AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006805.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006805.01.T01 MTR_2g015390 88.060 268 0 1 1 236 155 422 1.61e-163 459
MsG0280006805.01.T01 MTR_4g087895 77.985 268 27 1 1 236 153 420 2.09e-146 415
MsG0280006805.01.T01 MTR_5g009070 33.641 217 112 1 21 205 166 382 7.65e-30 117
MsG0280006805.01.T01 MTR_5g009070 33.641 217 112 1 21 205 166 382 1.01e-29 117
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006805.01.T01 AT5G45930 76.119 268 32 1 1 236 151 418 6.57e-135 386
MsG0280006805.01.T01 AT4G18480 76.119 268 32 1 1 236 157 424 7.83e-135 386
MsG0280006805.01.T01 AT1G08520 33.921 227 113 3 7 201 165 386 1.45e-30 119

Find 50 sgRNAs with CRISPR-Local

Find 69 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGAGATCTTGATCAATT+TGG 0.148397 2:+6508711 None:intergenic
GTGAGAGATCGAGTTATAAA+AGG 0.250411 2:-6509249 MsG0280006805.01.T01:CDS
TAAAGCTTTGGCTGCTCTTA+AGG 0.287507 2:-6508615 MsG0280006805.01.T01:CDS
TGTTGATGAAGTTAATCTTT+TGG 0.310779 2:-6509061 MsG0280006805.01.T01:CDS
CCATTGGAGTCAATAGATTC+AGG 0.345881 2:-6508518 MsG0280006805.01.T01:CDS
TAAGTCTCTCGAAATTCCTT+TGG 0.366656 2:+6508797 None:intergenic
AACATGGTTGATTTGCCATT+AGG 0.368329 2:-6509195 MsG0280006805.01.T01:CDS
TGAGAGATCGAGTTATAAAA+GGG 0.371671 2:-6509248 MsG0280006805.01.T01:CDS
AGATTGTAGAGGAGAGAGCT+AGG 0.378530 2:-6508832 MsG0280006805.01.T01:CDS
AGACGGTGTCTCAAGCAGTT+AGG 0.384711 2:+6508551 None:intergenic
CATTAGGAGCTACAGAAGAT+AGG 0.394363 2:-6509179 MsG0280006805.01.T01:CDS
AAAGCTTTGGCTGCTCTTAA+GGG 0.402953 2:-6508614 MsG0280006805.01.T01:CDS
ATCTGTGAGCTTCTCCTGCT+CGG 0.406916 2:+6508769 None:intergenic
TTGTTGGATTCTGCTGCATC+AGG 0.426710 2:-6509018 MsG0280006805.01.T01:CDS
CTATCTTCTGTAGCTCCTAA+TGG 0.430630 2:+6509180 None:intergenic
TCACTTGGTTGATGTGTTGT+TGG 0.430871 2:-6509034 MsG0280006805.01.T01:CDS
GACGGTGTCTCAAGCAGTTA+GGG 0.450521 2:+6508552 None:intergenic
AAACAGAGCTGCTAAAGCTT+TGG 0.461836 2:-6508627 MsG0280006805.01.T01:CDS
GGTGTCAAGGCATTTGAGCC+TGG 0.474133 2:-6509117 MsG0280006805.01.T01:CDS
ATCTCAAGGTGAAAATCTCT+AGG 0.491689 2:-6508697 MsG0280006805.01.T01:CDS
TTTCTATCTCGCATCCTGCT+CGG 0.495735 2:-6508969 MsG0280006805.01.T01:intron
AGCTCTCACTGAGGGTGTCA+AGG 0.503283 2:-6509130 MsG0280006805.01.T01:CDS
