AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001027.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001027.01.T01 MTR_1g028970 88.525 61 7 0 24 84 163 223 2.58e-32 112
MsG0180001027.01.T01 MTR_1g028960 90.323 62 5 1 24 84 162 223 1.02e-31 110
MsG0180001027.01.T01 MTR_1g028970 90.000 50 5 0 24 73 163 212 1.11e-25 94.7
MsG0180001027.01.T01 MTR_3g090530 58.108 74 28 1 11 84 87 157 2.59e-24 89.7
MsG0180001027.01.T01 MTR_3g090530 68.333 60 19 0 25 84 163 222 1.46e-23 89.4
MsG0180001027.01.T01 MTR_3g090530 57.143 63 24 1 11 73 87 146 3.24e-18 73.9
MsG0180001027.01.T01 MTR_3g090530 69.388 49 15 0 25 73 163 211 1.94e-17 73.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 10 sgRNAs with CRISPR-Local

Find 115 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAATAATTACAGATAAAAT+AGG 0.259826 1:+14814460 MsG0180001027.01.T01:CDS
TAAGCAGAAAATGCAAATAT+TGG 0.279728 1:+14816586 MsG0180001027.01.T01:CDS
GGTGGCTCTAAGATTAGTTC+CGG 0.420560 1:+14816508 MsG0180001027.01.T01:intron
TGTCTCAAAACAGCCATTGT+TGG 0.436087 1:-14814484 None:intergenic
TAATAATTACAGATAAAATA+GGG 0.451699 1:+14814461 MsG0180001027.01.T01:CDS
TTTGCAGAGATTATATAACT+TGG 0.500380 1:+14816756 MsG0180001027.01.T01:intron
CAATGGATATCCTCAAGAAA+AGG 0.520025 1:-14816623 None:intergenic
CAAAGCTTACTAGGATACAA+TGG 0.561451 1:-14816640 None:intergenic
AGATGTGTATCAAAATATCA+AGG 0.576462 1:+14814507 MsG0180001027.01.T01:CDS
AGATAAAATAGGGCCAACAA+TGG 0.630676 1:+14814471 MsG0180001027.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATAATTACAGATAAAATA+GGG + Chr1:14814461-14814480 MsG0180001027.01.T01:CDS 10.0%
!! TAGATTATTAAAGATATTAA+CGG - Chr1:14815211-14815230 None:intergenic 10.0%
!! TATTGAAGAAATTTATAAAT+AGG + Chr1:14816067-14816086 MsG0180001027.01.T01:intron 10.0%
!!! TTCTTTTTTCATTATAATAT+GGG + Chr1:14815702-14815721 MsG0180001027.01.T01:intron 10.0%
!! AACAAAATTATAATAAGAGA+AGG - Chr1:14814604-14814623 None:intergenic 15.0%
!! AAGAAGAAATTTAACATAAA+GGG + Chr1:14815646-14815665 MsG0180001027.01.T01:intron 15.0%
!! ACAAAATTATAATAAGAGAA+GGG - Chr1:14814603-14814622 None:intergenic 15.0%
!! AGGTATAAAAAAATTTGTAT+AGG - Chr1:14815468-14815487 None:intergenic 15.0%
!! ATAAATAACAATGCTTAAAA+AGG - Chr1:14814857-14814876 None:intergenic 15.0%
!! CTAATAATTACAGATAAAAT+AGG + Chr1:14814460-14814479 MsG0180001027.01.T01:CDS 15.0%
!! TAAGAAGAAATTTAACATAA+AGG + Chr1:14815645-14815664 MsG0180001027.01.T01:intron 15.0%
