AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029626.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029626.01.T01 MTR_5g089820 99.522 209 1 0 1 209 1 209 6.09e-156 430
MsG0580029626.01.T01 MTR_3g045790 57.143 224 74 5 1 206 1 220 4.57e-79 236
MsG0580029626.01.T02 MTR_5g089820 99.401 167 1 0 1 167 43 209 4.60e-123 345
MsG0580029626.01.T02 MTR_3g045790 61.538 169 57 3 1 164 55 220 1.54e-64 197
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029626.01.T01 AT5G12340 45.161 217 104 6 1 203 4 219 6.39e-57 180
MsG0580029626.01.T01 AT5G12340 45.161 217 104 6 1 203 1 216 6.72e-57 179
MsG0580029626.01.T01 AT1G28190 31.980 197 115 7 8 189 24 216 4.15e-18 80.5
MsG0580029626.01.T02 AT5G12340 45.930 172 82 3 1 161 45 216 1.49e-48 157
MsG0580029626.01.T02 AT5G12340 45.930 172 82 3 1 161 48 219 1.84e-48 156
MsG0580029626.01.T02 AT1G28190 35.443 158 85 6 3 147 63 216 3.34e-16 73.9

Find 47 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATAGTGAAGCTCATATTT+TGG 0.192859 5:-99735535 MsG0580029626.01.T01:CDS
AATAAATCTCCTATCAAATT+TGG 0.198099 5:-99735281 MsG0580029626.01.T01:CDS
CATGCAGATTCATTCTTTAT+AGG 0.237470 5:-99735434 MsG0580029626.01.T01:CDS
AATTTGATAGGAGATTTATT+AGG 0.241649 5:+99735284 None:intergenic
GCATGGCAAACCATCATTTC+AGG 0.257274 5:+99735452 None:intergenic
CAATGGAAGGGTGGTTATTA+AGG 0.314334 5:-99735228 MsG0580029626.01.T01:CDS
TTCATAACTGGTCTCATCTA+TGG 0.330358 5:-99735194 MsG0580029626.01.T01:CDS
AAGCATAAGTTCATCATCTA+TGG 0.331093 5:+99735391 None:intergenic
GTTTCTTCAATCTCAGCCTT+TGG 0.341027 5:-99735314 MsG0580029626.01.T01:CDS
ATTTGATAGGAGATTTATTA+GGG 0.342798 5:+99735285 None:intergenic
TCTATGGATAAAACTGGAAT+TGG 0.343829 5:+99735407 None:intergenic
GTCAATAGGTAGAACAAAAT+AGG 0.345919 5:+99735361 None:intergenic
GGACACTTTCCAAATTTGAT+AGG 0.346156 5:+99735272 None:intergenic
TCATCATCTATGGATAAAAC+TGG 0.368150 5:+99735401 None:intergenic
GACAAAGAGATGAATAATAA+TGG 0.383011 5:-99735170 MsG0580029626.01.T01:CDS
TGAAGCACTTGTGAAGTCTA+AGG 0.390685 5:-99735093 MsG0580029626.01.T01:CDS
CACCATGTAGGTTCATAGAA+TGG 0.422599 5:-99735016 MsG0580029626.01.T01:CDS
GTCATGCCTGAGTTCATAAC+TGG 0.429481 5:-99735206 MsG0580029626.01.T01:CDS
TCAATAGCAAAACGGTCAAT+AGG 0.432890 5:+99735347 None:intergenic
CTTAATAACCACCCTTCCAT+TGG 0.438233 5:+99735229 None:intergenic
ACCTAAGCTTGAAACTATTA+CGG 0.439428 5:-99735057 MsG0580029626.01.T01:CDS
GAACCTTTCAAGTATTCAAA+AGG 0.440181 5:+99735251 None:intergenic
CTATTACGGAATACAAGGTT+AGG 0.448385 5:-99735043 MsG0580029626.01.T01:CDS
ACTTGTGAAGTCTAAGGATC+AGG 0.453382 5:-99735087 MsG0580029626.01.T01:CDS
TCCGTAATAGTTTCAAGCTT+AGG 0.455784 5:+99735056 None:intergenic
GTTTGAATTCCCTGAAATGA+TGG 0.466091 5:-99735462 MsG0580029626.01.T01:CDS
ATATTCTAGTACAATTCCAT+TGG 0.480545 5:+99734978 None:intergenic
AAAGGCTGAGATTGAAGAAA+CGG 0.491689 5:+99735316 None:intergenic
TGAAGTCTAAGGATCAGGTT+TGG 0.504412 5:-99735082 MsG0580029626.01.T01:CDS
ACTTGAAAGGTTCCAATGGA+AGG 0.512308 5:-99735241 MsG0580029626.01.T01:CDS
TTGAAAGGAAAACATATAGC+TGG 0.514354 5:-99735494 MsG0580029626.01.T01:CDS