CCTGAATCTATTGACTCCAA+TGG 0.518336 2:+6508518 None:intergenic
CTTGAGACACCGTCTTAGAA+AGG 0.523882 2:-6508543 MsG0280006805.01.T01:CDS
AGAGACTTACAAAGCCGAGC+AGG 0.533133 2:-6508783 MsG0280006805.01.T01:CDS
ATTAGGAGCTACAGAAGATA+GGG 0.539881 2:-6509178 MsG0280006805.01.T01:CDS
CAATATCCTCTACAGTCACT+TGG 0.541710 2:+6508585 None:intergenic
TGTGCAGAGTTGAATGTGGA+TGG 0.543317 2:-6508671 MsG0280006805.01.T01:CDS
CTATTAGCTAAAGCTAATAG+AGG 0.543722 2:-6509093 MsG0280006805.01.T01:CDS
TGGATTCTGCTGCATCAGGT+TGG 0.555239 2:-6509014 MsG0280006805.01.T01:CDS
CCAAATTGATCAAGATCTCA+AGG 0.555254 2:-6508711 MsG0280006805.01.T01:CDS
TTAGCTTTAGCTAATAGTCC+AGG 0.555649 2:+6509099 None:intergenic
TTGGAACACAGTGGAGAGAG+AGG 0.569168 2:-6508995 MsG0280006805.01.T01:CDS
CCAATTAAGATAAACCGAGC+AGG 0.575699 2:+6508955 None:intergenic
CCGTCTTAGAAAGGATCCAT+TGG 0.583615 2:-6508534 MsG0280006805.01.T01:CDS
TCTCAAGGTGAAAATCTCTA+GGG 0.593212 2:-6508696 MsG0280006805.01.T01:CDS
CCAATGGATCCTTTCTAAGA+CGG 0.606040 2:+6508534 None:intergenic
AAGAGACCAAGTGACTGTAG+AGG 0.612252 2:-6508591 MsG0280006805.01.T01:CDS
TTGAATGTGGATGGATTGAG+AGG 0.624939 2:-6508662 MsG0280006805.01.T01:CDS
CAGATCAAATTACCTCGGCA+AGG 0.628152 2:-6508751 MsG0280006805.01.T01:CDS
CGAAAGTATCTTCCTTGCCG+AGG 0.629459 2:+6508739 None:intergenic
GCTACAGAAGATAGGGTGTG+TGG 0.637186 2:-6509171 MsG0280006805.01.T01:CDS
TAGGTTTGACAAGAATCCAA+AGG 0.644338 2:-6508813 MsG0280006805.01.T01:CDS
TGGAACACAGTGGAGAGAGA+GGG 0.656944 2:-6508994 MsG0280006805.01.T01:CDS
GAGAGATCGAGTTATAAAAG+GGG 0.661074 2:-6509247 MsG0280006805.01.T01:CDS
GCTGAGAGTGAAGATTGTAG+AGG 0.661411 2:-6508843 MsG0280006805.01.T01:CDS
GCTCACAGATCAAATTACCT+CGG 0.673145 2:-6508756 MsG0280006805.01.T01:CDS
GGTGTGTGCAGAGTTGAATG+TGG 0.691143 2:-6508675 MsG0280006805.01.T01:CDS
TGTGTTGAGCAAAATCAACA+TGG 0.720795 2:-6509211 MsG0280006805.01.T01:CDS
TGCATCAGGTTGGAACACAG+TGG 0.734702 2:-6509004 MsG0280006805.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCCAAATCTATCTAATAGTT+GGG + Chr2:6508841-6508860 None:intergenic 25.0%
! TTCCAAATCTATCTAATAGT+TGG + Chr2:6508842-6508861 None:intergenic 25.0%
!!! TGTTGATGAAGTTAATCTTT+TGG - Chr2:6508678-6508697 MsG0280006805.01.T01:CDS 25.0%
CTATTAGCTAAAGCTAATAG+AGG - Chr2:6508646-6508665 MsG0280006805.01.T01:CDS 30.0%
