Rmu_sc0004071.1_g000007

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004071.1
OG0023026
Physical Location & Seq
Reverse (-)
31512 .. 32800
1289 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 639 bp
atgtcgaatgaacctagactcgactttcccatgcttgactcaactggctcggattaccacagttgggtaaccgatgttgagaaccacctcacttcaaagggaatattacccataatccagacacttaacccggatcgtgtgttcgtacgaacacctacaaagcatgctcaagcagttatcttgatgcaacgccatgtgaacaaggcactcagatgggagtatatgtcgatcaaggatgcaagagagctatgggtagcgctagaagagcgctttagcaatgtccaagattccctcctccctgacttggaggttcaatggaacaatctgcgctttgctgatttcaagtctgttgctgaatataattcaaaagctcttcgcctacagtccatgttgaggttttgtggacaacctgtcacagagcaagagctaattgagaaaactctctccaccttccctgtttcaaccattgtggcaagcgaccaactagcttcaagatacagggcatacagggacctgagggagcaagaagtataccttgcagaagaagaagaagaagaagatggtggagatgtcaatctcaccatagaggacttcaaaactgaagatgaagtgcacaaggatgctacagactttgattag
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

212

Amino Acids

24.66

Weight (kDa)

4.67

Isoelectric Point (pI)

57.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 53 - 184 3.6e-06 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: OG0023026)

Species Orthologous Gene IDs
rosa_multiflora Rmu_sc0004071.1_g000007 Rmu_sc0004350.1_g000012 Rmu_sc0011292.1_g000003 Rmu_ssc0000295.1_g000049

