Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0006063

Physical Location & Seq

Genomic Coordinates Forward (+)

68142219 .. 68145755

Gene Structure 3537 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG467200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 846 bp

ATGTTCTTTACTGCTTATACAAAACCACGGACGAAGAAGCGGTTGAAATTTCCGGGGAAGCAGCCAAGCAAGAAGAAGAAGATAAAAGTGCTTTCGAAGATAGAAGACAGCTCCAAGAATGAAAAGCCGAAATCTTCTTCTAAACCTGAGCAGCATCATCATGATGCTCCTGAGGATGGAGAAGGGGAGAGAAGTGTGAGGAAATCTACGAGAACTGCAGTGGTTGTTAGGCAAGCTGAGAGAGAGGCAAATCGTGCTGCTTTGCAAGCAACCATGAGGGTAAGTGTCGATGAAATTATCAACTTGAGGAATTTGGAACGTGTTCTGGCAAGGGAGGAAGAAGTTAAGAAGCGAGCAATTGTGCATAAGGCTGTCTATACTGGTCCACAACTACGTTATTTTTCAAAAGATGGTAACTCATATCTGGAATTCAGCAGAGGGTTATCGTTCCATTCTGATCTCTCTACGACATCTGCTCCCTATCCTGAGAAAGCTGTCTGTGCAGTTACTGGCTTACCTGCCAAGTACCGTGATCCAAAGACAGGGTTACCTTATGCAACAAAGGAAGCTTTTAAAATTATTCGGCAGCGTTTTCTACAAGAAAGTGGTGCGGTTAGGAAAGAGATGGACCTGGGTGATTTGTATGATTCACTTTCCGGGAAAGGTTTTTCAGCAAGGCAGAAGAGATCGGTGGTGTCAAATAAAAGTGAGGTGTCATATCCTCGATATTTTGCACGTTTCCGCAGGGCTTCAGCTCTTGAAAGTGCTCTTGCTGACCATCTTGAAGAAGTCTCTATGAAGAAGGCTTGCAGACTAGAATCACAAGTTATTTGGTGGCATGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006338 GO:0006996 GO:0008150 GO:0009987 GO:0016043 GO:0034728 GO:0043044 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043486 GO:0043933 GO:0044424 GO:0044464 GO:0051276 GO:0071824 GO:0071840

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

YL1 YL1_C

Protein Analysis

281

Amino Acids

32.01

Weight (kDa)

9.98

Isoelectric Point (pI)

44.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
YL1_C	PF08265	166 - 194	2.3e-16	YL1 nuclear protein C-terminal domain

