AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046380.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046380.01.T01 MTR_4g107170 79.863 293 21 2 1 293 1 255 1.76e-168 467
MsG0880046380.01.T01 MTR_4g045977 54.545 297 104 5 1 293 1 270 1.90e-99 297
MsG0880046380.01.T01 MTR_2g049610 46.818 220 105 4 1 214 1 214 7.31e-60 191
MsG0880046380.01.T01 MTR_2g049630 45.320 203 105 4 1 198 1 202 5.12e-53 177
MsG0880046380.01.T01 MTR_2g049530 50.000 162 78 3 3 162 5 165 3.31e-47 157
MsG0880046380.01.T01 MTR_1g115290 61.538 117 43 1 38 152 2 118 2.90e-44 148
MsG0880046380.01.T01 MTR_1g114730 43.226 155 85 1 1 152 1 155 9.76e-37 134
MsG0880046380.01.T01 MTR_6g018920 38.710 155 92 1 1 152 1 155 4.09e-36 132
MsG0880046380.01.T01 MTR_6g005440 39.744 156 91 1 1 153 1 156 7.38e-35 128
MsG0880046380.01.T01 MTR_6g005450 37.419 155 94 1 1 152 1 155 5.27e-30 116
MsG0880046380.01.T01 MTR_3g466980 31.618 136 87 4 1 135 1 131 2.78e-14 70.9
MsG0880046380.01.T01 MTR_2g016210 24.074 216 146 4 2 209 3 208 1.60e-13 69.3
MsG0880046380.01.T01 MTR_3g031240 31.776 107 71 1 1 107 1 105 2.80e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046380.01.T01 AT5G55690 31.788 151 92 2 1 147 1 144 5.99e-17 79.3
MsG0880046380.01.T01 AT5G55690 31.788 151 92 2 1 147 1 144 5.99e-17 79.3

Find 48 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTACACTTGTAAGGTCTTC+TGG 0.270047 8:-72651592 None:intergenic
AAGTTGTTAATCCTGATTAT+AGG 0.299671 8:+72652103 MsG0880046380.01.T01:CDS
GCACTTTGGATGTATTTCAT+AGG 0.341140 8:-72651430 None:intergenic
TCCTGAGATATTTGATGTTA+AGG 0.348371 8:+72651657 MsG0880046380.01.T01:CDS
AGCCCACTAAGTTGGTTTGA+TGG 0.416723 8:-72651952 None:intergenic
ACCATCTCACTTGTATAATC+AGG 0.418843 8:-72652003 None:intergenic
GATCAACAAGTTGACTAAGT+TGG 0.422061 8:-72652182 None:intergenic
GCAAGGAGTTTACACTTGTA+AGG 0.440354 8:-72651600 None:intergenic
ACAATCTCACTCCTATAATC+AGG 0.445065 8:-72652114 None:intergenic
TATAATCAGGATTAACTACT+TGG 0.446120 8:-72651990 None:intergenic
AGTTGGTTTGCTGATGAACT+TGG 0.448642 8:-72652165 None:intergenic
AGTTGGTTTGATGGTGAACT+AGG 0.459766 8:-72651943 None:intergenic
CTAAAATGTGGATGCCAAGT+TGG 0.479466 8:-72651757 None:intergenic
TAAAATGTGGATGCCAAGTT+GGG 0.491000 8:-72651756 None:intergenic
GCTTGCTTTATTGTGTATGA+TGG 0.491871 8:+72651538 MsG0880046380.01.T01:CDS
TCATCATCAAACCAACTTAG+TGG 0.501564 8:+72652060 MsG0880046380.01.T01:CDS
TCCTTAACATCAAATATCTC+AGG 0.501707 8:-72651658 None:intergenic
TCTCCACAAGCCCACTAAGT+TGG 0.501726 8:-72651960 None:intergenic
ACAAATAGAAACTAGCACTT+TGG 0.504283 8:+72651876 MsG0880046380.01.T01:CDS
CTTTGAAAATAAGATAGAAA+AGG 0.507369 8:+72651684 MsG0880046380.01.T01:CDS
