Rroxscaffold_6G00407990

YLS9-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0014763
Physical Location & Seq
Forward (+)
30527227 .. 30527952
726 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00407990.1

Sequence Viewer

Length: 726 bp
ATGGCCCCAAGTAATACTGTCTCCATGGCTCAACTCTGTTGTTGCATTCTCAGACCCATTCCTGGAGGGTTTTCATGGCGAAAACTTCCTGGATGGTTGAAATGGTTGGCCTTGTGCCGCTGCATAATCTGCCACATCATTTTCTGGTGTGGAGCTTTCGTACTCATTTTCTGGCTGATCTTCCTTCCTGACGAGCCTAGATTTACTGTTACGAATGCCTCTCTAACCCAATTCAATTTCAACGGTAGTGACAACAAAAGCGATACCAATCTTCAGTACCACCTCGCCCTCAACATCACCATTAGAAACCCCAATAGAAGGGTCGGCATTGACTACCGTAGCATGACAGTGTCTGCTAGCTACAGAAAGAAGAAGTTTGGCCTCCTAAATTTGATGGATTCAGTACCATTTTACCAAGGCCACAAGAACACAACTTTTTTGCATCATCTGGTGCTTCAAGGGCAACAGCAGTTGGTGAAATTCGGGAAGCGTGACATCTCCCAGTTTGACAAGGAGACTGCTGCTGGGGTTTATAGTATTACTGTGCAGGTTACTTTTCGGGTCAAGATCAGGTATGGAAAGTATAAGGCCAAATTTTTGAAACCAGAAACCTACGATGACCAGCAGATCAACTGCGAGCTGAAACTTCCTATAAGTATTACTAATGAGACAGCTGGGGGTGGTTTCAAGGCTACAAAGTGCGGCGATGTTGGTATATTTTCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
LEA_2

Protein Analysis

241

Amino Acids

27.45

Weight (kDa)

9.56

Isoelectric Point (pI)