CATGGCAAACCATCATTTCA+GGG 0.514889 5:+99735453 None:intergenic
TTCCATTCTATGAACCTACA+TGG 0.528445 5:+99735014 None:intergenic
ATAGATGATGAACTTATGCT+TGG 0.532191 5:-99735389 MsG0580029626.01.T01:CDS
TGAAACTATTACGGAATACA+AGG 0.550666 5:-99735048 MsG0580029626.01.T01:CDS
TTTATTAGGGCAAGATCCAA+AGG 0.577719 5:+99735298 None:intergenic
AATGGAACATCTTATAGCAA+CGG 0.589229 5:-99735152 MsG0580029626.01.T01:CDS
TCAACTCAGGAGTACTACAA+AGG 0.592292 5:+99735126 None:intergenic
GGAACATCAAGATCATTGAA+AGG 0.592545 5:-99735509 MsG0580029626.01.T01:CDS
ATGAGACCAGTTATGAACTC+AGG 0.594937 5:+99735200 None:intergenic
CTATAAAGAATGAATCTGCA+TGG 0.598159 5:+99735435 None:intergenic
GAATACTTGAAAGGTTCCAA+TGG 0.604457 5:-99735245 MsG0580029626.01.T01:CDS
CTTGAAAGGTTCCAATGGAA+GGG 0.607365 5:-99735240 MsG0580029626.01.T01:CDS
AGAGGGTGTCAATAGCAAAA+CGG 0.607923 5:+99735339 None:intergenic
TGAGATTGAAGAAACGGAGA+GGG 0.609349 5:+99735322 None:intergenic
GAAAGGTTCCAATGGAAGGG+TGG 0.636346 5:-99735237 MsG0580029626.01.T01:CDS
CTGAGATTGAAGAAACGGAG+AGG 0.683456 5:+99735321 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAATCTCCTATCAAATT+TGG - Chr5:99735292-99735311 MsG0580029626.01.T01:CDS 20.0%
!! AATTTGATAGGAGATTTATT+AGG + Chr5:99735292-99735311 None:intergenic 20.0%
!! ATTTGATAGGAGATTTATTA+GGG + Chr5:99735291-99735310 None:intergenic 20.0%
! GACAAAGAGATGAATAATAA+TGG - Chr5:99735403-99735422 MsG0580029626.01.T01:CDS 25.0%
!! AATAGTGAAGCTCATATTTT+GGG - Chr5:99735039-99735058 MsG0580029626.01.T01:CDS 25.0%
!!! TCATAATGTTTTTTCAACTC+AGG + Chr5:99735463-99735482 None:intergenic 25.0%
AAGCATAAGTTCATCATCTA+TGG + Chr5:99735185-99735204 None:intergenic 30.0%
AATGGAACATCTTATAGCAA+CGG - Chr5:99735421-99735440 MsG0580029626.01.T01:CDS 30.0%
ACCTAAGCTTGAAACTATTA+CGG - Chr5:99735516-99735535 MsG0580029626.01.T01:CDS 30.0%
ATAGATGATGAACTTATGCT+TGG - Chr5:99735184-99735203 MsG0580029626.01.T01:CDS 30.0%
CATGCAGATTCATTCTTTAT+AGG - Chr5:99735139-99735158 MsG0580029626.01.T01:CDS 30.0%
CTATAAAGAATGAATCTGCA+TGG + Chr5:99735141-99735160 None:intergenic 30.0%
GTCAATAGGTAGAACAAAAT+AGG + Chr5:99735215-99735234 None:intergenic 30.0%
TCATCATCTATGGATAAAAC+TGG + Chr5:99735175-99735194 None:intergenic 30.0%
TCTATGGATAAAACTGGAAT+TGG + Chr5:99735169-99735188 None:intergenic 30.0%
TGAAACTATTACGGAATACA+AGG - Chr5:99735525-99735544 MsG0580029626.01.T01:CDS 30.0%
TTGAAAGGAAAACATATAGC+TGG - Chr5:99735079-99735098 MsG0580029626.01.T01:CDS 30.0%
! CAATAGTGAAGCTCATATTT+TGG - Chr5:99735038-99735057 MsG0580029626.01.T01:CDS 30.0%
! GAACCTTTCAAGTATTCAAA+AGG + Chr5:99735325-99735344 None:intergenic 30.0%
! TGTCCTTTTGAATACTTGAA+AGG - Chr5:99735319-99735338 MsG0580029626.01.T01:CDS 30.0%
AAAGGCTGAGATTGAAGAAA+CGG + Chr5:99735260-99735279 None:intergenic 35.0%
CTATTACGGAATACAAGGTT+AGG - Chr5:99735530-99735549 MsG0580029626.01.T01:CDS 35.0%
GAAAGAAAAAGAGAAGCCAA+TGG - Chr5:99735579-99735598 MsG0580029626.01.T01:CDS 35.0%
GAATACTTGAAAGGTTCCAA+TGG - Chr5:99735328-99735347 MsG0580029626.01.T01:CDS 35.0%
