Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0009212

Physical Location & Seq

Genomic Coordinates Forward (+)

70148878 .. 70150380

Gene Structure 1503 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000020920

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGGGACCTAATGGAGGGTTCAGTTACTATGTGTTCAAACAACTATATGCGAGGAAACAATTTTCCAAACTTCTCAGGCTTGGGGAAGAGTTTCACGAAGCACTCTCAATATTTTTAAAGTATCATCCAGATCTTCTGTGGCTTCATGAACTGTTTCTTCATCAGTTTTCTTCAGCTTCAGACACCCTTCATGAATTAGCTCTTTCTCAAGAAAAAAGCTCAATTTCAGAGGCCGAAGATGGGACTGGTCTTGGGCATCTCACTACATTACCGAAGCTGGCAGATAGAAAGCGTCTTTTGAATCTCTCAAAAATAGCTGCAATTGCAGGTAAGGATGCTGACTGTGAGATCAAAGTGAAGCGCATTGAGGCTGATTTGAAGATCCTAAAAGTGCAGGAAGAAGTAATAGAACTCCTGTCTTCTGATGAAACAAAGCAAAACCTTGACAAGCAGCTACTTCATCCAGAAGATCTTATCAAACTGTGCCTCGAAGGTGAAAGCGCAGAGCTCTCATTGCGGGCTTTTGATGTTTTTGCATGGACCAGCTCCTCCTTTCGTAGGACCCATGCAAACCTCTTGGACGATTGCTGGAGAAATGCCGCTGATCAAGATGATTGGAGTAAAATGTACCAAGCATCGGTATCTGAAGGGTGGAGTGATGAGGAAACCTTGCAGAACCTGAAAGTGACGGTACTTTTTCAGGCTTCAAGTAGATGTTACGGACCTAAAGCTGAGACTTTTGGAGAAGGGTTTGATGAAGTGCTCCCACTGAGACAGGAAATTGTGGAGCCTTCAACCATGAAAGATTCAGTTTCTTCTGTAGAGGCCATACTTATGCAGCACAAGGACTACTCGGAGGCTGGGAAGCTGATGCTCACTGCAATCATGCTAGGTAGTGTACAGTATGACACCATAGAGGAGGAGGGTCCTGTTCCTATGGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000972 GO:0003674 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005643 GO:0005737 GO:0006325 GO:0006355 GO:0006403 GO:0006405 GO:0006606 GO:0006810 GO:0006886 GO:0006913 GO:0006996 GO:0006997 GO:0008104 GO:0008150 GO:0009507 GO:0009536 GO:0009889 GO:0009987 GO:0010468 GO:0010556 GO:0012505 GO:0015031 GO:0015833 GO:0015931 GO:0016043 GO:0017038 GO:0017056 GO:0019219 GO:0019222 GO:0031080 GO:0031081 GO:0031323 GO:0031326 GO:0031503 GO:0031967 GO:0031975 GO:0032991 GO:0033036 GO:0033365 GO:0034504 GO:0034613 GO:0034629 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0050657 GO:0050658 GO:0050789 GO:0050794 GO:0051168 GO:0051169 GO:0051170 GO:0051171 GO:0051179 GO:0051234 GO:0051236 GO:0051252 GO:0051276 GO:0051641 GO:0051649 GO:0051664 GO:0051668 GO:0060255 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0072594 GO:0080090 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03013 map03013

Pfam Domains

Protein Families

Nucleoporin_C Nucleoporin_N

Protein Analysis

315

Amino Acids

35.48

Weight (kDa)

4.89

Isoelectric Point (pI)

46.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Nucleoporin_C	PF03177	7 - 159	5.8e-10	Non-repetitive/WGA-negative nucleoporin C-terminal