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: OG0006063)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36740 AT2G36740
fragaria_vesca	FvH4_7g33430 FvH4_7g33430 FvH4_7g33430 FvH4_7g33430
malus_domestica	MD07G1075300.v1.1 MD07G1304400.v1.1
prunus_persica	Prupe.2G323000_v2.0.a1
pyrus_communis	pycom07g05940
rosa_chinensis	RchiOBHm_Chr1g0383401
rosa_laevigata	RLG00000026104
rosa_multiflora	Rmu_co8369689.1_g000001 Rmu_sc0007173.1_g000009 Rmu_sc0012471.1_g000026
rosa_roxburghii	Rroxscaffold_4G00277320
rosa_rugosa	Rorug01G0441300 Rorug01G0441400 Rorug01G0441500 Rorug01G0441600
rosa_samantha	Rh1AG467200 Rh1BG424500 Rh1BG424600 Rh1CG437500 Rh1DG457200 Rh1DG457300
rosa_wichuraiana	Rw1G040540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	526
AciI	CCGC	3 cut(s)	40, 611, 742
AclWI	GGATC	1 cut(s)	527
AcsI	RAATTY	3 cut(s)	47, 310, 428
AcuI	CTGAAG	1 cut(s)	735
AfaI	GTAC	1 cut(s)	527
AfiI	CCNNNNNNNGG	2 cut(s)	176, 542
AflIII	ACRYGT	1 cut(s)	319
AgsI	TTSAA	4 cut(s)	46, 405, 761, 785
AjnI	CCWGG	1 cut(s)	630
AluBI	AGCT	5 cut(s)	111, 236, 494, 569, 755
AluI	AGCT	5 cut(s)	111, 236, 494, 569, 755
Alw21I	GWGCWC	1 cut(s)	769
Alw26I	GTCTC	1 cut(s)	796
AlwI	GGATC	1 cut(s)	527
AlwNI	CAGNNNCTG	1 cut(s)	509
ApeKI	GCWGC	4 cut(s)	61, 151, 257, 586
ApoI	RAATTY	3 cut(s)	47, 310, 428
Asp700I	GAANNNNTTC	1 cut(s)	321
AspS9I	GGNCC	2 cut(s)	383, 628
AsuC2I	CCSGG	2 cut(s)	54, 658
AsuHPI	GGTGA	1 cut(s)	647
AsuII	TTCGAA	1 cut(s)	95
AvaII	GGWCC	2 cut(s)	383, 628
AxyI	CCTNAGG	1 cut(s)	171
BbsI	GAAGAC	1 cut(s)	111
Bbv12I	GWGCWC	1 cut(s)	769
BbvI	GCAGC	4 cut(s)	73, 163, 244, 598
BccI	CCATC	4 cut(s)	170, 404, 619, 786
BciT130I	CCWGG	1 cut(s)	632
BcnI	CCSGG	2 cut(s)	54, 658
BcoDI	GTCTC	1 cut(s)	796
BfaI	CTAG	1 cut(s)	815
BfmI	CTRYAG	1 cut(s)	216
BfuAI	ACCTGC	1 cut(s)	526
BisI	GCNGC	4 cut(s)	62, 152, 258, 587
BlsI	GCNGC	4 cut(s)	63, 153, 259, 588
Bme1390I	CCNGG	3 cut(s)	54, 632, 658
Bme18I	GGWCC	2 cut(s)	383, 628
BmgT120I	GGNCC	2 cut(s)	383, 628
BmrFI	CCNGG	3 cut(s)	54, 632, 658
BmsI	GCATC	2 cut(s)	154, 163
BpiI	GAAGAC	1 cut(s)	111
Bpu10I	CCTNAGC	1 cut(s)	147
Bpu14I	TTCGAA	1 cut(s)	95
BpuEI	CTTGAG	1 cut(s)	325
BpuMI	CCSGG	2 cut(s)	54, 658
BsaJI	CCNNGG	3 cut(s)	26, 53, 631
BsaXI	ACNNNNNCTCC	2 cut(s)	460, 490
Bsc4I	CCNNNNNNNGG	2 cut(s)	176, 542
Bse1I	ACTGG	2 cut(s)	385, 514
Bse21I	CCTNAGG	1 cut(s)	171
BseBI	CCWGG	1 cut(s)	632
BseDI	CCNNGG	3 cut(s)	26, 53, 631
BseGI	GGATG	1 cut(s)	181
BseLI	CCNNNNNNNGG	2 cut(s)	176, 542
BseMII	CTCAG	4 cut(s)	138, 162, 228, 477
BseNI	ACTGG	2 cut(s)	385, 514
BseXI	GCAGC	4 cut(s)	73, 163, 244, 598
