Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0014213

Physical Location & Seq

Genomic Coordinates Reverse (-)

8525990 .. 8526884

Gene Structure 895 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000006563

Sequence Viewer

CDS Protein Promoter (2k)

Length: 816 bp

ATGCATCACCAAGAAGATGAAGACGACTCGGTTTTTCTCACTCTCGGCCCTCCCGGACAGCCAGTTCACCGCCACATCCTCTACCACCAACAATCATCCTCCTCCTCATCTACCCAGCCTCACCATCAAAACCCTAATTATAGCACAAACCATGGGGATGGTGTCACAGTAGCCCTTCACATTGGGCAGCCCTTTACCACTTCTGGACCTTCAAACAGCAACAACAACAACAATGTTCACATTGGTGCTCCTATGGAAGGCCAGTACTGGATCCCTTCTCCAGCGCAAATCCTCGTCGGCCCGACTCAGTTCTCCTGCCCCGTCTGCGGCAAAACCTTCAACAGATACAACAACATGCAGATGCATATGTGGGGGCACGGCTCGCAGTACCGGAAGGGACCAGAATCGTTGAGGGGAACGAAGCCATCTTCATCCATACTCCGTCTTCCATGTTACTGCTGCGCCGAGGGCTGCAGGAATAACATAGACCACCCGAGGTCAAGGCCGCTGAAAGACTTCAGAACTCTGCAGACACATTACAAGAGGAAGCACGGGACGAAGCCGTTCGGTTGCCGCAAATGCGGCAAGCCTTTTGCGGTGAGAGGAGACTGGAGAACGCACGAGAAGAACTGCGGCAAGCTCTGGTTCTGCATCTGCGGCTCGGATTTCAAGCACAAAAGGTCGCTCAAGGACCACGTGAGGAGTTTCGGTGATGGCCACGCGCAGTACGCTGTCGAGCTGTGCGCTGAAGCTGAGGAGGATGAAGAAGAAGATCTAGAGGATGAGGATGATAATGACGAAAGCAGGGGTGTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003002 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0007389 GO:0008150 GO:0008152 GO:0009058 GO:0009653 GO:0009790 GO:0009791 GO:0009793 GO:0009812 GO:0009813 GO:0009888 GO:0009889 GO:0009965 GO:0010016 GO:0010051 GO:0010087 GO:0010154 GO:0010305 GO:0010468 GO:0010556 GO:0010588 GO:0019219 GO:0019222 GO:0022414 GO:0022622 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048316 GO:0048364 GO:0048366 GO:0048367 GO:0048598 GO:0048608 GO:0048731 GO:0048825 GO:0048826 GO:0048827 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0071704 GO:0080090 GO:0090698 GO:0099402 GO:0140110 GO:1901576 GO:1903506 GO:1905392 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C2H2 zf-met

Protein Analysis

272

Amino Acids

30.61

Weight (kDa)

6.82

Isoelectric Point (pI)

61.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C2H2_STOP2_3rd	PF23115	151 - 185	1.2e-19	STOP2-like, C2H2-type zinc finger
C2CH-3rd_BIRD-IDD	PF22995	188 - 212	3e-12	BIRD-IDD transcription factor, third C2HC zinc finger