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 531
AclWI GGATC 1 cut(s) 141
AcuI CTGAAG 1 cut(s) 621
AfaI GTAC 1 cut(s) 147
AfeI AGCGCT 2 cut(s) 258, 269
AfiI CCNNNNNNNGG 3 cut(s) 64, 304, 393
AgsI TTSAA 7 cut(s) 96, 314, 343, 366, 462, 492, 595
AhdI GACNNNNNGTC 1 cut(s) 410
AloI GAACNNNNNNTCC 2 cut(s) 125, 157
AluBI AGCT 4 cut(s) 247, 371, 427, 488
AluI AGCT 4 cut(s) 247, 371, 427, 488
Alw21I GWGCWC 1 cut(s) 615
Alw44I GTGCAC 1 cut(s) 611
AlwI GGATC 1 cut(s) 141
Aor51HI AGCGCT 2 cut(s) 258, 269
ApaLI GTGCAC 1 cut(s) 611
AspLEI GCGC 3 cut(s) 259, 270, 330
AspS9I GGNCC 1 cut(s) 511
AsuC2I CCSGG 1 cut(s) 131
AsuHPI GGTGA 1 cut(s) 571
AvaII GGWCC 1 cut(s) 511
AxyI CCTNAGG 1 cut(s) 515
BaeGI GKGCMC 1 cut(s) 615
Bbv12I GWGCWC 1 cut(s) 615
BccI CCATC 2 cut(s) 207, 554
BcnI CCSGG 1 cut(s) 131
BfaI CTAG 3 cut(s) 15, 260, 485
BfmI CTRYAG 2 cut(s) 380, 624
BfoI RGCGCY 2 cut(s) 260, 271
Bme1390I CCNGG 1 cut(s) 131
Bme18I GGWCC 1 cut(s) 511
BmeRI GACNNNNNGTC 1 cut(s) 410
BmgT120I GGNCC 1 cut(s) 511
BmiI GGNNCC 1 cut(s) 512
BmrFI CCNGG 1 cut(s) 131
BmsI GCATC 3 cut(s) 174, 226, 610
BpuEI CTTGAG 1 cut(s) 153
BpuMI CCSGG 1 cut(s) 131
BsaBI GATNNNNATC 1 cut(s) 573
BsaXI ACNNNNNCTCC 2 cut(s) 209, 239
Bsc4I CCNNNNNNNGG 3 cut(s) 64, 304, 393
Bse1I ACTGG 1 cut(s) 49
Bse21I CCTNAGG 1 cut(s) 515
Bse3DI GCAATG 1 cut(s) 283
Bse8I GATNNNNATC 1 cut(s) 573
BseGI GGATG 2 cut(s) 241, 625
BseJI GATNNNNATC 1 cut(s) 573
BseLI CCNNNNNNNGG 3 cut(s) 64, 304, 393
BseMI GCAATG 1 cut(s) 283
BseMII CTCAG 2 cut(s) 223, 506
BseNI ACTGG 1 cut(s) 49
BseRI GAGGAG 1 cut(s) 284
BseSI GKGCMC 1 cut(s) 615
BsiHKAI GWGCWC 1 cut(s) 615
BsiSI CCGG 1 cut(s) 131
BsiWI CGTACG 1 cut(s) 145
BslFI GGGAC 1 cut(s) 524
BslI CCNNNNNNNGG 3 cut(s) 64, 304, 393
BsmFI GGGAC 1 cut(s) 524
Bsp1286I GDGCHC 1 cut(s) 615
Bsp143I GATC 2 cut(s) 133, 228
BspCNI CTCAG 2 cut(s) 222, 507
BspLI GGNNCC 1 cut(s) 512
BspPI GGATC 1 cut(s) 141
BspQI GCTCTTC 2 cut(s) 258, 378
BsrDI GCAATG 1 cut(s) 283
BsrI ACTGG 1 cut(s) 49
BssMI GATC 2 cut(s) 133, 228
BssNAI GTATAC 1 cut(s) 532
Bst1107I GTATAC 1 cut(s) 532
Bst4CI ACNGT 2 cut(s) 62, 384
Bst6I CTCTTC 2 cut(s) 258, 378
BstC8I GCNNGC 2 cut(s) 165, 475
BstDEI CTNAG 2 cut(s) 209, 515
BstEII GGTNACC 1 cut(s) 67
BstF5I GGATG 2 cut(s) 241, 625
BstH2I RGCGCY 2 cut(s) 260, 271
BstHHI GCGC 3 cut(s) 259, 270, 330
BstKTI GATC 2 cut(s) 136, 231
BstMBI GATC 2 cut(s) 133, 228
BstMWI GCNNNNNNNGC 1 cut(s) 265
BstNSI RCATGY 1 cut(s) 167
BstPI GGTNACC 1 cut(s) 67
BstSCI CCNGG 1 cut(s) 129
BstSFI CTRYAG 2 cut(s) 380, 624
BstSLI GKGCMC 1 cut(s) 615
BstZ17I GTATAC 1 cut(s) 532
Bsu36I CCTNAGG 1 cut(s) 515
BtsCI GGATG 2 cut(s) 241, 625
Cac8I GCNNGC 2 cut(s) 165, 475
CfoI GCGC 3 cut(s) 259, 270, 330
Cfr13I GGNCC 1 cut(s) 511
Csp6I GTAC 1 cut(s) 146
CspCI CAANNNNNGTGG 2 cut(s) 450, 485
CviAII CATG 4 cut(s) 31, 164, 194, 388
CviJI RGCY 5 cut(s) 48, 247, 371, 427, 488
CviKI_1 RGCY 5 cut(s) 48, 247, 371, 427, 488
CviQI GTAC 1 cut(s) 146
DdeI CTNAG 2 cut(s) 209, 515
DpnI GATC 2 cut(s) 135, 230
DpnII GATC 2 cut(s) 133, 228
DriI GACNNNNNGTC 1 cut(s) 410
Eam1104I CTCTTC 2 cut(s) 258, 378
Eam1105I GACNNNNNGTC 1 cut(s) 410
EarI CTCTTC 2 cut(s) 258, 378
Eco47I GGWCC 1 cut(s) 511
Eco47III AGCGCT 2 cut(s) 258, 269
