Rh2DG026100

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0006963
Physical Location & Seq
Forward (+)
1571210 .. 1574014
2805 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG026100.1

Sequence Viewer

Length: 927 bp
ATGTCAAACATGAACAAACTCGATTTTGTTCCATTGGATTATGCAGGCAAAAGGTACTTAATTTGGGTCACTGATGTCGAGATCCACCTTATTGCCCGTGATTTATTGCATACAATCCAAGAGCTTTGTCCTATTGAAACAGCTCCAGACCCTCAGACTGAGAAAGATAATTCCAAGGCACTTGCCTTCATGAAACGTCACATGGATAGTGACCTACAGTTTGAGTTCATAAATGAGGAAAGCGCCATAAAGCTTTGGCATGTGCTTCGCGAACGATATGGCAATGTTCGTGACTCCATACTTCCGAATACAGAAGCAGAATGGAAAGATCTTCGCTTCTCTAAATTTGACACTGTCATGCAATTTTATTCGGAAGCTCTCAGCATCAGAGCAATGATGCGTCTCTGTGGAAAAACAATCACAGAAGACCAATTGATTGAGAAAACCCTCAATACCTTCCCCGTCTATGCTATGAGGTCCTCTGACTTATTCCGGACTCATGTAAATGCAAGACGGATCACAAGTTTCCAACAGCTTATTGAAGCTATGGCCACTGCTGAAAGACATGGCAATGAACTTGTGCAAAGAAGATTTGATAGGCTTCAAGATAGCTATCAAGAGCATCATCCTATGGCTAGAGAAAGTCGCCATAGACGTCATGATCCATACGATCGAAATGCTCAAGAAGGTAATCGCTCAAGGCGACAATCACACGACCGTAGGAGGCGTGATTTTGAGGGACATAGGGTTGGAAATCATGGAGCCAACGTTGGCCATGGATATCACTTTCCAACGCCACCAGTCCTAGGGACTATGCACATTGCGCCAATGCGCCTCAATCAAGGGAGAATCCTCTTTATGGTGTCTATTTCTGATATGGAACGTCTGATCAATGGACCTGAACTTGCAATGTACCTACGAAGGTAG
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

308

Amino Acids

36.36

Weight (kDa)

8.83

Isoelectric Point (pI)

