Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0005789

Physical Location & Seq

Genomic Coordinates Forward (+)

43417757 .. 43420269

Gene Structure 2513 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0262200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1056 bp

ATGGATGGTAACAAAGATGAAGCTTTGAGATGTGTTGGAATTGCGGAGGAGGCAATTGCAGCCGGTAACAAAGCGCGTGCTACCAAGTTTATCAAAATAGCCCAACGCCTTAATCAGAATTTGCAAGTTAATGAGCTCTTGGCTGCCTGCGAGAGGCTCGATTCGGGGTCTTCGGCATCTTCCACTCAGGAAGAGGGTGTTGGTGAGACTAGTAAGGAGGTTGGGAAGGAGAAATTGGGGCAGGGGTTGAATGGGGAGAGGATTTATACTGAAGAGCATGTTCAGTTGATTAGGCAGGTGAAGAGGAATAAAGATTATTATGCTATTCTCGGTGTGGAGAAGACTTGCTCGGTTGAGGAGATTAGGAAGGCTTATAGGAAGTTGTCGTTGAAAGTTCATCCTGACAAGAACAAGGCTCCTGGTTCGGAAGAGGCGTTTAAGATTGTCAGCAAGGCTTTTAAGTGTTTGAGTGATGTGAATTCGAGGAGGCAGTATGATGAGACTGGATTGGTTGAGGAGTTTGAGTACAACCAGCAGCACGATGTGAGGAGGAGGCGGAGGAGGAGAACTGGGAATGACATGTTTGATGATGATTTTGACCCCGATGAGATATTCAGGGCATTCTTTGGTCAGTCAGACATGTTTAGGACAGGTCAAGTTTACAGGACTAGAGGAACTGGTGGCCTTCATAGGGAGGAGGTTCAGCATGGGGGACTCAACATTATGCTTCTTATTCAAATATTACCTTTCTTGGTAATTTTATTGCTTGCATATCTGCCCTTCACAGAGCCCGAATATGCTTTGCATAAGAATTTCAACTACCAGATTCCCAAGACAACTGAGAGACATGGAGTGGAGTTTTTTGTTAAATCACCAATATTTGATGAGAGTTATCCTCTTGGAAGTTCCGCTCGAGCTAAAATTGAGGACAGCGTCATCAAGGATTACAAAAATGTGCTTGTACACTACTGTCGTGTTGAGCTTCAGAGGCGTCACTGGAATAAGAAAATGTCTACTCCTCACTGCGATAAGTTAAACGCCCTTGAAGTAGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0017069 GO:0030619 GO:0030620 GO:0034641 GO:0043170 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Coilin_N

Protein Analysis

351

Amino Acids

40.3

Weight (kDa)

8.38

Isoelectric Point (pI)

55.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DnaJ	PF00226	105 - 166	2.4e-24	DnaJ domain
DUF1977	PF09320	262 - 332	9.8e-07	Domain of unknown function (DUF1977)