BsgI	GTGCAG	1 cut(s)	522
BsiHKAI	GWGCWC	1 cut(s)	769
BsiSI	CCGG	2 cut(s)	53, 657
BslI	CCNNNNNNNGG	2 cut(s)	176, 542
BsmAI	GTCTC	1 cut(s)	796
Bsp119I	TTCGAA	1 cut(s)	95
Bsp1286I	GDGCHC	1 cut(s)	769
Bsp143I	GATC	3 cut(s)	457, 532, 686
BspACI	CCGC	3 cut(s)	40, 611, 742
BspCNI	CTCAG	4 cut(s)	139, 163, 229, 478
BspHI	TCATGA	1 cut(s)	160
BspMAI	CTGCAG	1 cut(s)	220
BspMI	ACCTGC	1 cut(s)	526
BspPI	GGATC	1 cut(s)	527
BspT104I	TTCGAA	1 cut(s)	95
BsrI	ACTGG	2 cut(s)	385, 514
BssECI	CCNNGG	3 cut(s)	26, 53, 631
BssMI	GATC	3 cut(s)	457, 532, 686
Bst2UI	CCWGG	1 cut(s)	632
Bst4CI	ACNGT	1 cut(s)	530
Bst6I	CTCTTC	1 cut(s)	677
BstAPI	GCANNNNNTGC	1 cut(s)	254
BstBI	TTCGAA	1 cut(s)	95
BstC8I	GCNNGC	4 cut(s)	234, 267, 354, 808
BstDEI	CTNAG	4 cut(s)	147, 171, 237, 486
BstDSI	CCRYGG	1 cut(s)	26
BstEII	GGTNACC	1 cut(s)	546
BstF5I	GGATG	1 cut(s)	181
BstKTI	GATC	3 cut(s)	460, 535, 689
BstMAI	GTCTC	1 cut(s)	796
BstMBI	GATC	3 cut(s)	457, 532, 686
BstMWI	GCNNNNNNNGC	3 cut(s)	254, 266, 500
BstNI	CCWGG	1 cut(s)	632
BstPI	GGTNACC	1 cut(s)	546
BstSCI	CCNGG	3 cut(s)	52, 630, 656
BstSFI	CTRYAG	1 cut(s)	216
BstV1I	GCAGC	4 cut(s)	73, 163, 244, 598
BstV2I	GAAGAC	1 cut(s)	111
Bsu36I	CCTNAGG	1 cut(s)	171
BtgI	CCRYGG	1 cut(s)	26
BtsCI	GGATG	1 cut(s)	181
BtsI	GCAGTG	1 cut(s)	225
BtsIMutI	CAGTG	1 cut(s)	225
BveI	ACCTGC	1 cut(s)	526
Cac8I	GCNNGC	4 cut(s)	234, 267, 354, 808
CaiI	CAGNNNCTG	1 cut(s)	509
CciI	TCATGA	1 cut(s)	160
Cfr13I	GGNCC	2 cut(s)	383, 628
Csp6I	GTAC	1 cut(s)	526
CviAII	CATG	3 cut(s)	161, 274, 839
CviQI	GTAC	1 cut(s)	526
DdeI	CTNAG	4 cut(s)	147, 171, 237, 486
DpnI	GATC	3 cut(s)	459, 534, 688
DpnII	GATC	3 cut(s)	457, 532, 686
DraI	TTTAAA	1 cut(s)	574
Eam1104I	CTCTTC	1 cut(s)	677
EarI	CTCTTC	1 cut(s)	677
Eco47I	GGWCC	2 cut(s)	383, 628
Eco57I	CTGAAG	1 cut(s)	735
Eco81I	CCTNAGG	1 cut(s)	171
Eco91I	GGTNACC	1 cut(s)	546
EcoO65I	GGTNACC	1 cut(s)	546
EcoRI	GAATTC	1 cut(s)	428
EcoRII	CCWGG	1 cut(s)	630
FaeI	CATG	3 cut(s)	164, 277, 842
FatI	CATG	3 cut(s)	160, 273, 838
Fnu4HI	GCNGC	4 cut(s)	62, 152, 258, 587
FokI	GGATG	1 cut(s)	188
Fsp4HI	GCNGC	4 cut(s)	62, 152, 258, 587
FspBI	CTAG	1 cut(s)	815
GluI	GCNGC	4 cut(s)	62, 152, 258, 587
HapII	CCGG	2 cut(s)	53, 657
Hin1II	CATG	3 cut(s)	164, 277, 842
HindIII	AAGCTT	1 cut(s)	567
HinfI	GANTC	2 cut(s)	647, 818
HpaII	CCGG	2 cut(s)	53, 657
HphI	GGTGA	1 cut(s)	647
Hpy166II	GTNNAC	1 cut(s)	386
Hpy188I	TCNGA	1 cut(s)	457
Hpy188III	TCNNGA	6 cut(s)	161, 170, 425, 485, 758, 782
Hpy8I	GTNNAC	1 cut(s)	386
HpyAV	CCTTC	2 cut(s)	176, 796
HpyCH4III	ACNGT	1 cut(s)	530