GGAACATCAAGATCATTGAA+AGG - Chr5:99735064-99735083 MsG0580029626.01.T01:CDS 35.0%
GGACACTTTCCAAATTTGAT+AGG + Chr5:99735304-99735323 None:intergenic 35.0%
GTTTGAATTCCCTGAAATGA+TGG - Chr5:99735111-99735130 MsG0580029626.01.T01:CDS 35.0%
TCAATAGCAAAACGGTCAAT+AGG + Chr5:99735229-99735248 None:intergenic 35.0%
TCCGTAATAGTTTCAAGCTT+AGG + Chr5:99735520-99735539 None:intergenic 35.0%
TTCCATTCTATGAACCTACA+TGG + Chr5:99735562-99735581 None:intergenic 35.0%
TTTATTAGGGCAAGATCCAA+AGG + Chr5:99735278-99735297 None:intergenic 35.0%
! TTCATAACTGGTCTCATCTA+TGG - Chr5:99735379-99735398 MsG0580029626.01.T01:CDS 35.0%
ACTTGAAAGGTTCCAATGGA+AGG - Chr5:99735332-99735351 MsG0580029626.01.T01:CDS 40.0%
ACTTGTGAAGTCTAAGGATC+AGG - Chr5:99735486-99735505 MsG0580029626.01.T01:CDS 40.0%
ATGAGACCAGTTATGAACTC+AGG + Chr5:99735376-99735395 None:intergenic 40.0%
CAATGGAAGGGTGGTTATTA+AGG - Chr5:99735345-99735364 MsG0580029626.01.T01:CDS 40.0%
CACCATGTAGGTTCATAGAA+TGG - Chr5:99735557-99735576 MsG0580029626.01.T01:CDS 40.0%
CATGGCAAACCATCATTTCA+GGG + Chr5:99735123-99735142 None:intergenic 40.0%
CTTAATAACCACCCTTCCAT+TGG + Chr5:99735347-99735366 None:intergenic 40.0%
CTTGAAAGGTTCCAATGGAA+GGG - Chr5:99735333-99735352 MsG0580029626.01.T01:CDS 40.0%
GTTTCTTCAATCTCAGCCTT+TGG - Chr5:99735259-99735278 MsG0580029626.01.T01:CDS 40.0%
TGAAGTCTAAGGATCAGGTT+TGG - Chr5:99735491-99735510 MsG0580029626.01.T01:CDS 40.0%
TGAGATTGAAGAAACGGAGA+GGG + Chr5:99735254-99735273 None:intergenic 40.0%
! AGGTTAGGTTTTCACCATGT+AGG - Chr5:99735545-99735564 MsG0580029626.01.T01:CDS 40.0%
! TGAAGCACTTGTGAAGTCTA+AGG - Chr5:99735480-99735499 MsG0580029626.01.T01:CDS 40.0%
!! AGAGGGTGTCAATAGCAAAA+CGG + Chr5:99735237-99735256 None:intergenic 40.0%
!! GTGAAGCTCATATTTTGGGA+AGG - Chr5:99735043-99735062 MsG0580029626.01.T01:CDS 40.0%
!! TCAACTCAGGAGTACTACAA+AGG + Chr5:99735450-99735469 None:intergenic 40.0%
CTGAGATTGAAGAAACGGAG+AGG + Chr5:99735255-99735274 None:intergenic 45.0%
GCATGGCAAACCATCATTTC+AGG + Chr5:99735124-99735143 None:intergenic 45.0%
GTCATGCCTGAGTTCATAAC+TGG - Chr5:99735367-99735386 MsG0580029626.01.T01:CDS 45.0%
GAAAGGTTCCAATGGAAGGG+TGG - Chr5:99735336-99735355 MsG0580029626.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr5 gene 99734983 99735612 99734983 ID=MsG0580029626.01;Name=MsG0580029626.01
Chr5 mRNA 99734983 99735612 99734983 ID=MsG0580029626.01.T01;Parent=MsG0580029626.01;Name=MsG0580029626.01.T01;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|209
Chr5 exon 99734983 99735612 99734983 ID=MsG0580029626.01.T01:exon:36276;Parent=MsG0580029626.01.T01
Chr5 CDS 99734983 99735612 99734983 ID=MsG0580029626.01.T01:cds;Parent=MsG0580029626.01.T01
Chr5 mRNA 99734983 99735486 99734983 ID=MsG0580029626.01.T02;Parent=MsG0580029626.01;Name=MsG0580029626.01.T02;_AED=0.10;_eAED=0.10;_QI=0|-1|0|1|-1|0|1|0|167
Chr5 exon 99734983 99735486 99734983 ID=MsG0580029626.01.T02:exon:36277;Parent=MsG0580029626.01.T02
Chr5 CDS 99734983 99735486 99734983 ID=MsG0580029626.01.T02:cds;Parent=MsG0580029626.01.T02
Gene Sequence