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

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Orthologous Genes (Group: OG0009212)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G05120 AT2G05120
fragaria_vesca	FvH4_6g40930 FvH4_6g40930 FvH4_6g40930 FvH4_6g40930 FvH4_6g40930
malus_domestica	MD17G1113600.v1.1
prunus_persica	Prupe.3G200800_v2.0.a1
pyrus_communis	pycom17g10520
rosa_chinensis	RchiOBHm_Chr2g0156551
rosa_laevigata	RLG00000020920
rosa_multiflora	Rmu_sc0002717.1_g000003
rosa_roxburghii	Rroxscaffold_2G00092950
rosa_rugosa	Rorug02G0454100 Rorug02G0454200 Rorug02G0454300
rosa_samantha	Rh2AG520000 Rh2BG532500 Rh2CG505000 Rh2DG541400
rosa_wichuraiana	Rw2G042870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	317
AciI	CCGC	2 cut(s)	517, 600
AclWI	GGATC	1 cut(s)	376
AcuI	CTGAAG	3 cut(s)	156, 162, 666
AfaI	GTAC	3 cut(s)	629, 693, 900
AfiI	CCNNNNNNNGG	4 cut(s)	14, 240, 558, 637
AgsI	TTSAA	5 cut(s)	37, 301, 379, 708, 795
Alw21I	GWGCWC	2 cut(s)	510, 765
Alw26I	GTCTC	2 cut(s)	728, 766
AlwI	GGATC	1 cut(s)	376
AlwNI	CAGNNNCTG	1 cut(s)	679
AoxI	GGCC	2 cut(s)	231, 825
ApeKI	GCWGC	3 cut(s)	317, 451, 838
Asp700I	GAANNNNTTC	2 cut(s)	90, 153
AspLEI	GCGC	2 cut(s)	363, 503
AspS9I	GGNCC	5 cut(s)	5, 540, 561, 722, 926
AsuHPI	GGTGA	1 cut(s)	506
AvaII	GGWCC	5 cut(s)	5, 540, 561, 722, 926
BanII	GRGCYC	1 cut(s)	510
BbsI	GAAGAC	1 cut(s)	411
Bbv12I	GWGCWC	2 cut(s)	510, 765
BbvI	GCAGC	3 cut(s)	304, 463, 850
BccI	CCATC	1 cut(s)	233
BclI	TGATCA	1 cut(s)	604
BcoDI	GTCTC	2 cut(s)	728, 766
BfaI	CTAG	1 cut(s)	890
BfmI	CTRYAG	1 cut(s)	819
BfuAI	ACCTGC	1 cut(s)	317
BglII	AGATCT	2 cut(s)	130, 469
BisI	GCNGC	4 cut(s)	318, 452, 600, 839
BlsI	GCNGC	4 cut(s)	319, 453, 601, 840
Bme18I	GGWCC	5 cut(s)	5, 540, 561, 722, 926
BmgT120I	GGNCC	5 cut(s)	5, 540, 561, 722, 926
BmiI	GGNNCC	4 cut(s)	6, 563, 789, 927
BmsI	GCATC	4 cut(s)	265, 325, 644, 861
BpiI	GAAGAC	1 cut(s)	411
BpmI	CTGGAG	1 cut(s)	610
BpuEI	CTTGAG	1 cut(s)	192
Bsc4I	CCNNNNNNNGG	4 cut(s)	14, 240, 558, 637
Bse1I	ACTGG	1 cut(s)	250
Bse3DI	GCAATG	1 cut(s)	512
BseGI	GGATG	3 cut(s)	124, 340, 460