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

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

Orthologous Genes (Group: OG0005789)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13030
fragaria_vesca	FvH4_4g25440 FvH4_4g25440 FvH4_4g25440 FvH4_4g25440 FvH4_4g25440
malus_domestica	MD13G1102900.v1.1 MD16G1103100.v1.1
prunus_persica	Prupe.1G242900_v2.0.a1 Prupe.1G242900_v2.0.a1 Prupe.1G242900_v2.0.a1 Prupe.1G242900_v2.0.a1 Prupe.1G242900_v2.0.a1 Prupe.1G242900_v2.0.a1 Prupe.1G242900_v2.0.a1
pyrus_communis	pycom13g09000 pycom16g08780
rosa_chinensis	RchiOBHm_Chr4g0432751
rosa_laevigata	RLG00000006815
rosa_multiflora	Rmu_sc0012180.1_g000008
rosa_roxburghii	Rroxscaffold_5G00374210
rosa_rugosa	Rorug04G0262200 Rorug04G0262200
rosa_samantha	Rh4AG316700 Rh4BG324800 Rh4CG339800 Rh4DG320000
rosa_wichuraiana	Rw4G027550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	286
Acc36I	ACCTGC	1 cut(s)	286
AccBSI	CCGCTC	1 cut(s)	911
AccI	GTMKAC	1 cut(s)	1013
AccII	CGCG	1 cut(s)	76
AciI	CCGC	3 cut(s)	44, 556, 909
AcsI	RAATTY	3 cut(s)	118, 478, 811
AcuI	CTGAAG	2 cut(s)	291, 968
AcyI	GRCGYC	1 cut(s)	991
AdeI	CACNNNGTG	1 cut(s)	544
AfaI	GTAC	2 cut(s)	527, 963
AfiI	CCNNNNNNNGG	2 cut(s)	153, 691
AflIII	ACRYGT	2 cut(s)	579, 639
AgsI	TTSAA	5 cut(s)	250, 391, 737, 817, 1046
AhlI	ACTAGT	1 cut(s)	209
AjnI	CCWGG	1 cut(s)	418
AjuI	GAANNNNNNNTTGG	4 cut(s)	183, 215, 218, 250
AluBI	AGCT	5 cut(s)	23, 136, 917, 982, 1052
AluI	AGCT	5 cut(s)	23, 136, 917, 982, 1052
Alw21I	GWGCWC	1 cut(s)	138
Alw26I	GTCTC	3 cut(s)	200, 494, 838
Ama87I	CYCGRG	1 cut(s)	912
AoxI	GGCC	1 cut(s)	682
ApeKI	GCWGC	3 cut(s)	59, 143, 535
ApoI	RAATTY	3 cut(s)	118, 478, 811
AspLEI	GCGC	1 cut(s)	76
AsuHPI	GGTGA	3 cut(s)	215, 310, 864
AvaI	CYCGRG	1 cut(s)	912
BanII	GRGCYC	2 cut(s)	138, 792
BbsI	GAAGAC	2 cut(s)	162, 347
Bbv12I	GWGCWC	1 cut(s)	138
BbvI	GCAGC	3 cut(s)	71, 130, 547
BciT130I	CCWGG	1 cut(s)	420
BcoDI	GTCTC	3 cut(s)	200, 494, 838
BcuI	ACTAGT	1 cut(s)	209
BfaI	CTAG	2 cut(s)	210, 669
BfuAI	ACCTGC	1 cut(s)	286
BisI	GCNGC	3 cut(s)	60, 144, 536
BlsI	GCNGC	3 cut(s)	61, 145, 537
Bme1390I	CCNGG	1 cut(s)	420
BmeT110I	CYCGRG	1 cut(s)	912