TCGGTTTATCTTAATTGGTT+CGG - Chr2:6508789-6508808 MsG0280006805.01.T01:CDS 30.0%
TGAGAGATCGAGTTATAAAA+GGG - Chr2:6508491-6508510 MsG0280006805.01.T01:CDS 30.0%
! TAATCTTTTGGATGATCACT+TGG - Chr2:6508690-6508709 MsG0280006805.01.T01:CDS 30.0%
ATCTCAAGGTGAAAATCTCT+AGG - Chr2:6509042-6509061 MsG0280006805.01.T01:CDS 35.0%
ATTAGGAGCTACAGAAGATA+GGG - Chr2:6508561-6508580 MsG0280006805.01.T01:CDS 35.0%
ATTGAAAAAGCTCTCACTGA+GGG - Chr2:6508601-6508620 MsG0280006805.01.T01:CDS 35.0%
CCAAATTGATCAAGATCTCA+AGG - Chr2:6509028-6509047 MsG0280006805.01.T01:CDS 35.0%
CCTTGAGATCTTGATCAATT+TGG + Chr2:6509031-6509050 None:intergenic 35.0%
GAGAGATCGAGTTATAAAAG+GGG - Chr2:6508492-6508511 MsG0280006805.01.T01:CDS 35.0%
GCCCAACTATTAGATAGATT+TGG - Chr2:6508837-6508856 MsG0280006805.01.T01:CDS 35.0%
GTGAGAGATCGAGTTATAAA+AGG - Chr2:6508490-6508509 MsG0280006805.01.T01:CDS 35.0%
TAAGTCTCTCGAAATTCCTT+TGG + Chr2:6508945-6508964 None:intergenic 35.0%
TAGGTTTGACAAGAATCCAA+AGG - Chr2:6508926-6508945 MsG0280006805.01.T01:intron 35.0%
TCTCAAGGTGAAAATCTCTA+GGG - Chr2:6509043-6509062 MsG0280006805.01.T01:CDS 35.0%
TGTGTTGAGCAAAATCAACA+TGG - Chr2:6508528-6508547 MsG0280006805.01.T01:CDS 35.0%
! CGGTTTATCTTAATTGGTTC+GGG - Chr2:6508790-6508809 MsG0280006805.01.T01:CDS 35.0%
!! AACATGGTTGATTTGCCATT+AGG - Chr2:6508544-6508563 MsG0280006805.01.T01:CDS 35.0%
!! GTTGATTTTGCTCAACACAA+TGG + Chr2:6508527-6508546 None:intergenic 35.0%
!! TTAGCTTTAGCTAATAGTCC+AGG + Chr2:6508643-6508662 None:intergenic 35.0%
AAACAGAGCTGCTAAAGCTT+TGG - Chr2:6509112-6509131 MsG0280006805.01.T01:CDS 40.0%
CAATATCCTCTACAGTCACT+TGG + Chr2:6509157-6509176 None:intergenic 40.0%
CATTAGGAGCTACAGAAGAT+AGG - Chr2:6508560-6508579 MsG0280006805.01.T01:CDS 40.0%
CATTGAAAAAGCTCTCACTG+AGG - Chr2:6508600-6508619 MsG0280006805.01.T01:CDS 40.0%
CCAATTAAGATAAACCGAGC+AGG + Chr2:6508787-6508806 None:intergenic 40.0%
CCATTGGAGTCAATAGATTC+AGG - Chr2:6509221-6509240 MsG0280006805.01.T01:CDS 40.0%
CCTGCTCGGTTTATCTTAAT+TGG - Chr2:6508784-6508803 MsG0280006805.01.T01:CDS 40.0%
CTATCTTCTGTAGCTCCTAA+TGG + Chr2:6508562-6508581 None:intergenic 40.0%
GCTCACAGATCAAATTACCT+CGG - Chr2:6508983-6509002 MsG0280006805.01.T01:CDS 40.0%
! AAAGCTTTGGCTGCTCTTAA+GGG - Chr2:6509125-6509144 MsG0280006805.01.T01:CDS 40.0%
