s)	156, 389
HpyCH4V	TGCA	9 cut(s)	7, 232, 371, 449, 564, 656, 716, 806, 888
HpyF10VI	GCNNNNNNNGC	7 cut(s)	55, 109, 125, 172, 175, 184, 706
HpySE526I	ACGT	2 cut(s)	156, 389
Hsp92II	CATG	3 cut(s)	97, 564, 700
HspAI	GCGC	2 cut(s)	195, 601
Kpn2I	TCCGGA	1 cut(s)	306
KpnI	GGTACC	1 cut(s)	402
KroI	GCCGGC	2 cut(s)	49, 178
KroNI	GCCGGC	2 cut(s)	51, 180
Kzo9I	GATC	1 cut(s)	219
LguI	GCTCTTC	1 cut(s)	691
LmnI	GCTCC	3 cut(s)	20, 31, 569
Lsp1109I	GCAGC	7 cut(s)	58, 82, 181, 187, 352, 355, 700
LweI	GCATC	2 cut(s)	90, 452
MaeI	CTAG	1 cut(s)	894
MaeII	ACGT	2 cut(s)	156, 389
MaeIII	GTNAC	1 cut(s)	514
MalI	GATC	1 cut(s)	221
MboI	GATC	1 cut(s)	219
MboII	GAAGA	4 cut(s)	257, 259, 678, 826
MhlI	GDGCHC	2 cut(s)	145, 890
MlsI	TGGCCA	1 cut(s)	420
MluCI	AATT	2 cut(s)	702, 815
MluNI	TGGCCA	1 cut(s)	420
MnlI	CCTC	6 cut(s)	117, 123, 196, 277, 325, 848
Mox20I	TGGCCA	1 cut(s)	420
MroI	TCCGGA	1 cut(s)	306
MroNI	GCCGGC	2 cut(s)	49, 178
MscI	TGGCCA	1 cut(s)	420
MseI	TTAA	3 cut(s)	357, 543, 624
MslI	CAYNNNNRTG	1 cut(s)	98
Msp20I	TGGCCA	1 cut(s)	420
MspA1I	CMGCKG	1 cut(s)	713
MspI	CCGG	7 cut(s)	12, 18, 50, 179, 279, 307, 597
MspR9I	CCNGG	3 cut(s)	12, 125, 598
MvaI	CCWGG	1 cut(s)	125
MwoI	GCNNNNNNNGC	7 cut(s)	55, 109, 125, 172, 175, 184, 706
NaeI	GCCGGC	2 cut(s)	51, 180
NciI	CCSGG	2 cut(s)	12, 598
NdeII	GATC	1 cut(s)	219
NgoMIV	GCCGGC	2 cut(s)	49, 178
NlaIII	CATG	3 cut(s)	97, 564, 700
NlaIV	GGNNCC	8 cut(s)	16, 27, 129, 143, 144, 162, 400, 571
NmuCI	GTSAC	1 cut(s)	514
NspV	TTCGAA	1 cut(s)	780
PciSI	GCTCTTC	1 cut(s)	691
PcsI	WCGNNNNNNNCGW	1 cut(s)	697
PdiI	GCCGGC	2 cut(s)	51, 180
PflFI	GACNNNGTC	1 cut(s)	203
PflMI	CCANNNNNTGG	1 cut(s)	416
PmaCI	CACGTG	1 cut(s)	157
PmlI	CACGTG	1 cut(s)	157
Ppu21I	YACGTR	1 cut(s)	157
Psp6I	CCWGG	1 cut(s)	123
PspCI	CACGTG	1 cut(s)	157
PspFI	CCCAGC	4 cut(s)	54, 84, 183, 728
PspGI	CCWGG	1 cut(s)	123
PspN4I	GGNNCC	8 cut(s)	16, 27, 129, 143, 144, 162, 400, 571
PspOMI	GGGCCC	1 cut(s)	141
PstI	CTGCAG	2 cut(s)	373, 451
PsyI	GACNNNGTC	1 cut(s)	203
PvuII	CAGCTG	1 cut(s)	713
RsaI	GTAC	5 cut(s)	62, 236, 392, 400, 812
RsaNI	GTAC	5 cut(s)	61, 235, 391, 399, 811
RseI	CAYNNNNRTG	1 cut(s)	98
SapI	GCTCTTC	1 cut(s)	691
SaqAI	TTAA	3 cut(s)	357, 543, 624
Sau3AI	GATC	1 cut(s)	219
ScaI	AGTACT	1 cut(s)	236
ScrFI	CCNGG	3 cut(s)	12, 125, 598
SduI	GDGCHC	2 cut(s)	145, 890
SfaNI	GCATC	2 cut(s)	90, 452
SfcI	CTRYAG	2 cut(s)	369, 447
SfuI	TTCGAA	1 cut(s)	780
SgrAI	CRCCGGYG	1 cut(s)	278
SinI	GGWCC	1 cut(s)	205
SmiMI	CAYNNNNRTG	1 cut(s)	98
Sse9I	AATT	2 cut(s)	702, 815
SspI	AATATT	2 cut(s)	489, 746
SspMI	CTAG	1 cut(s)	894
StyD4I	CCNGG	3 cut(s)	10, 123, 596
StyI	CCWWGG	2 cut(s)	573, 606
TaaI	ACNGT	1 cut(s)	648
TaiI	ACGT	2 cut(s)	159, 392
TaqI	TCGA	2 cut(s)	361, 780
TaqII	GACCGA	1 cut(s)	677
TasI	AATT	2 cut(s)	702, 815
TatI	WGTACW	1 cut(s)	234
TauI	GCSGC	5 cut(s)	76, 83, 106, 169, 175
Tru1I	TTAA	3 cut(s)	357, 543, 624
Tru9I	TTAA	3 cut(s)	357, 543, 624
TseFI	GTSAC	1 cut(s)	514
TseI	GCWGC	7 cut(s)	46, 70, 169, 175, 365, 368, 713
Tsp45I	GTSAC	1 cut(s)	514
TspDTI	ATGAA	1 cut(s)	683
TspGWI	ACGGA	1 cut(s)	18
Tth111I	GACNNNGTC	1 cut(s)	203
Van91I	CCANNNNNTGG	1 cut(s)	416
VneI	GTGCAC	1 cut(s)	886
VpaK11BI	GGWCC	1 cut(s)	205
XspI	CTAG	1 cut(s)	894
ZrmI	AGTACT	1 cut(s)	236

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