!! TATACATTAGTTAAAAAGTA+TGG + Chr1:14815318-14815337 MsG0180001027.01.T01:intron 15.0%
!! TTTAGTTGAAATATTGAAAT+TGG + Chr1:14815904-14815923 MsG0180001027.01.T01:intron 15.0%
!!! AACCAATAAAATTTGTTATT+TGG + Chr1:14814917-14814936 MsG0180001027.01.T01:intron 15.0%
!!! AGGTGTTATTATATTATTAT+AGG - Chr1:14816002-14816021 None:intergenic 15.0%
!!! ATTAGAGAAGTATTATTATT+AGG - Chr1:14816022-14816041 None:intergenic 15.0%
!!! CTTCTTTTTTCATTATAATA+TGG + Chr1:14815701-14815720 MsG0180001027.01.T01:intron 15.0%
!!! TCTTTTTTCATTATAATATG+GGG + Chr1:14815703-14815722 MsG0180001027.01.T01:intron 15.0%
!! AAGCTACTCAAATTATTAAA+AGG - Chr1:14815050-14815069 None:intergenic 20.0%
!! AGGTATCATCTTATAATTTA+TGG + Chr1:14816087-14816106 MsG0180001027.01.T01:intron 20.0%
!! ATGAAATTACATTAAAACCA+TGG + Chr1:14816212-14816231 MsG0180001027.01.T01:intron 20.0%
!! ATGAATGATGTTAGTTATTA+GGG + Chr1:14814651-14814670 MsG0180001027.01.T01:intron 20.0%
!! CAAAAAAATATACACACATA+AGG - Chr1:14816710-14816729 None:intergenic 20.0%
!! CTATTAATCTAATAACTACT+TGG - Chr1:14814759-14814778 None:intergenic 20.0%
!! TGAAACGCAATATATATTTA+GGG - Chr1:14816488-14816507 None:intergenic 20.0%
!! TTCTCCAATAGTTAAAATTA+TGG + Chr1:14814808-14814827 MsG0180001027.01.T01:intron 20.0%
!! TTTAATACACAACTAATCAT+TGG - Chr1:14815824-14815843 None:intergenic 20.0%
!!! ACTAAATTTAGATTTGTTGT+TGG - Chr1:14815890-14815909 None:intergenic 20.0%
!!! ATACGAAATAGAATGTTTTT+AGG + Chr1:14815085-14815104 MsG0180001027.01.T01:intron 20.0%
!!! ATGTGTGTATATTTTTTTGA+AGG + Chr1:14816711-14816730 MsG0180001027.01.T01:intron 20.0%
!!! TACGAAATAGAATGTTTTTA+GGG + Chr1:14815086-14815105 MsG0180001027.01.T01:intron 20.0%
!!! TCAACCATAATTTTAACTAT+TGG - Chr1:14814815-14814834 None:intergenic 20.0%
! AAAACAAATACACACACATA+AGG - Chr1:14816739-14816758 None:intergenic 25.0%
! AAAAGATCCTGAAAAGAAAA+TGG + Chr1:14816168-14816187 MsG0180001027.01.T01:intron 25.0%
! AACATAAAGGGTTAACTTAA+GGG + Chr1:14815658-14815677 MsG0180001027.01.T01:intron 25.0%
! AATCTACAAACTTAGATCAA+TGG - Chr1:14815570-14815589 None:intergenic 25.0%
! AGATGTGTATCAAAATATCA+AGG + Chr1:14814507-14814526 MsG0180001027.01.T01:CDS 25.0%
! AGGTAAAGTTTGCAATATTT+AGG - Chr1:14816690-14816709 None:intergenic 25.0%
! ATAATAAGAGAAGGGTTAAA+TGG - Chr1:14814595-14814614 None:intergenic 25.0%
! ATAGACATCATAACTACAAT+TGG + Chr1:14814775-14814794 MsG0180001027.01.T01:intron 25.0%
! ATAGTGCATATTGCAAAAAT+TGG + Chr1:14815359-14815378 MsG0180001027.01.T01:intron 25.0%