TCTCCACAAGCCCACTAAGT+TGG 0.508925 8:-72652071 None:intergenic
TTGTAAGAAGTCTGGAGCAA+AGG 0.512867 8:+72651516 MsG0880046380.01.T01:CDS
AACTTGTTGATCTTGATGAC+TGG 0.515181 8:+72652193 MsG0880046380.01.T01:CDS
TCACCATCAAACCAACTTAG+TGG 0.519319 8:+72651949 MsG0880046380.01.T01:CDS
TGATTATAGGAGTGAGATTG+TGG 0.520372 8:+72652116 MsG0880046380.01.T01:CDS
ATTGTGGATTTCACTAGTCT+TGG 0.527589 8:+72652132 MsG0880046380.01.T01:CDS
AGTTGGTTTGATGATGAACT+AGG 0.530891 8:-72652054 None:intergenic
TATAATCAGGATTAACAACT+TGG 0.536057 8:-72652101 None:intergenic
GAGGATATCTCTCCGCACTT+TGG 0.536952 8:-72651722 None:intergenic
AAACCAACTTAGTGGGCTTG+TGG 0.552156 8:+72651957 MsG0880046380.01.T01:CDS
AAACCAACTTAGTGGGCTTG+TGG 0.552156 8:+72652068 MsG0880046380.01.T01:CDS
CATCATCAAACCAACTTAGT+GGG 0.554520 8:+72652061 MsG0880046380.01.T01:CDS
ACTTTCAAACAGAGAAAGCA+TGG 0.556747 8:+72651469 MsG0880046380.01.T01:CDS
AGGTCTTCTGGCCATGTCGT+AGG 0.557005 8:-72651580 None:intergenic
TCATCCAAGTTACTAAAATG+TGG 0.567439 8:-72651769 None:intergenic
ATGGTGGATTTCACAAGTCT+TGG 0.570027 8:+72652021 MsG0880046380.01.T01:CDS
TGGTTTGCTGATGAACTTGG+AGG 0.570787 8:-72652162 None:intergenic
TCAGTAAGATCTACCCAACT+TGG 0.575658 8:+72651743 MsG0880046380.01.T01:CDS
CACCATCAAACCAACTTAGT+GGG 0.576425 8:+72651950 MsG0880046380.01.T01:CDS
ATTCTGATACTCTTGAAGCA+AGG 0.580425 8:-72651617 None:intergenic
TGATTATACAAGTGAGATGG+TGG 0.591946 8:+72652005 MsG0880046380.01.T01:CDS
TGGTTTGATGGTGAACTAGG+AGG 0.598871 8:-72651940 None:intergenic
TCCTGATTATACAAGTGAGA+TGG 0.603434 8:+72652002 MsG0880046380.01.T01:CDS
TGGATAAATCAACTAGATGA+TGG 0.621105 8:+72652213 MsG0880046380.01.T01:CDS
AAACAAAGATTACCAAAGTG+CGG 0.659281 8:+72651710 MsG0880046380.01.T01:CDS
TGGTTTGATGATGAACTAGG+AGG 0.662339 8:-72652051 None:intergenic
ATAATATTGAACCTACGACA+TGG 0.717032 8:+72651569 MsG0880046380.01.T01:CDS
AAGTTGGGTAGATCTTACTG+AGG 0.750378 8:-72651741 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTGAAAATAAGATAGAAA+AGG + Chr8:72651684-72651703 MsG0880046380.01.T01:CDS 20.0%
! AAGTTGTTAATCCTGATTAT+AGG + Chr8:72652103-72652122 MsG0880046380.01.T01:CDS 25.0%
! TATAATCAGGATTAACAACT+TGG - Chr8:72652104-72652123 None:intergenic 25.0%
! TATAATCAGGATTAACTACT+TGG - Chr8:72651993-72652012 None:intergenic 25.0%
!!! ATGATTGATTTTTCTGATCT+TGG + Chr8:72651910-72651929 MsG0880046380.01.T01:CDS 25.0%
AAACAAAGATTACCAAAGTG+CGG + Chr8:72651710-72651729 MsG0880046380.01.T01:CDS 30.0%
ACAAATAGAAACTAGCACTT+TGG + Chr8:72651876-72651895 MsG0880046380.01.T01:CDS 30.0%
ATAATATTGAACCTACGACA+TGG + Chr8:72651569-72651588 MsG0880046380.01.T01:CDS 30.0%
TCATCCAAGTTACTAAAATG+TGG - Chr8:72651772-72651791 None:intergenic 30.0%
