AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041557.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041557.01.T01 MTR_7g113420 74.528 106 9 3 6 93 389 494 3.06e-45 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 34 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCAAAGTTGTTACTCATTC+TGG 0.173352 7:-92387396 MsG0780041557.01.T01:CDS
TCGGGTTGCTGGTGCTTCCT+TGG 0.241705 7:-92387418 MsG0780041557.01.T01:CDS
CATCCATGAAGCTGGTTATA+TGG 0.272529 7:-92385906 MsG0780041557.01.T01:CDS
TTCTGTATGTGGTCTGGGAT+AGG 0.340544 7:+92386001 None:intergenic
TCTGTATGTGGTCTGGGATA+GGG 0.353068 7:+92386002 None:intergenic
CATCCATATAACCAGCTTCA+TGG 0.356193 7:+92385903 None:intergenic
AACATCTTCTGTATGTGGTC+TGG 0.357775 7:+92385995 None:intergenic
GATCACTTTCACCAATCATT+TGG 0.367733 7:+92385860 None:intergenic
CGGGTTGCTGGTGCTTCCTT+GGG 0.379048 7:-92387417 MsG0780041557.01.T01:CDS
TACTCATTCTGGAGGCCGTT+GGG 0.379063 7:-92387385 MsG0780041557.01.T01:CDS
TCGCGAAGGAATCGGGTTGC+TGG 0.400918 7:-92387429 MsG0780041557.01.T01:CDS
CTGTATGTGGTCTGGGATAG+GGG 0.404408 7:+92386003 None:intergenic
GAATGGAGTCGCGAAGGAAT+CGG 0.405427 7:-92387437 MsG0780041557.01.T01:CDS
TTCTGGAGGCCGTTGGGCTC+AGG 0.412514 7:-92387379 MsG0780041557.01.T01:intron
AATGGAGTCGCGAAGGAATC+GGG 0.421308 7:-92387436 MsG0780041557.01.T01:CDS
ACATCTTCTGTATGTGGTCT+GGG 0.430738 7:+92385996 None:intergenic
GCTGGTTATATGGATGCATA+TGG 0.467345 7:-92385896 MsG0780041557.01.T01:CDS
TTACTCATTCTGGAGGCCGT+TGG 0.470077 7:-92387386 MsG0780041557.01.T01:CDS
CATCAAACATCTTCTGTATG+TGG 0.517131 7:+92385990 None:intergenic
TGTATGTGGTCTGGGATAGG+GGG 0.520587 7:+92386004 None:intergenic
GATGCATATGGGCTTGGTCA+TGG 0.526973 7:-92385884 MsG0780041557.01.T01:CDS
TTGGTCATGGACCAAATGAT+TGG 0.531729 7:-92385871 MsG0780041557.01.T01:CDS
TATATGGATGCATATGGGCT+TGG 0.541175 7:-92385890 MsG0780041557.01.T01:CDS
GATGAAGCTAAAAGTGATGA+TGG 0.551240 7:-92385971 MsG0780041557.01.T01:CDS
GAAGCTCACATCCATGAAGC+TGG 0.565704 7:-92385914 MsG0780041557.01.T01:CDS
AGTGATGATGGTCATGATCA+TGG 0.595237 7:-92385959 MsG0780041557.01.T01:CDS
CTGGTTATATGGATGCATAT+GGG 0.596389 7:-92385895 MsG0780041557.01.T01:CDS
GTCGTAGAATGGAGTCGCGA+AGG 0.612778 7:-92387443 None:intergenic
ATGAGTAACAACTTTGCCCA+AGG 0.616910 7:+92387401 None:intergenic
GGTCACGGACATGATCGCCT+TGG 0.628231 7:-92385938 MsG0780041557.01.T01:CDS
AAAGTTGTTACTCATTCTGG+AGG 0.633464 7:-92387393 MsG0780041557.01.T01:CDS
TTGTGCACACCTGAGCCCAA+CGG 0.637219 7:+92387370 None:intergenic
CATGGATGTGAGCTTCACCA+AGG 0.699492 7:+92385921 None:intergenic
GATGGTCATGATCATGGTCA+CGG 0.699879 7:-92385953 MsG0780041557.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACAAATGTGTTTCTTTAA+TGG + Chr7:92386353-92386372 None:intergenic 20.0%
!! AACAAATGTGTTTCTTTAAT+GGG + Chr7:92386352-92386371 None:intergenic 20.0%
!! AATATTAGATACAGAATGAA+AGG - Chr7:92386847-92386866 MsG0780041557.01.T01:intron 20.0%
!! ATATACACAAATAAACGATT+CGG + Chr7:92387134-92387153 None:intergenic 20.0%
!! ATGTTCAAATATGATATTTG+AGG - Chr7:92386967-92386986 MsG0780041557.01.T01:intron 20.0%
!! TTATCAATGAATCAACTAAT+GGG + Chr7:92386902-92386921 None:intergenic 20.0%
!! TTGATTCATTGATAAATTCA+AGG - Chr7:92386907-92386926 MsG0780041557.01.T01:intron 20.0%