! ATTGATAAACAAAGCTTACT+AGG - Chr1:14816652-14816671 None:intergenic 25.0%
! CTAAATATATATTGCGTTTC+AGG + Chr1:14816487-14816506 MsG0180001027.01.T01:intron 25.0%
! CTGAAACGCAATATATATTT+AGG - Chr1:14816489-14816508 None:intergenic 25.0%
! GATGAATGATGTTAGTTATT+AGG + Chr1:14814650-14814669 MsG0180001027.01.T01:intron 25.0%
! GGTAAAGTTTGCAATATTTA+GGG - Chr1:14816689-14816708 None:intergenic 25.0%
! TAACATAAAGGGTTAACTTA+AGG + Chr1:14815657-14815676 MsG0180001027.01.T01:intron 25.0%
! TAACTTAAGGGTTATAAGTT+AGG + Chr1:14815670-14815689 MsG0180001027.01.T01:intron 25.0%
! TAAGCAGAAAATGCAAATAT+TGG + Chr1:14816586-14816605 MsG0180001027.01.T01:CDS 25.0%
! TAATAAGAGAAGGGTTAAAT+GGG - Chr1:14814594-14814613 None:intergenic 25.0%
! TAGACATCATAACTACAATT+GGG + Chr1:14814776-14814795 MsG0180001027.01.T01:intron 25.0%
! TAGTATTTCATGCTATTAGA+TGG + Chr1:14816305-14816324 MsG0180001027.01.T01:intron 25.0%
! TTTGCAAATTTGCATATGAT+AGG + Chr1:14816457-14816476 MsG0180001027.01.T01:intron 25.0%
! TTTGCAGAGATTATATAACT+TGG + Chr1:14816756-14816775 MsG0180001027.01.T01:intron 25.0%
!! CGCCAAATAACAAATTTTAT+TGG - Chr1:14814922-14814941 None:intergenic 25.0%
!! TCAATGAATGTTTTACTTTC+CGG - Chr1:14816530-14816549 None:intergenic 25.0%
!!! AGTAAGCTTTGTTTATCAAT+TGG + Chr1:14816652-14816671 MsG0180001027.01.T01:intron 25.0%
!!! ATTGGACATGTATTTTGAAA+CGG + Chr1:14815377-14815396 MsG0180001027.01.T01:intron 25.0%
AAGTGTGCGAGAAAAAAAAT+TGG - Chr1:14815535-14815554 None:intergenic 30.0%
AATATATATTGCGTTTCAGG+TGG + Chr1:14816490-14816509 MsG0180001027.01.T01:intron 30.0%
AATGGTGTGTAATTAAGGAA+AGG + Chr1:14814957-14814976 MsG0180001027.01.T01:intron 30.0%
ATTACATTAAAACCATGGCA+TGG + Chr1:14816217-14816236 MsG0180001027.01.T01:intron 30.0%
CAAAGATAAGACACATGTTA+AGG - Chr1:14815488-14815507 None:intergenic 30.0%
CTTAACATGTGTCTTATCTT+TGG + Chr1:14815486-14815505 MsG0180001027.01.T01:intron 30.0%
! ACTTTCTCCATTTTCTTTTC+AGG - Chr1:14816178-14816197 None:intergenic 30.0%
! TGTTATTTGGCGTAAATCAA+GGG + Chr1:14814930-14814949 MsG0180001027.01.T01:intron 30.0%
!! CTTGGACATGTATTTTGAAA+CGG - Chr1:14815153-14815172 None:intergenic 30.0%
!! TTGTTATTTGGCGTAAATCA+AGG + Chr1:14814929-14814948 MsG0180001027.01.T01:intron 30.0%
AGATAAAATAGGGCCAACAA+TGG + Chr1:14814471-14814490 MsG0180001027.01.T01:CDS 35.0%
AGTTATTAGGGTTTGAACCT+TGG + Chr1:14814663-14814682 MsG0180001027.01.T01:intron 35.0%