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: OG0014213)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13290
fragaria_vesca	FvH4_4g28010
malus_domestica	MD13G1045800.v1.1 MD16G1047400.v1.1
prunus_persica	Prupe.1G306200_v2.0.a1
pyrus_communis	pycom16g04140
rosa_chinensis	RchiOBHm_Chr4g0435741
rosa_laevigata	RLG00000006563
rosa_multiflora	Rmu_co8077120.1_g000001 Rmu_sc0000051.1_g000019
rosa_roxburghii	Rroxscaffold_5G00376930
rosa_rugosa	Rorug04G0289200
rosa_samantha	Rh4AG343500 Rh4BG352200 Rh4CG366700 Rh4DG346100
rosa_wichuraiana	Rw4G029990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	722
AciI	CCGC	8 cut(s)	70, 327, 506, 574, 582, 596, 633, 657
AclWI	GGATC	2 cut(s)	265, 278
AcoI	YGGCCR	1 cut(s)	715
AcuI	CTGAAG	2 cut(s)	502, 768
AcvI	CACGTG	1 cut(s)	697
AfaI	GTAC	3 cut(s)	266, 389, 728
AfiI	CCNNNNNNNGG	2 cut(s)	257, 326
AgsI	TTSAA	3 cut(s)	213, 340, 670
AleI	CACNNNNGTG	1 cut(s)	243
AloI	GAACNNNNNNTCC	2 cut(s)	48, 80
AluBI	AGCT	3 cut(s)	640, 739, 752
AluI	AGCT	3 cut(s)	640, 739, 752
Alw21I	GWGCWC	1 cut(s)	250
Alw26I	GTCTC	1 cut(s)	600
AlwI	GGATC	2 cut(s)	265, 278
Ama87I	CYCGRG	1 cut(s)	493
AoxI	GGCC	5 cut(s)	46, 259, 298, 503, 715
ApeKI	GCWGC	3 cut(s)	187, 459, 471
Asp700I	GAANNNNTTC	2 cut(s)	515, 563
AspLEI	GCGC	4 cut(s)	286, 464, 724, 746
AspS9I	GGNCC	5 cut(s)	47, 206, 299, 398, 691
AsuC2I	CCSGG	1 cut(s)	54
AsuHPI	GGTGA	4 cut(s)	59, 113, 610, 722
AvaI	CYCGRG	1 cut(s)	493
AvaII	GGWCC	3 cut(s)	206, 398, 691
BaeGI	GKGCMC	1 cut(s)	378
BalI	TGGCCA	1 cut(s)	717
BamHI	GGATCC	1 cut(s)	270
BauI	CACGAG	1 cut(s)	620
BbrPI	CACGTG	1 cut(s)	697
BbsI	GAAGAC	2 cut(s)	27, 437
Bbv12I	GWGCWC	1 cut(s)	250
BbvCI	CCTCAGC	1 cut(s)	753
BbvI	GCAGC	3 cut(s)	199, 446, 458
BccI	CCATC	4 cut(s)	132, 152, 433, 707
BceAI	ACGGC	2 cut(s)	394, 547
BcnI	CCSGG	1 cut(s)	54
BcoDI	GTCTC	1 cut(s)	600
BfaI	CTAG	1 cut(s)	776
BfmI	CTRYAG	2 cut(s)	472, 527
BglII	AGATCT	1 cut(s)	772
BisI	GCNGC	9 cut(s)	188, 328, 460, 472, 506, 574, 583, 634, 658
BlsI	GCNGC	9 cut(s)	189, 329, 461, 473, 507, 575, 584, 635, 659
BmcAI	AGTACT	1 cut(s)	266
Bme1390I	CCNGG	1 cut(s)	54
Bme18I	GGWCC	3 cut(s)	206, 398, 691
BmeT110I	CYCGRG	1 cut(s)	493
BmgT120I	GGNCC	5 cut(s)	47, 206, 299, 398, 691
BmiI	GGNNCC	2 cut(s)	272, 399
BmrFI	CCNGG	1 cut(s)	54
BmsI	GCATC	3 cut(s)	13, 351, 660
BpiI	GAAGAC	2 cut(s)	27, 437
BpmI	CTGGAG	2 cut(s)	264, 631
Bpu10I	CCTNAGC	1 cut(s)	753
BpuEI	CTTGAG	1 cut(s)	671
BpuMI	CCSGG	1 cut(s)	54