! CCAATGGATCCTTTCTAAGA+CGG + Chr2:6509208-6509227 None:intergenic 40.0%
! TAAAGCTTTGGCTGCTCTTA+AGG - Chr2:6509124-6509143 MsG0280006805.01.T01:CDS 40.0%
! TCACTTGGTTGATGTGTTGT+TGG - Chr2:6508705-6508724 MsG0280006805.01.T01:CDS 40.0%
! TTTGGAATGCATGCTCAAGT+CGG - Chr2:6508855-6508874 MsG0280006805.01.T01:CDS 40.0%
!! CCTGAATCTATTGACTCCAA+TGG + Chr2:6509224-6509243 None:intergenic 40.0%
!! TTGAATGTGGATGGATTGAG+AGG - Chr2:6509077-6509096 MsG0280006805.01.T01:CDS 40.0%
AAGAGACCAAGTGACTGTAG+AGG - Chr2:6509148-6509167 MsG0280006805.01.T01:CDS 45.0%
AGATTGTAGAGGAGAGAGCT+AGG - Chr2:6508907-6508926 MsG0280006805.01.T01:intron 45.0%
CAGATCAAATTACCTCGGCA+AGG - Chr2:6508988-6509007 MsG0280006805.01.T01:CDS 45.0%
CCGTCTTAGAAAGGATCCAT+TGG - Chr2:6509205-6509224 MsG0280006805.01.T01:CDS 45.0%
CTTGAGACACCGTCTTAGAA+AGG - Chr2:6509196-6509215 MsG0280006805.01.T01:CDS 45.0%
GCTGAGAGTGAAGATTGTAG+AGG - Chr2:6508896-6508915 MsG0280006805.01.T01:intron 45.0%
GTTCGGGAAATCCTGAAGAA+GGG - Chr2:6508806-6508825 MsG0280006805.01.T01:CDS 45.0%
TGTGCAGAGTTGAATGTGGA+TGG - Chr2:6509068-6509087 MsG0280006805.01.T01:CDS 45.0%
TTCGGGAAATCCTGAAGAAG+GGG - Chr2:6508807-6508826 MsG0280006805.01.T01:CDS 45.0%
TTGGAATGCATGCTCAAGTC+GGG - Chr2:6508856-6508875 MsG0280006805.01.T01:intron 45.0%
TTGTTGGATTCTGCTGCATC+AGG - Chr2:6508721-6508740 MsG0280006805.01.T01:CDS 45.0%
TTTCTATCTCGCATCCTGCT+CGG - Chr2:6508770-6508789 MsG0280006805.01.T01:CDS 45.0%
AGACGGTGTCTCAAGCAGTT+AGG + Chr2:6509191-6509210 None:intergenic 50.0%
AGAGACTTACAAAGCCGAGC+AGG - Chr2:6508956-6508975 MsG0280006805.01.T01:intron 50.0%
ATCTGTGAGCTTCTCCTGCT+CGG + Chr2:6508973-6508992 None:intergenic 50.0%
ATGCTCAAGTCGGGACTGTT+AGG - Chr2:6508865-6508884 MsG0280006805.01.T01:intron 50.0%
GACGGTGTCTCAAGCAGTTA+GGG + Chr2:6509190-6509209 None:intergenic 50.0%
GCTACAGAAGATAGGGTGTG+TGG - Chr2:6508568-6508587 MsG0280006805.01.T01:CDS 50.0%
GGTGTGTGCAGAGTTGAATG+TGG - Chr2:6509064-6509083 MsG0280006805.01.T01:CDS 50.0%
GGTTCGGGAAATCCTGAAGA+AGG - Chr2:6508805-6508824 MsG0280006805.01.T01:CDS 50.0%
TGCTCAAGTCGGGACTGTTA+GGG - Chr2:6508866-6508885 MsG0280006805.01.T01:intron 50.0%
TGGAACACAGTGGAGAGAGA+GGG - Chr2:6508745-6508764 MsG0280006805.01.T01:CDS 50.0%