BseLI	CCNNNNNNNGG	4 cut(s)	14, 240, 558, 637
BseMI	GCAATG	1 cut(s)	512
BseMII	CTCAG	3 cut(s)	88, 723, 761
BseNI	ACTGG	1 cut(s)	250
BseRI	GAGGAG	3 cut(s)	538, 932, 935
BseXI	GCAGC	3 cut(s)	304, 463, 850
BseYI	CCCAGC	1 cut(s)	860
BsgI	GTGCAG	1 cut(s)	413
BshFI	GGCC	2 cut(s)	233, 827
BsiHKAI	GWGCWC	2 cut(s)	510, 765
BslFI	GGGAC	2 cut(s)	18, 256
BslI	CCNNNNNNNGG	4 cut(s)	14, 240, 558, 637
BsmAI	GTCTC	2 cut(s)	728, 766
BsmFI	GGGAC	2 cut(s)	18, 256
BsnI	GGCC	2 cut(s)	233, 827
Bsp1286I	GDGCHC	2 cut(s)	510, 765
Bsp1407I	TGTACA	1 cut(s)	898
Bsp143I	GATC	5 cut(s)	130, 348, 381, 469, 604
BspACI	CCGC	2 cut(s)	517, 600
BspANI	GGCC	2 cut(s)	233, 827
BspCNI	CTCAG	3 cut(s)	87, 724, 762
BspHI	TCATGA	2 cut(s)	145, 190
BspLI	GGNNCC	4 cut(s)	6, 563, 789, 927
BspMI	ACCTGC	1 cut(s)	317
BspPI	GGATC	1 cut(s)	376
BsrDI	GCAATG	1 cut(s)	512
BsrGI	TGTACA	1 cut(s)	898
BsrI	ACTGG	1 cut(s)	250
BssMI	GATC	5 cut(s)	130, 348, 381, 469, 604
Bst4CI	ACNGT	5 cut(s)	153, 344, 483, 691, 903
Bst6I	CTCTTC	1 cut(s)	81
BstAUI	TGTACA	1 cut(s)	898
BstC8I	GCNNGC	2 cut(s)	279, 519
BstDEI	CTNAG	3 cut(s)	74, 732, 770
BstENI	CCTNNNNNAGG	2 cut(s)	12, 556
BstF5I	GGATG	3 cut(s)	124, 340, 460
BstHHI	GCGC	2 cut(s)	363, 503
BstKTI	GATC	5 cut(s)	133, 351, 384, 472, 607
BstMAI	GTCTC	2 cut(s)	728, 766
BstMBI	GATC	5 cut(s)	130, 348, 381, 469, 604
BstMWI	GCNNNNNNNGC	2 cut(s)	323, 514
BstSFI	CTRYAG	1 cut(s)	819
BstV1I	GCAGC	3 cut(s)	304, 463, 850
BstV2I	GAAGAC	1 cut(s)	411
BstX2I	RGATCY	3 cut(s)	130, 381, 469
BstYI	RGATCY	3 cut(s)	130, 381, 469
BsuRI	GGCC	2 cut(s)	233, 827
BtsCI	GGATG	3 cut(s)	124, 340, 460
BtsI	GCAGTG	1 cut(s)	876
BtsIMutI	CAGTG	2 cut(s)	767, 876
BveI	ACCTGC	1 cut(s)	317
Cac8I	GCNNGC	2 cut(s)	279, 519
CaiI	CAGNNNCTG	1 cut(s)	679
CciI	TCATGA	2 cut(s)	145, 190
CfoI	GCGC	2 cut(s)	363, 503
Cfr13I	GGNCC	5 cut(s)	5, 540, 561, 722, 926
CseI	GACGC	1 cut(s)	281
Csp6I	GTAC	3 cut(s)	628, 692, 899
CviAII	CATG	6 cut(s)	146, 191, 537, 566, 799, 886
CviQI	GTAC	3 cut(s)	628, 692, 899
DdeI	CTNAG	3 cut(s)	74, 732, 770
DpnI	GATC	5 cut(s)	132, 350, 383, 471, 606