BsaAI	YACGTR	1 cut(s)	697
BsaJI	CCNNGG	3 cut(s)	151, 465, 494
BsaWI	WCCGGW	1 cut(s)	390
BsaXI	ACNNNNNCTCC	2 cut(s)	694, 724
Bsc4I	CCNNNNNNNGG	2 cut(s)	257, 326
Bse1I	ACTGG	4 cut(s)	62, 262, 272, 614
BseDI	CCNNGG	3 cut(s)	151, 465, 494
BseGI	GGATG	7 cut(s)	75, 95, 163, 431, 766, 787, 793
BseLI	CCNNNNNNNGG	2 cut(s)	257, 326
BseMII	CTCAG	2 cut(s)	320, 744
BseNI	ACTGG	4 cut(s)	62, 262, 272, 614
BseRI	GAGGAG	5 cut(s)	91, 94, 618, 715, 770
BseSI	GKGCMC	1 cut(s)	378
BseXI	GCAGC	3 cut(s)	199, 446, 458
BseYI	CCCAGC	1 cut(s)	114
Bsh1236I	CGCG	1 cut(s)	722
BshFI	GGCC	5 cut(s)	48, 261, 300, 505, 717
BsiHKAI	GWGCWC	1 cut(s)	250
BsiHKCI	CYCGRG	1 cut(s)	493
BsiSI	CCGG	2 cut(s)	54, 391
BslFI	GGGAC	2 cut(s)	411, 568
BslI	CCNNNNNNNGG	2 cut(s)	257, 326
BsmAI	GTCTC	1 cut(s)	600
BsmFI	GGGAC	2 cut(s)	411, 568
BsnI	GGCC	5 cut(s)	48, 261, 300, 505, 717
BsoBI	CYCGRG	1 cut(s)	493
Bsp1286I	GDGCHC	2 cut(s)	250, 378
Bsp143I	GATC	2 cut(s)	270, 772
Bsp19I	CCATGG	1 cut(s)	151
BspACI	CCGC	8 cut(s)	70, 327, 506, 574, 582, 596, 633, 657
BspANI	GGCC	5 cut(s)	48, 261, 300, 505, 717
BspCNI	CTCAG	2 cut(s)	319, 745
BspFNI	CGCG	1 cut(s)	722
BspLI	GGNNCC	2 cut(s)	272, 399
BspMAI	CTGCAG	2 cut(s)	476, 531
BspPI	GGATC	2 cut(s)	265, 278
BsrI	ACTGG	4 cut(s)	62, 262, 272, 614
BssECI	CCNNGG	3 cut(s)	151, 465, 494
BssMI	GATC	2 cut(s)	270, 772
BssSI	CACGAG	1 cut(s)	620
BssT1I	CCWWGG	1 cut(s)	151
Bst2BI	CACGAG	1 cut(s)	620
Bst4CI	ACNGT	1 cut(s)	169
BstBAI	YACGTR	1 cut(s)	697
BstC8I	GCNNGC	3 cut(s)	383, 587, 638
BstDEI	CTNAG	2 cut(s)	306, 753
BstDSI	CCRYGG	1 cut(s)	151
BstENI	CCTNNNNNAGG	1 cut(s)	255
BstF5I	GGATG	7 cut(s)	75, 95, 163, 431, 766, 787, 793
BstFNI	CGCG	1 cut(s)	722
BstHHI	GCGC	4 cut(s)	286, 464, 724, 746
BstKTI	GATC	2 cut(s)	273, 775
BstMAI	GTCTC	1 cut(s)	600
BstMBI	GATC	2 cut(s)	270, 772
BstMWI	GCNNNNNNNGC	7 cut(s)	324, 382, 468, 579, 582, 657, 728
BstNSI	RCATGY	1 cut(s)	358
BstSCI	CCNGG	1 cut(s)	52
BstSFI	CTRYAG	2 cut(s)	472, 527
BstSLI	GKGCMC	1 cut(s)	378
BstUI	CGCG	1 cut(s)	722
BstV1I	GCAGC	3 cut(s)	199, 446, 458
BstV2I	GAAGAC	2 cut(s)	27, 437
BstX2I	RGATCY	2 cut(s)	270, 772
BstXI	CCANNNNNNTGG	1 cut(s)	158
BstYI	RGATCY	2 cut(s)	270, 772
BsuRI	GGCC	5 cut(s)	48, 261, 300, 505, 717
BtgI	CCRYGG	1 cut(s)	151
BtsCI	GGATG	7 cut(s)	75, 95, 163, 431, 766, 787, 793
Cac8I	GCNNGC	3 cut(s)	383, 587, 638
CfoI	GCGC	4 cut(s)	286, 464, 724, 746
Cfr13I	GGNCC	5 cut(s)	47, 206, 299, 398, 691
Csp6I	GTAC	3 cut(s)	265, 388, 727