BmiI	GGNNCC	1 cut(s)	417
BmrFI	CCNGG	1 cut(s)	420
BmrI	ACTGGG	1 cut(s)	579
BmsI	GCATC	1 cut(s)	185
BmuI	ACTGGG	1 cut(s)	579
BpiI	GAAGAC	2 cut(s)	162, 347
BplI	GAGNNNNNCTC	2 cut(s)	880, 912
BsaHI	GRCGYC	1 cut(s)	991
BsaXI	ACNNNNNCTCC	2 cut(s)	509, 539
Bsc4I	CCNNNNNNNGG	2 cut(s)	153, 691
Bse118I	RCCGGY	1 cut(s)	62
Bse1I	ACTGG	4 cut(s)	508, 574, 682, 1001
BseBI	CCWGG	1 cut(s)	420
BseGI	GGATG	2 cut(s)	10, 397
BseLI	CCNNNNNNNGG	2 cut(s)	153, 691
BseMII	CTCAG	2 cut(s)	200, 831
BseNI	ACTGG	4 cut(s)	508, 574, 682, 1001
BseXI	GCAGC	3 cut(s)	71, 130, 547
Bsh1236I	CGCG	1 cut(s)	76
BshFI	GGCC	1 cut(s)	684
BsiHKAI	GWGCWC	1 cut(s)	138
BsiHKCI	CYCGRG	1 cut(s)	912
BsiSI	CCGG	1 cut(s)	63
BslFI	GGGAC	1 cut(s)	726
BslI	CCNNNNNNNGG	2 cut(s)	153, 691
BsmAI	GTCTC	3 cut(s)	200, 494, 838
BsmFI	GGGAC	1 cut(s)	726
BsmI	GAATGC	1 cut(s)	620
BsnI	GGCC	1 cut(s)	684
BsoBI	CYCGRG	1 cut(s)	912
Bsp1286I	GDGCHC	2 cut(s)	138, 792
Bsp1407I	TGTACA	1 cut(s)	961
BspACI	CCGC	3 cut(s)	44, 556, 909
BspANI	GGCC	1 cut(s)	684
BspCNI	CTCAG	2 cut(s)	199, 832
BspFNI	CGCG	1 cut(s)	76
BspLI	GGNNCC	1 cut(s)	417
BspMI	ACCTGC	1 cut(s)	286
BspQI	GCTCTTC	1 cut(s)	267
BsrBI	CCGCTC	1 cut(s)	911
BsrFI	RCCGGY	1 cut(s)	62
BsrGI	TGTACA	1 cut(s)	961
BsrI	ACTGG	4 cut(s)	508, 574, 682, 1001
BssAI	RCCGGY	1 cut(s)	62
BssNI	GRCGYC	1 cut(s)	991
Bst2UI	CCWGG	1 cut(s)	420
Bst4CI	ACNGT	1 cut(s)	971
Bst6I	CTCTTC	4 cut(s)	186, 267, 296, 423
BstACI	GRCGYC	1 cut(s)	991
BstAUI	TGTACA	1 cut(s)	961
BstC8I	GCNNGC	3 cut(s)	78, 148, 768
BstDEI	CTNAG	2 cut(s)	186, 840
BstENI	CCTNNNNNAGG	1 cut(s)	151
BstF5I	GGATG	2 cut(s)	10, 397
BstFNI	CGCG	1 cut(s)	76
BstHHI	GCGC	1 cut(s)	76
BstMAI	GTCTC	3 cut(s)	200, 494, 838
BstMWI	GCNNNNNNNGC	3 cut(s)	50, 59, 988
BstNI	CCWGG	1 cut(s)	420
BstNSI	RCATGY	3 cut(s)	281, 583, 643
BstSCI	CCNGG	1 cut(s)	418
BstUI	CGCG	1 cut(s)	76
BstV1I	GCAGC	3 cut(s)	71, 130, 547
BstV2I	GAAGAC	2 cut(s)	162, 347
BsuRI	GGCC	1 cut(s)	684
BtsCI	GGATG	2 cut(s)	10, 397
BtsI	GCAGTG	1 cut(s)	1021
BtsIMutI	CAGTG	2 cut(s)	994, 1021
BveI	ACCTGC	1 cut(s)	286
Cac8I	GCNNGC	3 cut(s)	78, 148, 768
CfoI	GCGC	1 cut(s)	76
Cfr10I	RCCGGY	1 cut(s)	62
CseI	GACGC	2 cut(s)	922, 980
Csp6I	GTAC	2 cut(s)	526, 962