31.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LEA_2 PF03168 99 - 193 1.2e-08 Late embryogenesis abundant protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 538
AciI CCGC 2 cut(s) 118, 702
AcsI RAATTY 3 cut(s) 388, 479, 593
AcuI CTGAAG 1 cut(s) 257
AfaI GTAC 3 cut(s) 162, 278, 405
AfiI CCNNNNNNNGG 2 cut(s) 62, 318
AgsI TTSAA 6 cut(s) 100, 235, 241, 458, 601, 688
AjnI CCWGG 2 cut(s) 61, 88
AluBI AGCT 4 cut(s) 155, 360, 640, 674
AluI AGCT 4 cut(s) 155, 360, 640, 674
Alw26I GTCTC 3 cut(s) 25, 509, 662
AlwNI CAGNNNCTG 1 cut(s) 353
AoxI GGCC 5 cut(s) 3, 108, 379, 418, 588
ApeKI GCWGC 2 cut(s) 120, 521
ApoI RAATTY 3 cut(s) 388, 479, 593
AspS9I GGNCC 1 cut(s) 4
AsuHPI GGTGA 2 cut(s) 289, 487
AsuNHI GCTAGC 1 cut(s) 356
BbvI GCAGC 2 cut(s) 107, 508
BccI CCATC 2 cut(s) 87, 388
BciT130I CCWGG 2 cut(s) 63, 90
BcoDI GTCTC 3 cut(s) 25, 509, 662
BfaI CTAG 2 cut(s) 198, 357
BfmI CTRYAG 1 cut(s) 361
BfuAI ACCTGC 1 cut(s) 538
BisI GCNGC 4 cut(s) 118, 121, 522, 703
BlsI GCNGC 4 cut(s) 119, 122, 523, 704
Bme1390I CCNGG 2 cut(s) 63, 90
BmgT120I GGNCC 1 cut(s) 4
BmiI GGNNCC 1 cut(s) 6
BmrFI CCNGG 2 cut(s) 63, 90
BmrI ACTGGG 1 cut(s) 496
BmsI GCATC 1 cut(s) 451
BmtI GCTAGC 1 cut(s) 360
BmuI ACTGGG 1 cut(s) 496
BpmI CTGGAG 1 cut(s) 84
BsaBI GATNNNNATC 1 cut(s) 267
BsaJI CCNNGG 2 cut(s) 24, 415
BsaXI ACNNNNNCTCC 2 cut(s) 144, 174
Bsc4I CCNNNNNNNGG 2 cut(s) 62, 318
Bse1I ACTGG 1 cut(s) 502
Bse8I GATNNNNATC 1 cut(s) 267
BseBI CCWGG 2 cut(s) 63, 90
BseDI CCNNGG 2 cut(s) 24, 415
BseGI GGATG 1 cut(s) 98
BseJI GATNNNNATC 1 cut(s) 267
BseLI CCNNNNNNNGG 2 cut(s) 62, 318
BseMII CTCAG 1 cut(s) 64
BseNI ACTGG 1 cut(s) 502
BseXI GCAGC 2 cut(s) 107, 508
BseYI CCCAGC 2 cut(s) 524, 674
BsgI GTGCAG 1 cut(s) 566
BshFI GGCC 5 cut(s) 5, 110, 381, 420, 590
BslI CCNNNNNNNGG 2 cut(s) 62, 318
BsmAI GTCTC 3 cut(s) 25, 509, 662
BsmI GAATGC 2 cut(s) 45, 220
BsnI GGCC 5 cut(s) 5, 110, 381, 420, 590
Bsp143I GATC 3 cut(s) 177, 567, 627
Bsp19I CCATGG 1 cut(s) 24
BspACI CCGC 2 cut(s) 118, 702
BspANI GGCC 5 cut(s) 5, 110, 381, 420, 590
BspCNI CTCAG 1 cut(s) 63
BspLI GGNNCC 1 cut(s) 6
BspMI ACCTGC 1 cut(s) 538
BspOI GCTAGC 1 cut(s) 360
BsrI ACTGG 1 cut(s) 502
BssECI CCNNGG 2 cut(s) 24, 415
BssMI GATC 3 cut(s) 177, 567, 627
BssT1I CCWWGG 2 cut(s) 24, 415
Bst2UI CCWGG 2 cut(s) 63, 90
Bst4CI ACNGT 6 cut(s) 19, 208, 245, 338, 349, 544
BstAPI GCANNNNNTGC 1 cut(s) 129
BstC8I GCNNGC 2 cut(s) 358, 638
BstDEI CTNAG 1 cut(s) 50
BstDSI CCRYGG 1 cut(s) 24
BstF5I GGATG 1 cut(s) 98
BstKTI GATC 3 cut(s) 180, 570, 630
BstMAI GTCTC 3 cut(s) 25, 509, 662
BstMBI GATC 3 cut(s) 177, 567, 627
BstMWI GCNNNNNNNGC 2 cut(s) 129, 460
BstNI CCWGG 2 cut(s) 63, 90
BstSCI CCNGG 2 cut(s) 61, 88
BstSFI CTRYAG 1 cut(s) 361
BstV1I GCAGC 2 cut(s) 107, 508
BsuRI GGCC 5 cut(s) 5, 110, 381, 420, 590
BtgI CCRYGG 1 cut(s) 24
BtgZI GCGATG 1 cut(s) 720
BtsCI GGATG 1 cut(s) 98
BtsIMutI CAGTG 1 cut(s) 354
BveI ACCTGC 1 cut(s) 538
Cac8I GCNNGC 2 cut(s) 358, 638
CaiI CAGNNNCTG 1 cut(s) 353
Cfr13I GGNCC 1 cut(s) 4
Csp6I GTAC 3 cut(s) 161, 277, 404
CviAII CATG 3 cut(s) 25, 75, 343
CviQI GTAC 3 cut(s) 161, 277, 404
DdeI CTNAG 1 cut(s) 50
DpnI GATC 3 cut(s) 179, 569, 629