CviAII	CATG	3 cut(s)	152, 355, 450
CviQI	GTAC	3 cut(s)	265, 388, 727
DdeI	CTNAG	2 cut(s)	306, 753
DpnI	GATC	2 cut(s)	272, 774
DpnII	GATC	2 cut(s)	270, 772
EaeI	YGGCCR	1 cut(s)	715
Eco130I	CCWWGG	1 cut(s)	151
Eco47I	GGWCC	3 cut(s)	206, 398, 691
Eco57I	CTGAAG	2 cut(s)	502, 768
Eco72I	CACGTG	1 cut(s)	697
Eco88I	CYCGRG	1 cut(s)	493
EcoNI	CCTNNNNNAGG	1 cut(s)	255
EcoT14I	CCWWGG	1 cut(s)	151
EcoT22I	ATGCAT	2 cut(s)	6, 366
ErhI	CCWWGG	1 cut(s)	151
FaeI	CATG	3 cut(s)	155, 358, 453
FaiI	YATR	9 cut(s)	141, 153, 254, 356, 366, 368, 437, 451, 485
FaqI	GGGAC	2 cut(s)	411, 568
FatI	CATG	3 cut(s)	151, 354, 449
FauNDI	CATATG	1 cut(s)	366
Fnu4HI	GCNGC	9 cut(s)	188, 328, 460, 472, 506, 574, 583, 634, 658
FokI	GGATG	7 cut(s)	62, 82, 170, 418, 773, 794, 800
Fsp4HI	GCNGC	9 cut(s)	188, 328, 460, 472, 506, 574, 583, 634, 658
FspBI	CTAG	1 cut(s)	776
GlaI	GCGC	4 cut(s)	285, 463, 723, 745
GluI	GCNGC	9 cut(s)	188, 328, 460, 472, 506, 574, 583, 634, 658
GsaI	CCCAGC	1 cut(s)	118
GsuI	CTGGAG	2 cut(s)	264, 631
HaeIII	GGCC	5 cut(s)	48, 261, 300, 505, 717
HapII	CCGG	2 cut(s)	54, 391
HhaI	GCGC	4 cut(s)	286, 464, 724, 746
Hin1II	CATG	3 cut(s)	155, 358, 453
Hin6I	GCGC	4 cut(s)	284, 462, 722, 744
HinP1I	GCGC	4 cut(s)	284, 462, 722, 744
HinfI	GANTC	3 cut(s)	26, 304, 404
HpaII	CCGG	2 cut(s)	54, 391
HphI	GGTGA	4 cut(s)	59, 113, 610, 722
Hpy166II	GTNNAC	2 cut(s)	67, 238
Hpy188I	TCNGA	2 cut(s)	521, 664
Hpy188III	TCNNGA	2 cut(s)	204, 776
Hpy8I	GTNNAC	2 cut(s)	67, 238
Hpy99I	CGWCG	1 cut(s)	299
HpyAV	CCTTC	6 cut(s)	185, 219, 251, 285, 346, 388
HpyCH4III	ACNGT	1 cut(s)	169
HpyCH4IV	ACGT	1 cut(s)	696
HpyCH4V	TGCA	6 cut(s)	4, 358, 364, 474, 529, 651
HpyF10VI	GCNNNNNNNGC	7 cut(s)	324, 382, 468, 579, 582, 657, 728
HpyF3I	CTNAG	2 cut(s)	306, 753
HpySE526I	ACGT	1 cut(s)	696
Hsp92II	CATG	3 cut(s)	155, 358, 453
HspAI	GCGC	4 cut(s)	284, 462, 722, 744
Kzo9I	GATC	2 cut(s)	270, 772
LmnI	GCTCC	1 cut(s)	253
Lsp1109I	GCAGC	3 cut(s)	199, 446, 458
LweI	GCATC	3 cut(s)	13, 351, 660
MaeI	CTAG	1 cut(s)	776
MaeII	ACGT	1 cut(s)	696
MaeIII	GTNAC	2 cut(s)	163, 452
MalI	GATC	2 cut(s)	272, 774
MboI	GATC	2 cut(s)	270, 772
MboII	GAAGA	8 cut(s)	26, 32, 420, 437, 637, 776, 779, 782
MflI	RGATCY	2 cut(s)	270, 772
MhlI	GDGCHC	2 cut(s)	250, 378
MlsI	TGGCCA	1 cut(s)	717
MluCI	AATT	1 cut(s)	136
MluNI	TGGCCA	1 cut(s)	717
MlyI	GAGTC	2 cut(s)	20, 298
Mox20I	TGGCCA	1 cut(s)	717
Mph1103I	ATGCAT	2 cut(s)	6, 366
MroXI	GAANNNNTTC	2 cut(s)	515, 563