65.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 27 - 154 1.6e-07 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 658
AccII CGCG 1 cut(s) 270
AccIII TCCGGA 1 cut(s) 492
AclI AACGTT 1 cut(s) 768
AclWI GGATC 3 cut(s) 76, 524, 656
AcoI YGGCCR 2 cut(s) 549, 772
AcsI RAATTY 1 cut(s) 344
AcyI GRCGYC 1 cut(s) 655
AfaI GTAC 2 cut(s) 56, 914
AfiI CCNNNNNNNGG 2 cut(s) 806, 859
AgsI TTSAA 3 cut(s) 137, 542, 605
AluBI AGCT 7 cut(s) 124, 143, 253, 377, 535, 545, 612
AluI AGCT 7 cut(s) 124, 143, 253, 377, 535, 545, 612
Alw26I GTCTC 1 cut(s) 407
AlwI GGATC 3 cut(s) 76, 524, 656
Aor13HI TCCGGA 1 cut(s) 492
AoxI GGCC 2 cut(s) 549, 772
ApoI RAATTY 1 cut(s) 344
ArsI GACNNNNNNTTYG 2 cut(s) 203, 235
AspA2I CCTAGG 1 cut(s) 805
AspLEI GCGC 3 cut(s) 245, 826, 834
AspS9I GGNCC 2 cut(s) 477, 896
AvaII GGWCC 2 cut(s) 477, 896
AvrII CCTAGG 1 cut(s) 805
BalI TGGCCA 2 cut(s) 551, 774
BbsI GAAGAC 1 cut(s) 432
BcgI CGANNNNNNTGC 4 cut(s) 248, 282, 659, 693
BclI TGATCA 1 cut(s) 888
BcoDI GTCTC 1 cut(s) 407
BfaI CTAG 2 cut(s) 636, 806
BfmI CTRYAG 1 cut(s) 215
BfoI RGCGCY 1 cut(s) 246
BglII AGATCT 1 cut(s) 328
BlnI CCTAGG 1 cut(s) 805
Bme18I GGWCC 2 cut(s) 477, 896
BmgT120I GGNCC 2 cut(s) 477, 896
BmiI GGNNCC 1 cut(s) 763
BmsI GCATC 3 cut(s) 387, 393, 631
BpiI GAAGAC 1 cut(s) 432
BpmI CTGGAG 1 cut(s) 129
BpuEI CTTGAG 2 cut(s) 666, 682
BsaBI GATNNNNATC 1 cut(s) 612
BsaHI GRCGYC 1 cut(s) 655
BsaJI CCNNGG 3 cut(s) 174, 775, 805
BsaWI WCCGGW 1 cut(s) 492
BsaXI ACNNNNNCTCC 2 cut(s) 753, 783
Bsc4I CCNNNNNNNGG 2 cut(s) 806, 859
Bse1I ACTGG 1 cut(s) 800
Bse3DI GCAATG 5 cut(s) 289, 399, 577, 819, 915
Bse8I GATNNNNATC 1 cut(s) 612
BseAI TCCGGA 1 cut(s) 492
BseDI CCNNGG 3 cut(s) 174, 775, 805
BseGI GGATG 1 cut(s) 625
BseJI GATNNNNATC 1 cut(s) 612
BseLI CCNNNNNNNGG 2 cut(s) 806, 859
BseMI GCAATG 5 cut(s) 289, 399, 577, 819, 915
BseMII CTCAG 3 cut(s) 150, 167, 394
BseNI ACTGG 1 cut(s) 800
Bsh1236I CGCG 1 cut(s) 270
Bsh1285I CGRYCG 2 cut(s) 673, 718
BshFI GGCC 2 cut(s) 551, 774
BsiEI CGRYCG 2 cut(s) 673, 718
BsiSI CCGG 1 cut(s) 493
BslFI GGGAC 2 cut(s) 753, 823
BslI CCNNNNNNNGG 2 cut(s) 806, 859
BsmAI GTCTC 1 cut(s) 407
BsmBI CGTCTC 1 cut(s) 407
BsmFI GGGAC 2 cut(s) 753, 823
BsnI GGCC 2 cut(s) 551, 774
Bsp13I TCCGGA 1 cut(s) 492
Bsp143I GATC 6 cut(s) 81, 328, 516, 661, 670, 888
Bsp19I CCATGG 1 cut(s) 775
Bsp68I TCGCGA 1 cut(s) 270
BspANI GGCC 2 cut(s) 551, 774
BspCNI CTCAG 3 cut(s) 151, 166, 393
BspEI TCCGGA 1 cut(s) 492
BspFNI CGCG 1 cut(s) 270
BspHI TCATGA 2 cut(s) 189, 658
BspLI GGNNCC 1 cut(s) 763
BspPI GGATC 3 cut(s) 76, 524, 656
BsrDI GCAATG 5 cut(s) 289, 399, 577, 819, 915
BsrI ACTGG 1 cut(s) 800
BssECI CCNNGG 3 cut(s) 174, 775, 805