DpnII GATC 3 cut(s) 177, 567, 627
Eco130I CCWWGG 2 cut(s) 24, 415
Eco57I CTGAAG 1 cut(s) 257
EcoRII CCWGG 2 cut(s) 61, 88
EcoT14I CCWWGG 2 cut(s) 24, 415
ErhI CCWWGG 2 cut(s) 24, 415
FaeI CATG 3 cut(s) 28, 78, 346
FaiI YATR 9 cut(s) 26, 76, 125, 344, 534, 576, 585, 653, 716
FatI CATG 3 cut(s) 24, 74, 342
Fnu4HI GCNGC 4 cut(s) 118, 121, 522, 703
FokI GGATG 1 cut(s) 105
Fsp4HI GCNGC 4 cut(s) 118, 121, 522, 703
FspBI CTAG 2 cut(s) 198, 357
GluI GCNGC 4 cut(s) 118, 121, 522, 703
GsaI CCCAGC 2 cut(s) 528, 678
GsuI CTGGAG 1 cut(s) 84
HaeIII GGCC 5 cut(s) 5, 110, 381, 420, 590
Hin1II CATG 3 cut(s) 28, 78, 346
HinfI GANTC 1 cut(s) 398
HphI GGTGA 2 cut(s) 289, 487
Hpy188I TCNGA 1 cut(s) 53
Hpy188III TCNNGA 3 cut(s) 188, 484, 565
HpyAV CCTTC 2 cut(s) 194, 312
HpyCH4III ACNGT 6 cut(s) 19, 208, 245, 338, 349, 544
HpyCH4V TGCA 4 cut(s) 45, 123, 442, 547
HpyF10VI GCNNNNNNNGC 2 cut(s) 129, 460
HpyF3I CTNAG 1 cut(s) 50
Hsp92II CATG 3 cut(s) 28, 78, 346
Kzo9I GATC 3 cut(s) 177, 567, 627
LmnI GCTCC 1 cut(s) 152
Lsp1109I GCAGC 2 cut(s) 107, 508
LweI GCATC 1 cut(s) 451
MaeI CTAG 2 cut(s) 198, 357
MaeIII GTNAC 4 cut(s) 208, 248, 491, 550
MalI GATC 3 cut(s) 179, 569, 629
MboI GATC 3 cut(s) 177, 567, 627
MboII GAAGA 3 cut(s) 172, 263, 382
MluCI AATT 5 cut(s) 230, 235, 388, 479, 593
MnlI CCTC 5 cut(s) 59, 229, 293, 299, 392
MseI TTAA 1 cut(s) 724
MslI CAYNNNNRTG 1 cut(s) 347
MspA1I CMGCKG 2 cut(s) 120, 674
MspR9I CCNGG 2 cut(s) 63, 90
Mva1269I GAATGC 2 cut(s) 45, 220
MvaI CCWGG 2 cut(s) 63, 90
MwoI GCNNNNNNNGC 2 cut(s) 129, 460
NcoI CCATGG 1 cut(s) 24
NdeII GATC 3 cut(s) 177, 567, 627
NheI GCTAGC 1 cut(s) 356
NlaIII CATG 3 cut(s) 28, 78, 346
NlaIV GGNNCC 1 cut(s) 6
NmuCI GTSAC 2 cut(s) 248, 491
PctI GAATGC 2 cut(s) 45, 220
PfeI GAWTC 1 cut(s) 398
PflFI GACNNNGTC 1 cut(s) 349
PfoI TCCNGGA 2 cut(s) 61, 88
PkrI GCNGC 4 cut(s) 119, 122, 523, 704
Psp6I CCWGG 2 cut(s) 61, 88
PspFI CCCAGC 2 cut(s) 524, 674
PspGI CCWGG 2 cut(s) 61, 88
PspN4I GGNNCC 1 cut(s) 6
PspPI GGNCC 1 cut(s) 4
PstNI CAGNNNCTG 1 cut(s) 353
PsyI GACNNNGTC 1 cut(s) 349
PvuII CAGCTG 1 cut(s) 674
RsaI GTAC 3 cut(s) 162, 278, 405
RsaNI GTAC 3 cut(s) 161, 277, 404
RseI CAYNNNNRTG 1 cut(s) 347
SaqAI TTAA 1 cut(s) 724
SatI GCNGC 4 cut(s) 118, 121, 522, 703
Sau3AI GATC 3 cut(s) 177, 567, 627
Sau96I GGNCC 1 cut(s) 4
ScrFI CCNGG 2 cut(s) 63, 90
SetI ASST 8 cut(s) 157, 285, 362, 552, 575, 614, 642, 676
SfaNI GCATC 1 cut(s) 451
SfcI CTRYAG 1 cut(s) 361
SmiMI CAYNNNNRTG 1 cut(s) 347
Sse9I AATT 5 cut(s) 230, 235, 388, 479, 593
SsiI CCGC 2 cut(s) 118, 702
SspMI CTAG 2 cut(s) 198, 357
StyD4I CCNGG 2 cut(s) 61, 88
StyI CCWWGG 2 cut(s) 24, 415
TaaI ACNGT 6 cut(s) 19, 208, 245, 338, 349, 544
TasI AATT 5 cut(s) 230, 235, 388, 479, 593
TauI GCSGC 2 cut(s) 120, 705
TfiI GAWTC 1 cut(s) 398
Tru1I TTAA 1 cut(s) 724
Tru9I TTAA 1 cut(s) 724
TscAI CASTG 1 cut(s) 354
TseFI GTSAC 2 cut(s) 248, 491
TseI GCWGC 2 cut(s) 120, 521
Tsp45I GTSAC 2 cut(s) 248, 491
TspDTI ATGAA 1 cut(s) 63
TspRI CASTG 1 cut(s) 354
Tth111I GACNNNGTC 1 cut(s) 349
XapI RAATTY 3 cut(s) 388, 479, 593
XspI CTAG 2 cut(s) 198, 357
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.