TGGATTCTGCTGCATCAGGT+TGG - Chr2:6508725-6508744 MsG0280006805.01.T01:CDS 50.0%
TTGGAACACAGTGGAGAGAG+AGG - Chr2:6508744-6508763 MsG0280006805.01.T01:CDS 50.0%
!! CGAAAGTATCTTCCTTGCCG+AGG + Chr2:6509003-6509022 None:intergenic 50.0%
!! TGCATCAGGTTGGAACACAG+TGG - Chr2:6508735-6508754 MsG0280006805.01.T01:CDS 50.0%
ATCCTGAAGAAGGGGAGCTC+AGG - Chr2:6508815-6508834 MsG0280006805.01.T01:CDS 55.0%
! GGTGTCAAGGCATTTGAGCC+TGG - Chr2:6508622-6508641 MsG0280006805.01.T01:CDS 55.0%
!! AGCTCTCACTGAGGGTGTCA+AGG - Chr2:6508609-6508628 MsG0280006805.01.T01:CDS 55.0%
GGCCTGAGCTCCCCTTCTTC+AGG + Chr2:6508820-6508839 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr2 gene 6508478 6509283 6508478 ID=MsG0280006805.01;Name=MsG0280006805.01
Chr2 mRNA 6508478 6509283 6508478 ID=MsG0280006805.01.T01;Parent=MsG0280006805.01;Name=MsG0280006805.01.T01;_AED=0.49;_eAED=0.49;_QI=0|0|0|1|1|0.5|2|0|236
Chr2 exon 6508970 6509283 6508970 ID=MsG0280006805.01.T01:exon:2743;Parent=MsG0280006805.01.T01
Chr2 exon 6508478 6508874 6508478 ID=MsG0280006805.01.T01:exon:2742;Parent=MsG0280006805.01.T01
Chr2 CDS 6508970 6509283 6508970 ID=MsG0280006805.01.T01:cds;Parent=MsG0280006805.01.T01
Chr2 CDS 6508478 6508874 6508478 ID=MsG0280006805.01.T01:cds;Parent=MsG0280006805.01.T01
Gene Sequence

>MsG0280006805.01.T01

ATGGGAGTCGAAGTGAGAGATCGAGTTATAAAAGGGGAGCAACTTTCCATTGTGTTGAGCAAAATCAACATGGTTGATTTGCCATTAGGAGCTACAGAAGATAGGGTGTGTGGAACAATTGACATTGAAAAAGCTCTCACTGAGGGTGTCAAGGCATTTGAGCCTGGACTATTAGCTAAAGCTAATAGAGGAATCTTATATGTTGATGAAGTTAATCTTTTGGATGATCACTTGGTTGATGTGTTGTTGGATTCTGCTGCATCAGGTTGGAACACAGTGGAGAGAGAGGGTATTTCTATCTCGCATCCTGCTCGGGATGCTGAGCTGAGAGTGAAGATTGTAGAGGAGAGAGCTAGGTTTGACAAGAATCCAAAGGAATTTCGAGAGACTTACAAAGCCGAGCAGGAGAAGCTCACAGATCAAATTACCTCGGCAAGGAAGATACTTTCGTCTGTCCAAATTGATCAAGATCTCAAGGTGAAAATCTCTAGGGTGTGTGCAGAGTTGAATGTGGATGGATTGAGAGGAGACATAGTATCAAACAGAGCTGCTAAAGCTTTGGCTGCTCTTAAGGGAAGAGACCAAGTGACTGTAGAGGATATTGCTACTGTCATCCCTAACTGCTTGAGACACCGTCTTAGAAAGGATCCATTGGAGTCAATAGATTCAGGTTTACTTGTTACAGAGAAATTTTATGAAGTATTCAGCTGA

Protein sequence

>MsG0280006805.01.T01

MGVEVRDRVIKGEQLSIVLSKINMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLLDDHLVDVLLDSAASGWNTVEREGISISHPARDAELRVKIVEERARFDKNPKEFRETYKAEQEKLTDQITSARKILSSVQIDQDLKVKISRVCAELNVDGLRGDIVSNRAAKALAALKGRDQVTVEDIATVIPNCLRHRLRKDPLESIDSGLLVTEKFYEVFS*