Rmu_sc0002993.1_g000005

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002993.1
OG0031238
Physical Location & Seq
Reverse (-)
8253 .. 9053
801 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 801 bp
atggttgaaaataacccaagaaatctatgggttgctcttgaagagtgctttgggaatgtccaaaactcccaaaatctccgcttcgtagactataaattgaacaagctcgacttcgccccattggacactactggccgtggataccacaactgggtatgtgatgtcaaaaatcacctcactgccaaagggatcctaccaacaatccagcccaccaactttgatttgattgcgcagggcatcgatgcgtacaaagccaaggcccttatcttgatgacgcgccatatggacgattcgcttcaactcaagtatatggttgaaaacaacccaagaaatctatgggttgcgcttgaagagcgctttgagaatgttcaaaactcccatctcccagaattgtgcgagagatggaaaaatctatgtttcacggactataagtcagtgttagagtactattcagaagccctcagcatcagatcaatgatgcaagtttgtaatcaaactattacagatgaaaacctaattgagaaaactctctccaccttccccatctctactaggatgctagctatgcaatatcgaattagtattcaagcaggacaaatcaagggatttcatcagttgattacagcgatgaccgtagttaagaaacaaaacccagccccgtgcactactgctgctgctgcaccgagcactgatcccaaacaccgatcccagctgctgcacccaaaagaagaggcacctgcaaaccagagggctagatcgatagcacaatctgcaaaccagaaacagacgaggaaaaagtag
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

266

Amino Acids

30.48

Weight (kDa)

8.96

Isoelectric Point (pI)

40.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 83 - 183 4.4e-08 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0031238)

Species Orthologous Gene IDs
rosa_multiflora Rmu_sc0002993.1_g000005 Rmu_sc0017106.1_g000004