CviAII	CATG	5 cut(s)	278, 580, 640, 707, 848
CviQI	GTAC	2 cut(s)	526, 962
DdeI	CTNAG	2 cut(s)	186, 840
DraIII	CACNNNGTG	1 cut(s)	544
Eam1104I	CTCTTC	4 cut(s)	186, 267, 296, 423
EarI	CTCTTC	4 cut(s)	186, 267, 296, 423
EciI	GGCGGA	1 cut(s)	571
Ecl136II	GAGCTC	1 cut(s)	136
Eco24I	GRGCYC	2 cut(s)	138, 792
Eco53kI	GAGCTC	1 cut(s)	136
Eco57I	CTGAAG	2 cut(s)	291, 968
Eco88I	CYCGRG	1 cut(s)	912
EcoICRI	GAGCTC	1 cut(s)	136
EcoNI	CCTNNNNNAGG	1 cut(s)	151
EcoRI	GAATTC	1 cut(s)	478
EcoRII	CCWGG	1 cut(s)	418
EcoT38I	GRGCYC	2 cut(s)	138, 792
FaeI	CATG	5 cut(s)	281, 583, 643, 710, 851
FaqI	GGGAC	1 cut(s)	726
FatI	CATG	5 cut(s)	277, 579, 639, 706, 847
FblI	GTMKAC	1 cut(s)	1013
Fnu4HI	GCNGC	3 cut(s)	60, 144, 536
FokI	GGATG	2 cut(s)	17, 384
FriOI	GRGCYC	2 cut(s)	138, 792
Fsp4HI	GCNGC	3 cut(s)	60, 144, 536
FspBI	CTAG	2 cut(s)	210, 669
GlaI	GCGC	1 cut(s)	75
GluI	GCNGC	3 cut(s)	60, 144, 536
HaeIII	GGCC	1 cut(s)	684
HapII	CCGG	1 cut(s)	63
HgaI	GACGC	2 cut(s)	922, 980
HhaI	GCGC	1 cut(s)	76
Hin1I	GRCGYC	1 cut(s)	991
Hin1II	CATG	5 cut(s)	281, 583, 643, 710, 851
Hin6I	GCGC	1 cut(s)	74
HinP1I	GCGC	1 cut(s)	74
HindIII	AAGCTT	1 cut(s)	21
HinfI	GANTC	3 cut(s)	161, 714, 826
HpaII	CCGG	1 cut(s)	63
HphI	GGTGA	3 cut(s)	215, 310, 864
Hpy166II	GTNNAC	3 cut(s)	661, 964, 1014
Hpy188I	TCNGA	4 cut(s)	117, 427, 637, 987
Hpy188III	TCNNGA	2 cut(s)	188, 401
Hpy8I	GTNNAC	3 cut(s)	661, 964, 1014
HpyAV	CCTTC	4 cut(s)	220, 361, 695, 790
HpyCH4III	ACNGT	1 cut(s)	971
HpyCH4V	TGCA	4 cut(s)	59, 124, 770, 805
HpyF10VI	GCNNNNNNNGC	3 cut(s)	50, 59, 988
HpyF3I	CTNAG	2 cut(s)	186, 840
Hsp92I	GRCGYC	1 cut(s)	991
Hsp92II	CATG	5 cut(s)	281, 583, 643, 710, 851
HspAI	GCGC	1 cut(s)	74
LguI	GCTCTTC	1 cut(s)	267
LmnI	GCTCC	1 cut(s)	421
Lsp1109I	GCAGC	3 cut(s)	71, 130, 547
LweI	GCATC	1 cut(s)	185
MaeI	CTAG	2 cut(s)	210, 669
MaeIII	GTNAC	3 cut(s)	8, 65, 992
MbiI	CCGCTC	1 cut(s)	911
MboII	GAAGA	7 cut(s)	162, 171, 203, 284, 313, 352, 440
MfeI	CAATTG	1 cut(s)	54
MhlI	GDGCHC	2 cut(s)	138, 792
MluCI	AATT	8 cut(s)	39, 54, 118, 233, 478, 756, 811, 921
MlyI	GAGTC	1 cut(s)	708
MmeI	TCCRAC	1 cut(s)	16
MseI	TTAA	6 cut(s)	111, 129, 438, 459, 867, 1034
MspI	CCGG	1 cut(s)	63