DpnII	GATC	5 cut(s)	130, 348, 381, 469, 604
DraI	TTTAAA	1 cut(s)	117
Eam1104I	CTCTTC	1 cut(s)	81
EarI	CTCTTC	1 cut(s)	81
Ecl136II	GAGCTC	1 cut(s)	508
Eco24I	GRGCYC	1 cut(s)	510
Eco47I	GGWCC	5 cut(s)	5, 540, 561, 722, 926
Eco53kI	GAGCTC	1 cut(s)	508
Eco57I	CTGAAG	3 cut(s)	156, 162, 666
EcoICRI	GAGCTC	1 cut(s)	508
EcoNI	CCTNNNNNAGG	2 cut(s)	12, 556
EcoO109I	RGGNCCY	3 cut(s)	5, 561, 926
EcoT38I	GRGCYC	1 cut(s)	510
FaeI	CATG	6 cut(s)	149, 194, 540, 569, 802, 889
FaqI	GGGAC	2 cut(s)	18, 256
FatI	CATG	6 cut(s)	145, 190, 536, 565, 798, 885
FauI	CCCGC	1 cut(s)	510
FbaI	TGATCA	1 cut(s)	604
Fnu4HI	GCNGC	4 cut(s)	318, 452, 600, 839
FokI	GGATG	3 cut(s)	111, 347, 447
FriOI	GRGCYC	1 cut(s)	510
Fsp4HI	GCNGC	4 cut(s)	318, 452, 600, 839
FspBI	CTAG	1 cut(s)	890
GlaI	GCGC	2 cut(s)	362, 502
GluI	GCNGC	4 cut(s)	318, 452, 600, 839
GsaI	CCCAGC	1 cut(s)	864
GsuI	CTGGAG	1 cut(s)	610
HaeIII	GGCC	2 cut(s)	233, 827
HgaI	GACGC	1 cut(s)	281
HhaI	GCGC	2 cut(s)	363, 503
Hin1II	CATG	6 cut(s)	149, 194, 540, 569, 802, 889
Hin6I	GCGC	2 cut(s)	361, 501
HinP1I	GCGC	2 cut(s)	361, 501
HinfI	GANTC	2 cut(s)	301, 806
HphI	GGTGA	1 cut(s)	506
Hpy166II	GTNNAC	1 cut(s)	899
Hpy188I	TCNGA	5 cut(s)	181, 229, 424, 646, 856
Hpy188III	TCNNGA	7 cut(s)	95, 128, 146, 191, 209, 464, 608
Hpy8I	GTNNAC	1 cut(s)	899
HpyAV	CCTTC	5 cut(s)	197, 485, 641, 740, 801
HpyCH4III	ACNGT	5 cut(s)	153, 344, 483, 691, 903
HpyCH4V	TGCA	8 cut(s)	320, 326, 394, 536, 569, 673, 838, 881
HpyF10VI	GCNNNNNNNGC	2 cut(s)	323, 514
HpyF3I	CTNAG	3 cut(s)	74, 732, 770
Hsp92II	CATG	6 cut(s)	149, 194, 540, 569, 802, 889
HspAI	GCGC	2 cut(s)	361, 501
Ksp22I	TGATCA	1 cut(s)	604
Kzo9I	GATC	5 cut(s)	130, 348, 381, 469, 604
LmnI	GCTCC	3 cut(s)	551, 768, 787
Lsp1109I	GCAGC	3 cut(s)	304, 463, 850
LweI	GCATC	4 cut(s)	265, 325, 644, 861
MaeI	CTAG	1 cut(s)	890
MaeIII	GTNAC	3 cut(s)	23, 685, 716
MalI	GATC	5 cut(s)	132, 350, 383, 471, 606
MboI	GATC	5 cut(s)	130, 348, 381, 469, 604
MfeI	CAATTG	1 cut(s)	321
MflI	RGATCY	3 cut(s)	130, 381, 469
MhlI	GDGCHC	2 cut(s)	510, 765
MluCI	AATT	5 cut(s)	59, 194, 222, 321, 780
MroXI	GAANNNNTTC	2 cut(s)	90, 153