MscI	TGGCCA	1 cut(s)	717
MslI	CAYNNNNRTG	3 cut(s)	156, 243, 359
Msp20I	TGGCCA	1 cut(s)	717
MspA1I	CMGCKG	1 cut(s)	508
MspI	CCGG	2 cut(s)	54, 391
MspR9I	CCNGG	1 cut(s)	54
MvnI	CGCG	1 cut(s)	722
MwoI	GCNNNNNNNGC	7 cut(s)	324, 382, 468, 579, 582, 657, 728
NciI	CCSGG	1 cut(s)	54
NcoI	CCATGG	1 cut(s)	151
NdeI	CATATG	1 cut(s)	366
NdeII	GATC	2 cut(s)	270, 772
NlaIII	CATG	3 cut(s)	155, 358, 453
NlaIV	GGNNCC	2 cut(s)	272, 399
NmeAIII	GCCGAG	2 cut(s)	24, 490
NmuCI	GTSAC	1 cut(s)	163
NsiI	ATGCAT	2 cut(s)	6, 366
NspI	RCATGY	1 cut(s)	358
OliI	CACNNNNGTG	1 cut(s)	243
PdmI	GAANNNNTTC	2 cut(s)	515, 563
PfeI	GAWTC	1 cut(s)	404
PfoI	TCCNGGA	1 cut(s)	52
PkrI	GCNGC	9 cut(s)	189, 329, 461, 473, 507, 575, 584, 635, 659
PleI	GAGTC	2 cut(s)	20, 298
PmaCI	CACGTG	1 cut(s)	697
PmlI	CACGTG	1 cut(s)	697
PpsI	GAGTC	2 cut(s)	20, 298
Ppu21I	YACGTR	1 cut(s)	697
PspCI	CACGTG	1 cut(s)	697
PspFI	CCCAGC	1 cut(s)	114
PspN4I	GGNNCC	2 cut(s)	272, 399
PspPI	GGNCC	5 cut(s)	47, 206, 299, 398, 691
PstI	CTGCAG	2 cut(s)	476, 531
PsuI	RGATCY	2 cut(s)	270, 772
RsaI	GTAC	3 cut(s)	266, 389, 728
RsaNI	GTAC	3 cut(s)	265, 388, 727
RseI	CAYNNNNRTG	3 cut(s)	156, 243, 359
SatI	GCNGC	9 cut(s)	188, 328, 460, 472, 506, 574, 583, 634, 658
Sau3AI	GATC	2 cut(s)	270, 772
Sau96I	GGNCC	5 cut(s)	47, 206, 299, 398, 691
ScaI	AGTACT	1 cut(s)	266
SchI	GAGTC	2 cut(s)	20, 298
ScrFI	CCNGG	1 cut(s)	54
SduI	GDGCHC	2 cut(s)	250, 378
SetI	ASST	8 cut(s)	211, 338, 500, 642, 683, 699, 741, 754
SfaNI	GCATC	3 cut(s)	13, 351, 660
SfcI	CTRYAG	2 cut(s)	472, 527
SinI	GGWCC	3 cut(s)	206, 398, 691
SmiMI	CAYNNNNRTG	3 cut(s)	156, 243, 359
SmlI	CTYRAG	1 cut(s)	686
SmoI	CTYRAG	1 cut(s)	686
Sse9I	AATT	1 cut(s)	136
SsiI	CCGC	8 cut(s)	70, 327, 506, 574, 582, 596, 633, 657
SspMI	CTAG	1 cut(s)	776
StyD4I	CCNGG	1 cut(s)	52
StyI	CCWWGG	1 cut(s)	151
TaaI	ACNGT	1 cut(s)	169
TaiI	ACGT	1 cut(s)	699
TaqI	TCGA	1 cut(s)	735
TasI	AATT	1 cut(s)	136
TatI	WGTACW	1 cut(s)	264
TauI	GCSGC	6 cut(s)	330, 508, 576, 585, 636, 660
TfiI	GAWTC	1 cut(s)	404
TseFI	GTSAC	1 cut(s)	163
TseI	GCWGC	3 cut(s)	187, 459, 471
Tsp45I	GTSAC	1 cut(s)	163
TspDTI	ATGAA	3 cut(s)	33, 420, 777
TspGWI	ACGGA	1 cut(s)	431
VpaK11BI	GGWCC	3 cut(s)	206, 398, 691
XagI	CCTNNNNNAGG	1 cut(s)	255
XbaI	TCTAGA	1 cut(s)	775
XceI	RCATGY	1 cut(s)	358
XmnI	GAANNNNTTC	2 cut(s)	515, 563
XspI	CTAG	1 cut(s)	776
ZrmI	AGTACT	1 cut(s)	266
Zsp2I	ATGCAT	2 cut(s)	6, 366

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