HpyCH4IV	ACGT	3 cut(s)	319, 394, 736
HpyCH4V	TGCA	7 cut(s)	218, 265, 364, 503, 557, 734, 810
HpyF10VI	GCNNNNNNNGC	3 cut(s)	254, 266, 500
HpyF3I	CTNAG	4 cut(s)	147, 171, 237, 486
HpySE526I	ACGT	3 cut(s)	319, 394, 736
Hsp92II	CATG	3 cut(s)	164, 277, 842
Kzo9I	GATC	3 cut(s)	457, 532, 686
LmnI	GCTCC	3 cut(s)	116, 172, 481
Lsp1109I	GCAGC	4 cut(s)	73, 163, 244, 598
LweI	GCATC	2 cut(s)	154, 163
MaeI	CTAG	1 cut(s)	815
MaeII	ACGT	3 cut(s)	319, 394, 736
MaeIII	GTNAC	3 cut(s)	413, 505, 546
MalI	GATC	3 cut(s)	459, 534, 688
MboI	GATC	3 cut(s)	457, 532, 686
MfeI	CAATTG	1 cut(s)	357
MhlI	GDGCHC	1 cut(s)	769
MluCI	AATT	6 cut(s)	47, 294, 310, 357, 428, 576
MnlI	CCTC	9 cut(s)	166, 192, 238, 270, 300, 328, 431, 703, 732
MroXI	GAANNNNTTC	1 cut(s)	321
MseI	TTAA	2 cut(s)	345, 573
MslI	CAYNNNNRTG	2 cut(s)	159, 162
MspI	CCGG	2 cut(s)	53, 657
MspR9I	CCNGG	3 cut(s)	54, 632, 658
MunI	CAATTG	1 cut(s)	357
MvaI	CCWGG	1 cut(s)	632
MwoI	GCNNNNNNNGC	3 cut(s)	254, 266, 500
NciI	CCSGG	2 cut(s)	54, 658
NdeII	GATC	3 cut(s)	457, 532, 686
NlaIII	CATG	3 cut(s)	164, 277, 842
NspV	TTCGAA	1 cut(s)	95
PagI	TCATGA	1 cut(s)	160
PdmI	GAANNNNTTC	1 cut(s)	321
PfeI	GAWTC	2 cut(s)	647, 818
PfoI	TCCNGGA	1 cut(s)	656
PkrI	GCNGC	4 cut(s)	63, 153, 259, 588
Psp6I	CCWGG	1 cut(s)	630
PspEI	GGTNACC	1 cut(s)	546
PspGI	CCWGG	1 cut(s)	630
PspPI	GGNCC	2 cut(s)	383, 628
PstI	CTGCAG	1 cut(s)	220
PstNI	CAGNNNCTG	1 cut(s)	509
RsaI	GTAC	1 cut(s)	527
RsaNI	GTAC	1 cut(s)	526
RseI	CAYNNNNRTG	2 cut(s)	159, 162
SaqAI	TTAA	2 cut(s)	345, 573
SatI	GCNGC	4 cut(s)	62, 152, 258, 587
Sau3AI	GATC	3 cut(s)	457, 532, 686
Sau96I	GGNCC	2 cut(s)	383, 628
ScrFI	CCNGG	3 cut(s)	54, 632, 658
SduI	GDGCHC	1 cut(s)	769
SfaNI	GCATC	2 cut(s)	154, 163
SfcI	CTRYAG	1 cut(s)	216
SfuI	TTCGAA	1 cut(s)	95
SinI	GGWCC	2 cut(s)	383, 628
SmiMI	CAYNNNNRTG	2 cut(s)	159, 162
SmlI	CTYRAG	1 cut(s)	304
SmoI	CTYRAG	1 cut(s)	304
Sse9I	AATT	6 cut(s)	47, 294, 310, 357, 428, 576
SsiI	CCGC	3 cut(s)	40, 611, 742
SspMI	CTAG	1 cut(s)	815
StyD4I	CCNGG	3 cut(s)	52, 630, 656
TaaI	ACNGT	1 cut(s)	530
TaiI	ACGT	3 cut(s)	322, 397, 739
TaqI	TCGA	3 cut(s)	95, 288, 724
TasI	AATT	6 cut(s)	47, 294, 310, 357, 428, 576
TfiI	GAWTC	2 cut(s)	647, 818
Tru1I	TTAA	2 cut(s)	345, 573
Tru9I	TTAA	2 cut(s)	345, 573
TscAI	CASTG	1 cut(s)	225
TseI	GCWGC	4 cut(s)	61, 151, 257, 586
TspDTI	ATGAA	3 cut(s)	135, 306, 812
TspGWI	ACGGA	1 cut(s)	43
TspRI	CASTG	1 cut(s)	225
VpaK11BI	GGWCC	2 cut(s)	383, 628
XapI	RAATTY	3 cut(s)	47, 310, 428
XmnI	GAANNNNTTC	1 cut(s)	321
XspI	CTAG	1 cut(s)	815

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