BssMI GATC 6 cut(s) 81, 328, 516, 661, 670, 888
BssNI GRCGYC 1 cut(s) 655
BssT1I CCWWGG 3 cut(s) 174, 775, 805
Bst4CI ACNGT 3 cut(s) 219, 355, 719
BstACI GRCGYC 1 cut(s) 655
BstC8I GCNNGC 1 cut(s) 46
BstDEI CTNAG 3 cut(s) 153, 159, 380
BstDSI CCRYGG 1 cut(s) 775
BstF5I GGATG 1 cut(s) 625
BstFNI CGCG 1 cut(s) 270
BstH2I RGCGCY 1 cut(s) 246
BstHHI GCGC 3 cut(s) 245, 826, 834
BstKTI GATC 6 cut(s) 84, 331, 519, 664, 673, 891
BstMAI GTCTC 1 cut(s) 407
BstMBI GATC 6 cut(s) 81, 328, 516, 661, 670, 888
BstMCI CGRYCG 2 cut(s) 673, 718
BstMWI GCNNNNNNNGC 1 cut(s) 823
BstNSI RCATGY 1 cut(s) 263
BstSFI CTRYAG 1 cut(s) 215
BstUI CGCG 1 cut(s) 270
BstV2I GAAGAC 1 cut(s) 432
BstX2I RGATCY 2 cut(s) 81, 328
BstYI RGATCY 2 cut(s) 81, 328
BsuRI GGCC 2 cut(s) 551, 774
BtgI CCRYGG 1 cut(s) 775
BtsCI GGATG 1 cut(s) 625
BtsI GCAGTG 1 cut(s) 552
BtsIMutI CAGTG 3 cut(s) 69, 351, 552
BtuMI TCGCGA 1 cut(s) 270
Cac8I GCNNGC 1 cut(s) 46
CciI TCATGA 2 cut(s) 189, 658
CfoI GCGC 3 cut(s) 245, 826, 834
Cfr13I GGNCC 2 cut(s) 477, 896
CseI GACGC 1 cut(s) 389
Csp6I GTAC 2 cut(s) 55, 913
CviQI GTAC 2 cut(s) 55, 913
DdeI CTNAG 3 cut(s) 153, 159, 380
DpnI GATC 6 cut(s) 83, 330, 518, 663, 672, 890
DpnII GATC 6 cut(s) 81, 328, 516, 661, 670, 888
EaeI YGGCCR 2 cut(s) 549, 772
Eco130I CCWWGG 3 cut(s) 174, 775, 805
Eco32I GATATC 1 cut(s) 782
Eco47I GGWCC 2 cut(s) 477, 896
EcoO109I RGGNCCY 1 cut(s) 477
EcoRV GATATC 1 cut(s) 782
EcoT14I CCWWGG 3 cut(s) 174, 775, 805
ErhI CCWWGG 3 cut(s) 174, 775, 805
Esp3I CGTCTC 1 cut(s) 407
FaqI GGGAC 2 cut(s) 753, 823
FbaI TGATCA 1 cut(s) 888
FokI GGATG 1 cut(s) 612
FspBI CTAG 2 cut(s) 636, 806
GlaI GCGC 3 cut(s) 244, 825, 833
GsuI CTGGAG 1 cut(s) 129
HaeII RGCGCY 1 cut(s) 246
HaeIII GGCC 2 cut(s) 551, 774
HapII CCGG 1 cut(s) 493
HgaI GACGC 1 cut(s) 389
HhaI GCGC 3 cut(s) 245, 826, 834
Hin1I GRCGYC 1 cut(s) 655
Hin6I GCGC 3 cut(s) 243, 824, 832
HinP1I GCGC 3 cut(s) 243, 824, 832
HindIII AAGCTT 1 cut(s) 251
HinfI GANTC 3 cut(s) 293, 496, 849
HpaII CCGG 1 cut(s) 493
Hpy188I TCNGA 7 cut(s) 156, 306, 373, 389, 484, 874, 888
HpyAV CCTTC 4 cut(s) 196, 466, 680, 915
HpyCH4III ACNGT 3 cut(s) 219, 355, 719
HpyCH4IV ACGT 4 cut(s) 196, 655, 768, 883
HpyCH4V TGCA 7 cut(s) 44, 109, 361, 509, 583, 817, 908
HpyF10VI GCNNNNNNNGC 1 cut(s) 823
HpyF3I CTNAG 3 cut(s) 153, 159, 380
HpySE526I ACGT 4 cut(s) 196, 655, 768, 883
Hsp92I GRCGYC 1 cut(s) 655
HspAI GCGC 3 cut(s) 243, 824, 832
Kpn2I TCCGGA 1 cut(s) 492
Ksp22I TGATCA 1 cut(s) 888
Kzo9I GATC 6 cut(s) 81, 328, 516, 661, 670, 888
LmnI GCTCC 2 cut(s) 148, 761
LpnPI CCDG 5 cut(s) 30, 159, 506, 813, 912
LweI GCATC 3 cut(s) 387, 393, 631
MaeI CTAG 2 cut(s) 636, 806