>MsG0580029626.01.T01

ATGGGAAATGCATCAATCACTCTATGCTTTAATCACAACACAAACTCATCATCATCAATAGTGAAGCTCATATTTTGGGAAGGAACATCAAGATCATTGAAAGGAAAACATATAGCTGGTGAAATAATGTTTGAATTCCCTGAAATGATGGTTTGCCATGCAGATTCATTCTTTATAGGACATCCAATTCCAGTTTTATCCATAGATGATGAACTTATGCTTGGTCAAACCTATTTTGTTCTACCTATTGACCGTTTTGCTATTGACACCCTCTCCGTTTCTTCAATCTCAGCCTTTGGATCTTGCCCTAATAAATCTCCTATCAAATTTGGAAAGTGTCCTTTTGAATACTTGAAAGGTTCCAATGGAAGGGTGGTTATTAAGGTCATGCCTGAGTTCATAACTGGTCTCATCTATGGTGACAAAGAGATGAATAATAATGGAACATCTTATAGCAACGGTTTCCTTTGTAGTACTCCTGAGTTGAAAAAACATTATGAAGCACTTGTGAAGTCTAAGGATCAGGTTTGGTCACCTAAGCTTGAAACTATTACGGAATACAAGGTTAGGTTTTCACCATGTAGGTTCATAGAATGGAAAGAAAAAGAGAAGCCAATGGAATTGTACTAG

>MsG0580029626.01.T02

ATGTTTGAATTCCCTGAAATGATGGTTTGCCATGCAGATTCATTCTTTATAGGACATCCAATTCCAGTTTTATCCATAGATGATGAACTTATGCTTGGTCAAACCTATTTTGTTCTACCTATTGACCGTTTTGCTATTGACACCCTCTCCGTTTCTTCAATCTCAGCCTTTGGATCTTGCCCTAATAAATCTCCTATCAAATTTGGAAAGTGTCCTTTTGAATACTTGAAAGGTTCCAATGGAAGGGTGGTTATTAAGGTCATGCCTGAGTTCATAACTGGTCTCATCTATGGTGACAAAGAGATGAATAATAATGGAACATCTTATAGCAACGGTTTCCTTTGTAGTACTCCTGAGTTGAAAAAACATTATGAAGCACTTGTGAAGTCTAAGGATCAGGTTTGGTCACCTAAGCTTGAAACTATTACGGAATACAAGGTTAGGTTTTCACCATGTAGGTTCATAGAATGGAAAGAAAAAGAGAAGCCAATGGAATTGTACTAG

Protein sequence

>MsG0580029626.01.T01

MGNASITLCFNHNTNSSSSIVKLIFWEGTSRSLKGKHIAGEIMFEFPEMMVCHADSFFIGHPIPVLSIDDELMLGQTYFVLPIDRFAIDTLSVSSISAFGSCPNKSPIKFGKCPFEYLKGSNGRVVIKVMPEFITGLIYGDKEMNNNGTSYSNGFLCSTPELKKHYEALVKSKDQVWSPKLETITEYKVRFSPCRFIEWKEKEKPMELY*

>MsG0580029626.01.T02

MFEFPEMMVCHADSFFIGHPIPVLSIDDELMLGQTYFVLPIDRFAIDTLSVSSISAFGSCPNKSPIKFGKCPFEYLKGSNGRVVIKVMPEFITGLIYGDKEMNNNGTSYSNGFLCSTPELKKHYEALVKSKDQVWSPKLETITEYKVRFSPCRFIEWKEKEKPMELY*