TCCTGAGATATTTGATGTTA+AGG + Chr8:72651657-72651676 MsG0880046380.01.T01:CDS 30.0%
TCCTTAACATCAAATATCTC+AGG - Chr8:72651661-72651680 None:intergenic 30.0%
TCTTTCCAAAAAAACTCATC+AGG - Chr8:72652261-72652280 None:intergenic 30.0%
TGGATAAATCAACTAGATGA+TGG + Chr8:72652213-72652232 MsG0880046380.01.T01:CDS 30.0%
! TCTGAATTTTGTAAGAAGTC+TGG + Chr8:72651508-72651527 MsG0880046380.01.T01:CDS 30.0%
ACAATCTCACTCCTATAATC+AGG - Chr8:72652117-72652136 None:intergenic 35.0%
ACCATCTCACTTGTATAATC+AGG - Chr8:72652006-72652025 None:intergenic 35.0%
ACTTTCAAACAGAGAAAGCA+TGG + Chr8:72651469-72651488 MsG0880046380.01.T01:CDS 35.0%
ATTCTGATACTCTTGAAGCA+AGG - Chr8:72651620-72651639 None:intergenic 35.0%
CATCATCAAACCAACTTAGT+GGG + Chr8:72652061-72652080 MsG0880046380.01.T01:CDS 35.0%
GCACTTTGGATGTATTTCAT+AGG - Chr8:72651433-72651452 None:intergenic 35.0%
TAAAATGTGGATGCCAAGTT+GGG - Chr8:72651759-72651778 None:intergenic 35.0%
TCATCATCAAACCAACTTAG+TGG + Chr8:72652060-72652079 MsG0880046380.01.T01:CDS 35.0%
TCCTGATTATACAAGTGAGA+TGG + Chr8:72652002-72652021 MsG0880046380.01.T01:CDS 35.0%
TGATTATACAAGTGAGATGG+TGG + Chr8:72652005-72652024 MsG0880046380.01.T01:CDS 35.0%
TGATTATAGGAGTGAGATTG+TGG + Chr8:72652116-72652135 MsG0880046380.01.T01:CDS 35.0%
TTTACACTTGTAAGGTCTTC+TGG - Chr8:72651595-72651614 None:intergenic 35.0%
! ATTGTGGATTTCACTAGTCT+TGG + Chr8:72652132-72652151 MsG0880046380.01.T01:CDS 35.0%
! GATCAACAAGTTGACTAAGT+TGG - Chr8:72652185-72652204 None:intergenic 35.0%
! GCTTGCTTTATTGTGTATGA+TGG + Chr8:72651538-72651557 MsG0880046380.01.T01:CDS 35.0%
! TTTTGCGAGATTTTGCACTT+TGG - Chr8:72651447-72651466 None:intergenic 35.0%
!! AACTTGTTGATCTTGATGAC+TGG + Chr8:72652193-72652212 MsG0880046380.01.T01:CDS 35.0%
!! AGTTGGTTTGATGATGAACT+AGG - Chr8:72652057-72652076 None:intergenic 35.0%
!! GCATCCACATTTTAGTAACT+TGG + Chr8:72651765-72651784 MsG0880046380.01.T01:CDS 35.0%
!!! GTCAACCTGATGAGTTTTTT+TGG + Chr8:72652253-72652272 MsG0880046380.01.T01:CDS 35.0%
AAGTTGGGTAGATCTTACTG+AGG - Chr8:72651744-72651763 None:intergenic 40.0%
CACCATCAAACCAACTTAGT+GGG + Chr8:72651950-72651969 MsG0880046380.01.T01:CDS 40.0%
CTAAAATGTGGATGCCAAGT+TGG - Chr8:72651760-72651779 None:intergenic 40.0%
GCAAGGAGTTTACACTTGTA+AGG - Chr8:72651603-72651622 None:intergenic 40.0%
TCACCATCAAACCAACTTAG+TGG + Chr8:72651949-72651968 MsG0880046380.01.T01:CDS 40.0%
TCAGTAAGATCTACCCAACT+TGG + Chr8:72651743-72651762 MsG0880046380.01.T01:CDS 40.0%
! TTGTAAGAAGTCTGGAGCAA+AGG + Chr8:72651516-72651535 MsG0880046380.01.T01:CDS 40.0%
!! AGATGATGGTGTTTTGTGCT+GGG + Chr8:72652227-72652246 MsG0880046380.01.T01:CDS 40.0%