MspR9I	CCNGG	1 cut(s)	420
MunI	CAATTG	1 cut(s)	54
Mva1269I	GAATGC	1 cut(s)	620
MvaI	CCWGG	1 cut(s)	420
MvnI	CGCG	1 cut(s)	76
MwoI	GCNNNNNNNGC	3 cut(s)	50, 59, 988
NlaIII	CATG	5 cut(s)	281, 583, 643, 710, 851
NlaIV	GGNNCC	1 cut(s)	417
NmuCI	GTSAC	1 cut(s)	992
NspI	RCATGY	3 cut(s)	281, 583, 643
PaeR7I	CTCGAG	1 cut(s)	912
PaqCI	CACCTGC	1 cut(s)	286
PciI	ACATGT	2 cut(s)	579, 639
PciSI	GCTCTTC	1 cut(s)	267
PcsI	WCGNNNNNNNCGW	1 cut(s)	431
PctI	GAATGC	1 cut(s)	620
PfeI	GAWTC	2 cut(s)	161, 826
PflFI	GACNNNGTC	1 cut(s)	932
PkrI	GCNGC	3 cut(s)	61, 145, 537
PleI	GAGTC	1 cut(s)	708
PpsI	GAGTC	1 cut(s)	708
PscI	ACATGT	2 cut(s)	579, 639
Psp124BI	GAGCTC	1 cut(s)	138
Psp6I	CCWGG	1 cut(s)	418
PspGI	CCWGG	1 cut(s)	418
PspN4I	GGNNCC	1 cut(s)	417
PspXI	VCTCGAGB	1 cut(s)	912
PsyI	GACNNNGTC	1 cut(s)	932
RsaI	GTAC	2 cut(s)	527, 963
RsaNI	GTAC	2 cut(s)	526, 962
SacI	GAGCTC	1 cut(s)	138
SapI	GCTCTTC	1 cut(s)	267
SaqAI	TTAA	6 cut(s)	111, 129, 438, 459, 867, 1034
SatI	GCNGC	3 cut(s)	60, 144, 536
SchI	GAGTC	1 cut(s)	708
ScrFI	CCNGG	1 cut(s)	420
SduI	GDGCHC	2 cut(s)	138, 792
SfaNI	GCATC	1 cut(s)	185
Sfr274I	CTCGAG	1 cut(s)	912
SlaI	CTCGAG	1 cut(s)	912
SmlI	CTYRAG	1 cut(s)	912
SmoI	CTYRAG	1 cut(s)	912
SpeI	ACTAGT	1 cut(s)	209
Sse9I	AATT	8 cut(s)	39, 54, 118, 233, 478, 756, 811, 921
SsiI	CCGC	3 cut(s)	44, 556, 909
SspI	AATATT	2 cut(s)	741, 879
SspMI	CTAG	2 cut(s)	210, 669
SstI	GAGCTC	1 cut(s)	138
StyD4I	CCNGG	1 cut(s)	418
TaaI	ACNGT	1 cut(s)	971
TaqI	TCGA	3 cut(s)	159, 482, 913
TasI	AATT	8 cut(s)	39, 54, 118, 233, 478, 756, 811, 921
TatI	WGTACW	2 cut(s)	525, 961
TfiI	GAWTC	2 cut(s)	161, 826
Tru1I	TTAA	6 cut(s)	111, 129, 438, 459, 867, 1034
Tru9I	TTAA	6 cut(s)	111, 129, 438, 459, 867, 1034
TscAI	CASTG	2 cut(s)	1001, 1028
TseFI	GTSAC	1 cut(s)	992
TseI	GCWGC	3 cut(s)	59, 143, 535
Tsp45I	GTSAC	1 cut(s)	992
TspDTI	ATGAA	3 cut(s)	33, 386, 677
TspRI	CASTG	2 cut(s)	1001, 1028
Tth111I	GACNNNGTC	1 cut(s)	932
XagI	CCTNNNNNAGG	1 cut(s)	151
XapI	RAATTY	3 cut(s)	118, 478, 811
XceI	RCATGY	3 cut(s)	281, 583, 643
XhoI	CTCGAG	1 cut(s)	912
XmiI	GTMKAC	1 cut(s)	1013
XspI	CTAG	2 cut(s)	210, 669

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