MseI	TTAA	1 cut(s)	116
MslI	CAYNNNNRTG	1 cut(s)	833
MspA1I	CMGCKG	1 cut(s)	602
MunI	CAATTG	1 cut(s)	321
MwoI	GCNNNNNNNGC	2 cut(s)	323, 514
NdeII	GATC	5 cut(s)	130, 348, 381, 469, 604
NlaIII	CATG	6 cut(s)	149, 194, 540, 569, 802, 889
NlaIV	GGNNCC	4 cut(s)	6, 563, 789, 927
NmuCI	GTSAC	1 cut(s)	685
PagI	TCATGA	2 cut(s)	145, 190
PdmI	GAANNNNTTC	2 cut(s)	90, 153
PfeI	GAWTC	2 cut(s)	301, 806
PkrI	GCNGC	4 cut(s)	319, 453, 601, 840
PpuMI	RGGWCCY	3 cut(s)	5, 561, 926
Psp124BI	GAGCTC	1 cut(s)	510
Psp5II	RGGWCCY	3 cut(s)	5, 561, 926
PspFI	CCCAGC	1 cut(s)	860
PspN4I	GGNNCC	4 cut(s)	6, 563, 789, 927
PspPI	GGNCC	5 cut(s)	5, 540, 561, 722, 926
PspPPI	RGGWCCY	3 cut(s)	5, 561, 926
PstNI	CAGNNNCTG	1 cut(s)	679
PsuI	RGATCY	3 cut(s)	130, 381, 469
RsaI	GTAC	3 cut(s)	629, 693, 900
RsaNI	GTAC	3 cut(s)	628, 692, 899
RseI	CAYNNNNRTG	1 cut(s)	833
SacI	GAGCTC	1 cut(s)	510
SaqAI	TTAA	1 cut(s)	116
SatI	GCNGC	4 cut(s)	318, 452, 600, 839
Sau3AI	GATC	5 cut(s)	130, 348, 381, 469, 604
Sau96I	GGNCC	5 cut(s)	5, 540, 561, 722, 926
SduI	GDGCHC	2 cut(s)	510, 765
SfaNI	GCATC	4 cut(s)	265, 325, 644, 861
SfcI	CTRYAG	1 cut(s)	819
SinI	GGWCC	5 cut(s)	5, 540, 561, 722, 926
SmiMI	CAYNNNNRTG	1 cut(s)	833
SmlI	CTYRAG	1 cut(s)	207
SmoI	CTYRAG	1 cut(s)	207
Sse9I	AATT	5 cut(s)	59, 194, 222, 321, 780
SsiI	CCGC	2 cut(s)	517, 600
SspI	AATATT	1 cut(s)	111
SspMI	CTAG	1 cut(s)	890
SstI	GAGCTC	1 cut(s)	510
TaaI	ACNGT	5 cut(s)	153, 344, 483, 691, 903
TaqI	TCGA	1 cut(s)	489
TasI	AATT	5 cut(s)	59, 194, 222, 321, 780
TatI	WGTACW	1 cut(s)	898
TauI	GCSGC	1 cut(s)	602
TfiI	GAWTC	2 cut(s)	301, 806
Tru1I	TTAA	1 cut(s)	116
Tru9I	TTAA	1 cut(s)	116
TscAI	CASTG	2 cut(s)	774, 883
TseFI	GTSAC	1 cut(s)	685
TseI	GCWGC	3 cut(s)	317, 451, 838
Tsp45I	GTSAC	1 cut(s)	685
TspDTI	ATGAA	9 cut(s)	134, 149, 162, 179, 207, 441, 449, 771, 815
TspGWI	ACGGA	1 cut(s)	735
TspRI	CASTG	2 cut(s)	774, 883
VpaK11BI	GGWCC	5 cut(s)	5, 540, 561, 722, 926
XagI	CCTNNNNNAGG	2 cut(s)	12, 556
XcmI	CCANNNNNNNNNTGG	1 cut(s)	135
XmnI	GAANNNNTTC	2 cut(s)	90, 153
XspI	CTAG	1 cut(s)	890

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