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 745
Acc16I TGCGCA 1 cut(s) 231
Acc36I ACCTGC 1 cut(s) 745
AccB1I GGYRCC 1 cut(s) 733
AccI GTMKAC 1 cut(s) 87
AccII CGCG 1 cut(s) 277
AciI CCGC 1 cut(s) 79
AclWI GGATC 4 cut(s) 184, 197, 686, 699
AcoI YGGCCR 1 cut(s) 133
AfaI GTAC 2 cut(s) 248, 446
AfeI AGCGCT 1 cut(s) 356
AfiI CCNNNNNNNGG 1 cut(s) 151
AgsI TTSAA 8 cut(s) 8, 41, 100, 299, 317, 350, 371, 587
AhdI GACNNNNNGTC 1 cut(s) 430
AjuI GAANNNNNNNTTGG 2 cut(s) 33, 65
AluBI AGCT 3 cut(s) 106, 563, 712
AluI AGCT 3 cut(s) 106, 563, 712
Alw21I GWGCWC 2 cut(s) 665, 689
Alw44I GTGCAC 1 cut(s) 661
AlwI GGATC 4 cut(s) 184, 197, 686, 699
AlwNI CAGNNNCTG 1 cut(s) 715
Aor51HI AGCGCT 1 cut(s) 356
AoxI GGCC 2 cut(s) 133, 258
ApaLI GTGCAC 1 cut(s) 661
ApeKI GCWGC 5 cut(s) 671, 674, 677, 712, 715
AspLEI GCGC 4 cut(s) 232, 279, 346, 357
AspS9I GGNCC 1 cut(s) 259
AsuHPI GGTGA 1 cut(s) 164
AsuNHI GCTAGC 1 cut(s) 559
BaeGI GKGCMC 1 cut(s) 665
BamHI GGATCC 1 cut(s) 189
BanI GGYRCC 1 cut(s) 733
Bbv12I GWGCWC 2 cut(s) 665, 689
BbvCI CCTCAGC 1 cut(s) 461
BbvI GCAGC 5 cut(s) 658, 661, 664, 699, 702
BccI CCATC 3 cut(s) 387, 396, 551
BceAI ACGGC 1 cut(s) 120
BciVI GTATCC 1 cut(s) 134
BfaI CTAG 3 cut(s) 552, 560, 753
BfoI RGCGCY 1 cut(s) 358
BfuAI ACCTGC 1 cut(s) 745
BfuI GTATCC 1 cut(s) 134
BisI GCNGC 5 cut(s) 672, 675, 678, 713, 716
BlsI GCNGC 5 cut(s) 673, 676, 679, 714, 717
BmcAI AGTACT 1 cut(s) 446
BmeRI GACNNNNNGTC 1 cut(s) 430
BmgT120I GGNCC 1 cut(s) 259
BmiI GGNNCC 2 cut(s) 191, 735
BmrI ACTGGG 1 cut(s) 160
BmsI GCATC 5 cut(s) 232, 246, 468, 474, 546
BmtI GCTAGC 1 cut(s) 563
BmuI ACTGGG 1 cut(s) 160
Bpu10I CCTNAGC 1 cut(s) 461
BpuEI CTTGAG 1 cut(s) 287
Bsa29I ATCGAT 2 cut(s) 240, 758
BsaJI CCNNGG 2 cut(s) 136, 255
Bsc4I CCNNNNNNNGG 1 cut(s) 151
Bse1I ACTGG 2 cut(s) 136, 155
BseCI ATCGAT 2 cut(s) 240, 758
BseDI CCNNGG 2 cut(s) 136, 255
BseGI GGATG 1 cut(s) 561
BseLI CCNNNNNNNGG 1 cut(s) 151
BseMII CTCAG 1 cut(s) 475
BseNI ACTGG 2 cut(s) 136, 155
BseSI GKGCMC 1 cut(s) 665
BseXI GCAGC 5 cut(s) 658, 661, 664, 699, 702
BseYI CCCAGC 2 cut(s) 652, 708
BsgI GTGCAG 2 cut(s) 663, 701
Bsh1236I CGCG 1 cut(s) 277
BshFI GGCC 2 cut(s) 135, 260
BshNI GGYRCC 1 cut(s) 733
BshVI ATCGAT 2 cut(s) 240, 758
BsiHKAI GWGCWC 2 cut(s) 665, 689
BslI CCNNNNNNNGG 1 cut(s) 151
BsnI GGCC 2 cut(s) 135, 260
Bsp1286I GDGCHC 2 cut(s) 665, 689
Bsp143I GATC 5 cut(s) 189, 470, 691, 704, 755
BspACI CCGC 1 cut(s) 79
BspANI GGCC 2 cut(s) 135, 260
BspCNI CTCAG 1 cut(s) 474
BspDI ATCGAT 2 cut(s) 240, 758