CAAAGCTTACTAGGATACAA+TGG - Chr1:14816643-14816662 None:intergenic 35.0%
CAATGGATATCCTCAAGAAA+AGG - Chr1:14816626-14816645 None:intergenic 35.0%
CATATGTGAAATGGATGACT+TGG - Chr1:14815171-14815190 None:intergenic 35.0%
CTTAAGGGTTATAAGTTAGG+TGG + Chr1:14815673-14815692 MsG0180001027.01.T01:intron 35.0%
GTTTGAACCTTGGATTTCTT+AGG + Chr1:14814673-14814692 MsG0180001027.01.T01:intron 35.0%
TAACGGTCAAAATTGTGCAT+GGG - Chr1:14815194-14815213 None:intergenic 35.0%
TAGTATTTGTAACAACGACG+AGG - Chr1:14816146-14816165 None:intergenic 35.0%
TTAACGGTCAAAATTGTGCA+TGG - Chr1:14815195-14815214 None:intergenic 35.0%
TTCCAATCTCTGCAATCAAA+CGG - Chr1:14815849-14815868 None:intergenic 35.0%
TTGAAATTGGAAGCAACAGA+AGG + Chr1:14815917-14815936 MsG0180001027.01.T01:intron 35.0%
! GAGGTAATGGTGTGTAATTA+AGG + Chr1:14814952-14814971 MsG0180001027.01.T01:intron 35.0%
! TTTTCTGCTTAAGCATGTCA+CGG - Chr1:14816577-14816596 None:intergenic 35.0%
!!! GACATGTATTTTGAAACGGA+GGG - Chr1:14815400-14815381 None:intergenic 35.0%
!!! TATGGGGATTGTTTTTGTGT+CGG + Chr1:14815719-14815738 MsG0180001027.01.T01:intron 35.0%
AACAGAAGGCAATGCAAAGA+AGG + Chr1:14815931-14815950 MsG0180001027.01.T01:intron 40.0%
ACAGAAGGCAATGCAAAGAA+GGG + Chr1:14815932-14815951 MsG0180001027.01.T01:intron 40.0%
AGTAAGTTGTGGGACACAAA+AGG - Chr1:14814705-14814724 None:intergenic 40.0%
AGTGTCAAGCAGTAAGTTGT+GGG - Chr1:14814715-14814734 None:intergenic 40.0%
CATTAAAACCATGGCATGGA+TGG + Chr1:14816221-14816240 MsG0180001027.01.T01:intron 40.0%
GGTACTACCTAAGAAATCCA+AGG - Chr1:14814683-14814702 None:intergenic 40.0%
GTAAGTTGTGGGACACAAAA+GGG - Chr1:14814704-14814723 None:intergenic 40.0%
TAAGAGAAGGGTTAAATGGG+TGG - Chr1:14814591-14814610 None:intergenic 40.0%
TAGTGTCAAGCAGTAAGTTG+TGG - Chr1:14814716-14814735 None:intergenic 40.0%
TATTTGGCGTAAATCAAGGG+AGG + Chr1:14814933-14814952 MsG0180001027.01.T01:intron 40.0%
TGTCTCAAAACAGCCATTGT+TGG - Chr1:14814487-14814506 None:intergenic 40.0%
TTCCGTTTGATTGCAGAGAT+TGG + Chr1:14815844-14815863 MsG0180001027.01.T01:intron 40.0%
! TCTACTTGTGCCTTTTCTTG+AGG + Chr1:14816613-14816632 MsG0180001027.01.T01:CDS 40.0%
!!! GGACATGTATTTTGAAACGG+AGG + Chr1:14815380-14815399 MsG0180001027.01.T01:intron 40.0%
!!! GGACATGTATTTTGAAACGG+AGG - Chr1:14815399-14815380 None:intergenic 40.0%
CAGAAGGCAATGCAAAGAAG+GGG + Chr1:14815933-14815952 MsG0180001027.01.T01:intron 45.0%
GATGAAATCCATCCATGCCA+TGG - Chr1:14816232-14816251 None:intergenic 45.0%