MaeII ACGT 4 cut(s) 196, 655, 768, 883
MaeIII GTNAC 4 cut(s) 67, 197, 209, 290
MalI GATC 6 cut(s) 83, 330, 518, 663, 672, 890
MboI GATC 6 cut(s) 81, 328, 516, 661, 670, 888
MboII GAAGA 3 cut(s) 323, 437, 600
MfeI CAATTG 1 cut(s) 431
MflI RGATCY 2 cut(s) 81, 328
MlsI TGGCCA 2 cut(s) 551, 774
MluCI AATT 5 cut(s) 60, 169, 344, 362, 431
MluNI TGGCCA 2 cut(s) 551, 774
MlyI GAGTC 2 cut(s) 287, 490
MmeI TCCRAC 3 cut(s) 553, 730, 815
MnlI CCTC 9 cut(s) 162, 229, 458, 468, 490, 717, 730, 845, 863
Mox20I TGGCCA 2 cut(s) 551, 774
MroI TCCGGA 1 cut(s) 492
MscI TGGCCA 2 cut(s) 551, 774
MseI TTAA 1 cut(s) 59
MslI CAYNNNNRTG 3 cut(s) 356, 504, 570
Msp20I TGGCCA 2 cut(s) 551, 774
MspI CCGG 1 cut(s) 493
MunI CAATTG 1 cut(s) 431
MvnI CGCG 1 cut(s) 270
MwoI GCNNNNNNNGC 1 cut(s) 823
NcoI CCATGG 1 cut(s) 775
NdeII GATC 6 cut(s) 81, 328, 516, 661, 670, 888
NlaIV GGNNCC 1 cut(s) 763
NmuCI GTSAC 4 cut(s) 67, 197, 209, 290
NruI TCGCGA 1 cut(s) 270
NspI RCATGY 1 cut(s) 263
PagI TCATGA 2 cut(s) 189, 658
PcsI WCGNNNNNNNCGW 2 cut(s) 652, 700
PfeI GAWTC 1 cut(s) 849
PflFI GACNNNGTC 1 cut(s) 353
Ple19I CGATCG 1 cut(s) 673
PleI GAGTC 2 cut(s) 287, 490
PpsI GAGTC 2 cut(s) 287, 490
PpuMI RGGWCCY 1 cut(s) 477
Psp1406I AACGTT 1 cut(s) 768
Psp5II RGGWCCY 1 cut(s) 477
PspN4I GGNNCC 1 cut(s) 763
PspPI GGNCC 2 cut(s) 477, 896
PspPPI RGGWCCY 1 cut(s) 477
PsuI RGATCY 2 cut(s) 81, 328
PsyI GACNNNGTC 1 cut(s) 353
PvuI CGATCG 1 cut(s) 673
RruI TCGCGA 1 cut(s) 270
RsaI GTAC 2 cut(s) 56, 914
RsaNI GTAC 2 cut(s) 55, 913
RseI CAYNNNNRTG 3 cut(s) 356, 504, 570
SaqAI TTAA 1 cut(s) 59
Sau3AI GATC 6 cut(s) 81, 328, 516, 661, 670, 888
Sau96I GGNCC 2 cut(s) 477, 896
SchI GAGTC 2 cut(s) 287, 490
SfaNI GCATC 3 cut(s) 387, 393, 631
SfcI CTRYAG 1 cut(s) 215
SinI GGWCC 2 cut(s) 477, 896
SmiMI CAYNNNNRTG 3 cut(s) 356, 504, 570
SmlI CTYRAG 2 cut(s) 681, 697
SmoI CTYRAG 2 cut(s) 681, 697
Sse9I AATT 5 cut(s) 60, 169, 344, 362, 431
SspMI CTAG 2 cut(s) 636, 806
StyI CCWWGG 3 cut(s) 174, 775, 805
TaaI ACNGT 3 cut(s) 219, 355, 719
TaiI ACGT 4 cut(s) 199, 658, 771, 886
TaqI TCGA 3 cut(s) 21, 78, 673
TasI AATT 5 cut(s) 60, 169, 344, 362, 431
TfiI GAWTC 1 cut(s) 849
Tru1I TTAA 1 cut(s) 59
Tru9I TTAA 1 cut(s) 59
TscAI CASTG 3 cut(s) 76, 358, 559
TseFI GTSAC 4 cut(s) 67, 197, 209, 290
Tsp45I GTSAC 4 cut(s) 67, 197, 209, 290
TspDTI ATGAA 5 cut(s) 26, 178, 206, 217, 588
TspGWI ACGGA 1 cut(s) 529
TspRI CASTG 3 cut(s) 76, 358, 559
Tth111I GACNNNGTC 1 cut(s) 353
VpaK11BI GGWCC 2 cut(s) 477, 896
XapI RAATTY 1 cut(s) 344
XceI RCATGY 1 cut(s) 263
XmaJI CCTAGG 1 cut(s) 805
XspI CTAG 2 cut(s) 636, 806
ZraI GACGTC 1 cut(s) 656
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.