!! AGTTGGTTTGATGGTGAACT+AGG - Chr8:72651946-72651965 None:intergenic 40.0%
!! AGTTGGTTTGCTGATGAACT+TGG - Chr8:72652168-72652187 None:intergenic 40.0%
!! ATGGTGGATTTCACAAGTCT+TGG + Chr8:72652021-72652040 MsG0880046380.01.T01:CDS 40.0%
!! TAGATGATGGTGTTTTGTGC+TGG + Chr8:72652226-72652245 MsG0880046380.01.T01:CDS 40.0%
!! TGGTTTGATGATGAACTAGG+AGG - Chr8:72652054-72652073 None:intergenic 40.0%
!! AAACCAACTTAGTGGGCTTG+TGG + Chr8:72651957-72651976 MsG0880046380.01.T01:CDS 45.0%
!! AGCCCACTAAGTTGGTTTGA+TGG - Chr8:72651955-72651974 None:intergenic 45.0%
!! TGGTTTGATGGTGAACTAGG+AGG - Chr8:72651943-72651962 None:intergenic 45.0%
!! TGGTTTGCTGATGAACTTGG+AGG - Chr8:72652165-72652184 None:intergenic 45.0%
GAGGATATCTCTCCGCACTT+TGG - Chr8:72651725-72651744 None:intergenic 50.0%
TCTCCACAAGCCCACTAAGT+TGG - Chr8:72651963-72651982 None:intergenic 50.0%
AGGTCTTCTGGCCATGTCGT+AGG - Chr8:72651583-72651602 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 72651412 72652293 72651412 ID=MsG0880046380.01;Name=MsG0880046380.01
Chr8 mRNA 72651412 72652293 72651412 ID=MsG0880046380.01.T01;Parent=MsG0880046380.01;Name=MsG0880046380.01.T01;_AED=0.32;_eAED=0.32;_QI=0|-1|0|1|-1|1|1|0|293
Chr8 exon 72651412 72652293 72651412 ID=MsG0880046380.01.T01:exon:3936;Parent=MsG0880046380.01.T01
Chr8 CDS 72651412 72652293 72651412 ID=MsG0880046380.01.T01:cds;Parent=MsG0880046380.01.T01
Gene Sequence

>MsG0880046380.01.T01

ATGGGTCGCGCAAAAATACCTATGAAATACATCCAAAGTGCAAAATCTCGCAAAATAACTTTCAAACAGAGAAAGCATGGATTAGAAAAGAAAATTTCTGAATTTTGTAAGAAGTCTGGAGCAAAGGCTTGCTTTATTGTGTATGATGGTGATCATAATAATATTGAACCTACGACATGGCCAGAAGACCTTACAAGTGTAAACTCCTTGCTTCAAGAGTATCAGAATCAAAAGATTGAGAAAACTCCTGAGATATTTGATGTTAAGGACTACTTTGAAAATAAGATAGAAAAGGTTGAAACAAAGATTACCAAAGTGCGGAGAGATATCCTCAGTAAGATCTACCCAACTTGGCATCCACATTTTAGTAACTTGGATGAGAATCAACTCAGAGACTTCATTGCTGCAATAAATGCTAAGATTCAAGCTTGCAATCACAAAATTAGCATGTTGAAAAATATGCAACAAATAGAAACTAGCACTTTGGATATATGTGAGATGATTGATTTTTCTGATCTTGGTGATTTTCCTCCTAGTTCACCATCAAACCAACTTAGTGGGCTTGTGGAGATGAATGACCAAGTAGTTAATCCTGATTATACAAGTGAGATGGTGGATTTCACAAGTCTTGGTGATTTGCCTCCTAGTTCATCATCAAACCAACTTAGTGGGCTTGTGGAGATGAGTGACCAAGTTGTTAATCCTGATTATAGGAGTGAGATTGTGGATTTCACTAGTCTTGGTGATTTGCCTCCAAGTTCATCAGCAAACCAACTTAGTCAACTTGTTGATCTTGATGACTGGATAAATCAACTAGATGATGGTGTTTTGTGCTGGGATTGTCAACCTGATGAGTTTTTTTGGAAAGATCTTTCTTTTTAA
Protein sequence

>MsG0880046380.01.T01

MGRAKIPMKYIQSAKSRKITFKQRKHGLEKKISEFCKKSGAKACFIVYDGDHNNIEPTTWPEDLTSVNSLLQEYQNQKIEKTPEIFDVKDYFENKIEKVETKITKVRRDILSKIYPTWHPHFSNLDENQLRDFIAAINAKIQACNHKISMLKNMQQIETSTLDICEMIDFSDLGDFPPSSPSNQLSGLVEMNDQVVNPDYTSEMVDFTSLGDLPPSSSSNQLSGLVEMSDQVVNPDYRSEIVDFTSLGDLPPSSSANQLSQLVDLDDWINQLDDGVLCWDCQPDEFFWKDLSF*