BspFNI CGCG 1 cut(s) 277
BspLI GGNNCC 2 cut(s) 191, 735
BspMI ACCTGC 1 cut(s) 745
BspOI GCTAGC 1 cut(s) 563
BspPI GGATC 4 cut(s) 184, 197, 686, 699
BspQI GCTCTTC 1 cut(s) 345
BspT107I GGYRCC 1 cut(s) 733
BsrI ACTGG 2 cut(s) 136, 155
BssECI CCNNGG 2 cut(s) 136, 255
BssMI GATC 5 cut(s) 189, 470, 691, 704, 755
BssT1I CCWWGG 1 cut(s) 255
Bst4CI ACNGT 1 cut(s) 634
Bst6I CTCTTC 3 cut(s) 36, 345, 723
BstAPI GCANNNNNTGC 1 cut(s) 770
BstC8I GCNNGC 1 cut(s) 561
BstDEI CTNAG 1 cut(s) 461
BstDSI CCRYGG 1 cut(s) 136
BstF5I GGATG 1 cut(s) 561
BstFNI CGCG 1 cut(s) 277
BstH2I RGCGCY 1 cut(s) 358
BstHHI GCGC 4 cut(s) 232, 279, 346, 357
BstKTI GATC 5 cut(s) 192, 473, 694, 707, 758
BstMBI GATC 5 cut(s) 189, 470, 691, 704, 755
BstMWI GCNNNNNNNGC 5 cut(s) 251, 352, 565, 677, 770
BstSLI GKGCMC 1 cut(s) 665
BstUI CGCG 1 cut(s) 277
BstV1I GCAGC 5 cut(s) 658, 661, 664, 699, 702
BstX2I RGATCY 1 cut(s) 189
BstYI RGATCY 1 cut(s) 189
Bsu15I ATCGAT 2 cut(s) 240, 758
BsuI GTATCC 1 cut(s) 134
BsuRI GGCC 2 cut(s) 135, 260
BsuTUI ATCGAT 2 cut(s) 240, 758
BtgI CCRYGG 1 cut(s) 136
BtgZI GCGATG 1 cut(s) 641
BtsCI GGATG 1 cut(s) 561
BtsI GCAGTG 1 cut(s) 177
BtsIMutI CAGTG 3 cut(s) 177, 441, 687
BveI ACCTGC 1 cut(s) 745
Cac8I GCNNGC 1 cut(s) 561
CaiI CAGNNNCTG 1 cut(s) 715
CfoI GCGC 4 cut(s) 232, 279, 346, 357
Cfr13I GGNCC 1 cut(s) 259
ClaI ATCGAT 2 cut(s) 240, 758
CseI GACGC 1 cut(s) 283
Csp6I GTAC 2 cut(s) 247, 445
CspCI CAANNNNNGTGG 2 cut(s) 199, 234
CviQI GTAC 2 cut(s) 247, 445
DdeI CTNAG 1 cut(s) 461
DpnI GATC 5 cut(s) 191, 472, 693, 706, 757
DpnII GATC 5 cut(s) 189, 470, 691, 704, 755
DriI GACNNNNNGTC 1 cut(s) 430
EaeI YGGCCR 1 cut(s) 133
Eam1104I CTCTTC 3 cut(s) 36, 345, 723
Eam1105I GACNNNNNGTC 1 cut(s) 430
EarI CTCTTC 3 cut(s) 36, 345, 723
Eco130I CCWWGG 1 cut(s) 255
Eco47III AGCGCT 1 cut(s) 356
EcoO109I RGGNCCY 1 cut(s) 259
EcoT14I CCWWGG 1 cut(s) 255
ErhI CCWWGG 1 cut(s) 255
FalI AAGNNNNNCTT 2 cut(s) 95, 127
FauNDI CATATG 1 cut(s) 282
FblI GTMKAC 1 cut(s) 87
Fnu4HI GCNGC 5 cut(s) 672, 675, 678, 713, 716
FokI GGATG 1 cut(s) 568
Fsp4HI GCNGC 5 cut(s) 672, 675, 678, 713, 716
FspBI CTAG 3 cut(s) 552, 560, 753
FspI TGCGCA 1 cut(s) 231
GlaI GCGC 4 cut(s) 231, 278, 345, 356
GluI GCNGC 5 cut(s) 672, 675, 678, 713, 716
GsaI CCCAGC 2 cut(s) 656, 712
HaeII RGCGCY 1 cut(s) 358
HaeIII GGCC 2 cut(s) 135, 260
HgaI GACGC 1 cut(s) 283
HhaI GCGC 4 cut(s) 232, 279, 346, 357
Hin6I GCGC 4 cut(s) 230, 277, 344, 355
HinP1I GCGC 4 cut(s) 230, 277, 344, 355
HinfI GANTC 1 cut(s) 290
HphI GGTGA 1 cut(s) 164