GCGTAAATCAAGGGAGGTAA+TGG + Chr1:14814939-14814958 MsG0180001027.01.T01:intron 45.0%
GTGCATGGGCATATGTGAAA+TGG - Chr1:14815180-14815199 None:intergenic 45.0%
TCACCTTGTGAGCCAAACAA+AGG - Chr1:14815975-14815994 None:intergenic 45.0%
!! GGTGGCTCTAAGATTAGTTC+CGG + Chr1:14816508-14816527 MsG0180001027.01.T01:intron 45.0%
!! TGGTGCTGCATATATACTGC+AGG + Chr1:14816107-14816126 MsG0180001027.01.T01:intron 45.0%
!!! GGATTGTTTTTGTGTCGGAC+GGG + Chr1:14815724-14815743 MsG0180001027.01.T01:intron 45.0%
!!! GGGATTGTTTTTGTGTCGGA+CGG + Chr1:14815723-14815742 MsG0180001027.01.T01:intron 45.0%
!!! TCTATTTTTATAAAATATTT+AGG + Chr1:14816383-14816402 MsG0180001027.01.T01:intron 5.0%
ACAACGACGAGGTGAAATCC+AGG - Chr1:14816135-14816154 None:intergenic 50.0%
CAACGACGAGGTGAAATCCA+GGG - Chr1:14816134-14816153 None:intergenic 50.0%
GCATATATACTGCAGGACCC+TGG + Chr1:14816114-14816133 MsG0180001027.01.T01:intron 50.0%
GCTGCAGTAAGGCCTTTGTT+TGG + Chr1:14815960-14815979 MsG0180001027.01.T01:intron 50.0%
! AGGCCTTTGTTTGGCTCACA+AGG + Chr1:14815969-14815988 MsG0180001027.01.T01:intron 50.0%
GAAGGGGTCTAGCTGCAGTA+AGG + Chr1:14815949-14815968 MsG0180001027.01.T01:intron 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 14814454 14816798 14814454 ID=MsG0180001027.01;Name=MsG0180001027.01
Chr1 mRNA 14814454 14816798 14814454 ID=MsG0180001027.01.T01;Parent=MsG0180001027.01;Name=MsG0180001027.01.T01;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|0|0|3|0|84
Chr1 exon 14814454 14814528 14814454 ID=MsG0180001027.01.T01:exon:30900;Parent=MsG0180001027.01.T01
Chr1 exon 14816509 14816652 14816509 ID=MsG0180001027.01.T01:exon:30899;Parent=MsG0180001027.01.T01
Chr1 exon 14816763 14816798 14816763 ID=MsG0180001027.01.T01:exon:30898;Parent=MsG0180001027.01.T01
Chr1 CDS 14814454 14814528 14814454 ID=MsG0180001027.01.T01:cds;Parent=MsG0180001027.01.T01
Chr1 CDS 14816509 14816652 14816509 ID=MsG0180001027.01.T01:cds;Parent=MsG0180001027.01.T01
Chr1 CDS 14816763 14816798 14816763 ID=MsG0180001027.01.T01:cds;Parent=MsG0180001027.01.T01
Gene Sequence

>MsG0180001027.01.T01

ATGTGTCTAATAATTACAGATAAAATAGGGCCAACAATGGCTGTTTTGAGACAAGATGTGTATCAAAATATCAAGGTGGCTCTAAGATTAGTTCCGGAAAGTAAAACATTCATTGATCTTCTTAAGACTGAAGATGAAGACCGTGACATGCTTAAGCAGAAAATGCAAATATTGGTTTCTCTACTTGTGCCTTTTCTTGAGGATATCCATTGTATCCTAAGATTATATAACTTGGACAAGCTGAAATCAACATGA
Protein sequence

>MsG0180001027.01.T01

MCLIITDKIGPTMAVLRQDVYQNIKVALRLVPESKTFIDLLKTEDEDRDMLKQKMQILVSLLVPFLEDIHCILRLYNLDKLKST*