Eco57I CTGAAG 1 cut(s) 621
Eco81I CCTNAGG 1 cut(s) 515
Eco91I GGTNACC 1 cut(s) 67
EcoO109I RGGNCCY 1 cut(s) 511
EcoO65I GGTNACC 1 cut(s) 67
FaeI CATG 4 cut(s) 34, 167, 197, 391
FalI AAGNNNNNCTT 2 cut(s) 519, 551
FaqI GGGAC 1 cut(s) 524
FatI CATG 4 cut(s) 30, 163, 193, 387
FblI GTMKAC 1 cut(s) 531
FokI GGATG 2 cut(s) 248, 632
FspBI CTAG 3 cut(s) 15, 260, 485
GlaI GCGC 3 cut(s) 258, 269, 329
HaeII RGCGCY 2 cut(s) 260, 271
HapII CCGG 1 cut(s) 131
HhaI GCGC 3 cut(s) 259, 270, 330
Hin1II CATG 4 cut(s) 34, 167, 197, 391
Hin6I GCGC 3 cut(s) 257, 268, 328
HinP1I GCGC 3 cut(s) 257, 268, 328
HinfI GANTC 3 cut(s) 18, 38, 287
HpaII CCGG 1 cut(s) 131
HphI GGTGA 1 cut(s) 571
Hpy166II GTNNAC 4 cut(s) 199, 404, 532, 613
Hpy188I TCNGA 2 cut(s) 52, 212
Hpy188III TCNNGA 3 cut(s) 118, 181, 492
Hpy8I GTNNAC 4 cut(s) 199, 404, 532, 613
HpyAV CCTTC 1 cut(s) 460
HpyCH4III ACNGT 2 cut(s) 62, 384
HpyCH4V TGCA 4 cut(s) 187, 239, 539, 613
HpyF10VI GCNNNNNNNGC 1 cut(s) 265
HpyF3I CTNAG 2 cut(s) 209, 515
Hsp92II CATG 4 cut(s) 34, 167, 197, 391
HspAI GCGC 3 cut(s) 257, 268, 328
Kzo9I GATC 2 cut(s) 133, 228
LguI GCTCTTC 2 cut(s) 258, 378
LmnI GCTCC 1 cut(s) 520
LpnPI CCDG 9 cut(s) 30, 131, 144, 312, 423, 468, 484, 493, 527
LweI GCATC 3 cut(s) 174, 226, 610
MaeI CTAG 3 cut(s) 15, 260, 485
MaeIII GTNAC 2 cut(s) 67, 412
MalI GATC 2 cut(s) 135, 230
MboI GATC 2 cut(s) 133, 228
MboII GAAGA 9 cut(s) 275, 365, 554, 557, 560, 563, 566, 569, 614
MhlI GDGCHC 1 cut(s) 615
MluCI AATT 2 cut(s) 361, 429
MlyI GAGTC 2 cut(s) 12, 32
MnlI CCTC 7 cut(s) 98, 301, 302, 305, 387, 510, 580
MseI TTAA 1 cut(s) 126
MslI CAYNNNNRTG 2 cut(s) 211, 618
MspI CCGG 1 cut(s) 131
MspR9I CCNGG 1 cut(s) 131
MwoI GCNNNNNNNGC 1 cut(s) 265
NciI CCSGG 1 cut(s) 131
NdeII GATC 2 cut(s) 133, 228
NlaIII CATG 4 cut(s) 34, 167, 197, 391
NlaIV GGNNCC 1 cut(s) 512
NmuCI GTSAC 1 cut(s) 412
NspI RCATGY 1 cut(s) 167
PaeI GCATGC 1 cut(s) 167
PciSI GCTCTTC 2 cut(s) 258, 378
PfeI GAWTC 1 cut(s) 287
Pfl23II CGTACG 1 cut(s) 145
PleI GAGTC 2 cut(s) 12, 32
PpsI GAGTC 2 cut(s) 12, 32
PpuMI RGGWCCY 1 cut(s) 511
Psp5II RGGWCCY 1 cut(s) 511
PspEI GGTNACC 1 cut(s) 67
PspLI CGTACG 1 cut(s) 145
PspN4I GGNNCC 1 cut(s) 512
PspPI GGNCC 1 cut(s) 511
PspPPI RGGWCCY 1 cut(s) 511
RsaI GTAC 1 cut(s) 147
RsaNI GTAC 1 cut(s) 146
RseI CAYNNNNRTG 2 cut(s) 211, 618
SapI GCTCTTC 2 cut(s) 258, 378
SaqAI TTAA 1 cut(s) 126
Sau3AI GATC 2 cut(s) 133, 228
Sau96I GGNCC 1 cut(s) 511
SchI GAGTC 2 cut(s) 12, 32
ScrFI CCNGG 1 cut(s) 131
SduI GDGCHC 1 cut(s) 615
SfaNI GCATC 3 cut(s) 174, 226, 610
SfcI CTRYAG 2 cut(s) 380, 624
SinI GGWCC 1 cut(s) 511
SmiMI CAYNNNNRTG 2 cut(s) 211, 618
SmlI CTYRAG 1 cut(s) 168
SmoI CTYRAG 1 cut(s) 168
SphI GCATGC 1 cut(s) 167
Sse9I AATT 2 cut(s) 361, 429
SspI AATATT 1 cut(s) 105
SspMI CTAG 3 cut(s) 15, 260, 485
StyD4I CCNGG 1 cut(s) 129
TaaI ACNGT 2 cut(s) 62, 384
TaqI TCGA 3 cut(s) 5, 21, 227
TasI AATT 2 cut(s) 361, 429
TfiI GAWTC 1 cut(s) 287
Tru1I TTAA 1 cut(s) 126
Tru9I TTAA 1 cut(s) 126
TseFI GTSAC 1 cut(s) 412
Tsp45I GTSAC 1 cut(s) 412
TspDTI ATGAA 2 cut(s) 24, 621
VneI GTGCAC 1 cut(s) 611
VpaK11BI GGWCC 1 cut(s) 511
XceI RCATGY 1 cut(s) 167
XmiI GTMKAC 1 cut(s) 531
XspI CTAG 3 cut(s) 15, 260, 485
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.