Hpy166II GTNNAC 2 cut(s) 88, 663
Hpy188I TCNGA 2 cut(s) 454, 470
Hpy188III TCNNGA 2 cut(s) 38, 268
Hpy8I GTNNAC 2 cut(s) 88, 663
HpyAV CCTTC 1 cut(s) 547
HpyCH4III ACNGT 1 cut(s) 634
HpyCH4V TGCA 7 cut(s) 481, 568, 663, 680, 718, 740, 773
HpyF10VI GCNNNNNNNGC 5 cut(s) 251, 352, 565, 677, 770
HpyF3I CTNAG 1 cut(s) 461
HspAI GCGC 4 cut(s) 230, 277, 344, 355
Kzo9I GATC 5 cut(s) 189, 470, 691, 704, 755
LguI GCTCTTC 1 cut(s) 345
Lsp1109I GCAGC 5 cut(s) 658, 661, 664, 699, 702
LweI GCATC 5 cut(s) 232, 246, 468, 474, 546
MaeI CTAG 3 cut(s) 552, 560, 753
MalI GATC 5 cut(s) 191, 472, 693, 706, 757
MboI GATC 5 cut(s) 189, 470, 691, 704, 755
MboII GAAGA 3 cut(s) 53, 362, 740
MflI RGATCY 1 cut(s) 189
MhlI GDGCHC 2 cut(s) 665, 689
MluCI AATT 4 cut(s) 95, 389, 516, 576
MnlI CCTC 5 cut(s) 185, 470, 724, 741, 783
MseI TTAA 1 cut(s) 639
MspA1I CMGCKG 1 cut(s) 712
MvnI CGCG 1 cut(s) 277
MwoI GCNNNNNNNGC 5 cut(s) 251, 352, 565, 677, 770
NdeI CATATG 1 cut(s) 282
NdeII GATC 5 cut(s) 189, 470, 691, 704, 755
NheI GCTAGC 1 cut(s) 559
NlaIV GGNNCC 2 cut(s) 191, 735
NsbI TGCGCA 1 cut(s) 231
PaqCI CACCTGC 1 cut(s) 745
PciSI GCTCTTC 1 cut(s) 345
PfeI GAWTC 1 cut(s) 290
PkrI GCNGC 5 cut(s) 673, 676, 679, 714, 717
PspFI CCCAGC 2 cut(s) 652, 708
PspN4I GGNNCC 2 cut(s) 191, 735
PspPI GGNCC 1 cut(s) 259
PstNI CAGNNNCTG 1 cut(s) 715
PsuI RGATCY 1 cut(s) 189
PvuII CAGCTG 1 cut(s) 712
RsaI GTAC 2 cut(s) 248, 446
RsaNI GTAC 2 cut(s) 247, 445
SapI GCTCTTC 1 cut(s) 345
SaqAI TTAA 1 cut(s) 639
SatI GCNGC 5 cut(s) 672, 675, 678, 713, 716
Sau3AI GATC 5 cut(s) 189, 470, 691, 704, 755
Sau96I GGNCC 1 cut(s) 259
ScaI AGTACT 1 cut(s) 446
SduI GDGCHC 2 cut(s) 665, 689
SetI ASST 7 cut(s) 108, 177, 516, 539, 565, 714, 739
SfaNI GCATC 5 cut(s) 232, 246, 468, 474, 546
SmlI CTYRAG 1 cut(s) 302
SmoI CTYRAG 1 cut(s) 302
Sse9I AATT 4 cut(s) 95, 389, 516, 576
SsiI CCGC 1 cut(s) 79
SspMI CTAG 3 cut(s) 552, 560, 753
StyI CCWWGG 1 cut(s) 255
TaaI ACNGT 1 cut(s) 634
TaqI TCGA 4 cut(s) 108, 240, 574, 758
TasI AATT 4 cut(s) 95, 389, 516, 576
TatI WGTACW 1 cut(s) 444
TfiI GAWTC 1 cut(s) 290
Tru1I TTAA 1 cut(s) 639
Tru9I TTAA 1 cut(s) 639
TscAI CASTG 3 cut(s) 184, 441, 694
TseI GCWGC 5 cut(s) 671, 674, 677, 712, 715
TspDTI ATGAA 2 cut(s) 522, 599
TspGWI ACGGA 1 cut(s) 437
TspRI CASTG 3 cut(s) 184, 441, 694
VneI GTGCAC 1 cut(s) 661
XcmI CCANNNNNNNNNTGG 2 cut(s) 24, 333
XmiI GTMKAC 1 cut(s) 87
XspI CTAG 3 cut(s) 552, 560, 753
ZrmI AGTACT 1 cut(s) 446
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.