!! TTTATCAATGAATCAACTAA+TGG + Chr7:92386903-92386922 None:intergenic 20.0%
!!! AAAGTTTTAGCAATAGAAAA+GGG + Chr7:92386479-92386498 None:intergenic 20.0%
!!! ATTAGTTTTCTCTATACTTT+GGG - Chr7:92386603-92386622 MsG0780041557.01.T01:intron 20.0%
!!! ATTTTTTTTCATATCCCATT+CGG - Chr7:92387085-92387104 MsG0780041557.01.T01:intron 20.0%
! AAGTCAACATTGATATTTGA+TGG + Chr7:92386313-92386332 None:intergenic 25.0%
! ATGGGATATGAAAAAAAATC+AGG + Chr7:92387084-92387103 None:intergenic 25.0%
! GTTGTGTAGAATTGTTTAAT+TGG - Chr7:92386009-92386028 MsG0780041557.01.T01:CDS 25.0%
! TAATTGGATGAAATGAATAC+TGG - Chr7:92386025-92386044 MsG0780041557.01.T01:CDS 25.0%
! TAGGAAAGTCTTTATAGAAT+TGG - Chr7:92386702-92386721 MsG0780041557.01.T01:intron 25.0%
! TGTTTCATGGAATTTGTAAA+TGG - Chr7:92386627-92386646 MsG0780041557.01.T01:intron 25.0%
! TTCGAAAATCTCATAATTCA+TGG - Chr7:92386207-92386226 MsG0780041557.01.T01:intron 25.0%
!! TTGATTTTTACTTTCAACCT+TGG - Chr7:92386743-92386762 MsG0780041557.01.T01:intron 25.0%
!! TTTGCACAATTAGTTTATGT+AGG - Chr7:92386387-92386406 MsG0780041557.01.T01:intron 25.0%
!!! CAAAGTTTTAGCAATAGAAA+AGG + Chr7:92386480-92386499 None:intergenic 25.0%
!!! CATTAGTTTTCTCTATACTT+TGG - Chr7:92386602-92386621 MsG0780041557.01.T01:intron 25.0%
AATTCAAGGAGTAATGATCT+TGG - Chr7:92386921-92386940 MsG0780041557.01.T01:intron 30.0%
CTCTATAAATAATGCATGAC+AGG + Chr7:92386178-92386197 None:intergenic 30.0%
CTTACATTACCAAGTAGAAA+AGG - Chr7:92386259-92386278 MsG0780041557.01.T01:intron 30.0%
GGATATGAAAAAAAATCAGG+AGG + Chr7:92387081-92387100 None:intergenic 30.0%
GTATGTTACAACAAAGAACT+AGG - Chr7:92386683-92386702 MsG0780041557.01.T01:intron 30.0%
! AACATTGATATTTGATGGCA+CGG + Chr7:92386308-92386327 None:intergenic 30.0%
! ACTTAAAACTAGTCTAGTGA+AGG - Chr7:92386448-92386467 MsG0780041557.01.T01:intron 30.0%
! TCAACTTTTCTGACAGTTTT+TGG + Chr7:92387272-92387291 None:intergenic 30.0%
! TGTTTCTTTAATGGGTGTAT+AGG + Chr7:92386344-92386363 None:intergenic 30.0%
!!! TCACTAGACTAGTTTTAAGT+TGG + Chr7:92386448-92386467 None:intergenic 30.0%
!!! TTTTCTGTTTGCTGTTTCTT+AGG - Chr7:92387194-92387213 MsG0780041557.01.T01:intron 30.0%
AAAGTTGTTACTCATTCTGG+AGG - Chr7:92385910-92385929 MsG0780041557.01.T01:CDS 35.0%
ACTAATGATGAGCTAATGTC+AGG + Chr7:92386589-92386608 None:intergenic 35.0%
AGTAATGATCTTGGTTCCTT+TGG - Chr7:92386930-92386949 MsG0780041557.01.T01:intron 35.0%
CAAGGTTTCTTTGCTTTCAT+TGG + Chr7:92387052-92387071 None:intergenic 35.0%
CATATGCGTACATAAATGGA+AGG + Chr7:92386513-92386532 None:intergenic 35.0%
CATCAAACATCTTCTGTATG+TGG + Chr7:92387316-92387335 None:intergenic 35.0%
CTGGTTATATGGATGCATAT+GGG - Chr7:92387408-92387427 MsG0780041557.01.T01:CDS 35.0%
GATGAAGCTAAAAGTGATGA+TGG - Chr7:92387332-92387351 MsG0780041557.01.T01:intron 35.0%
GGTTCATTCTGTCTCATATT+AGG + Chr7:92386418-92386437 None:intergenic 35.0%
GTAATGATCTTGGTTCCTTT+GGG - Chr7:92386931-92386950 MsG0780041557.01.T01:intron 35.0%
GTAATGCTCGAATTAAGAAC+AGG + Chr7:92386132-92386151 None:intergenic 35.0%
TAATGATCTTGGTTCCTTTG+GGG - Chr7:92386932-92386951 MsG0780041557.01.T01:intron 35.0%
TTCTTAATTCGAGCATTACG+TGG - Chr7:92386133-92386152 MsG0780041557.01.T01:intron 35.0%
! CTATCAAAGCCTTTTCTACT+TGG + Chr7:92386271-92386290 None:intergenic 35.0%
! TAAAACTAGTCTAGTGAAGG+AGG - Chr7:92386451-92386470 MsG0780041557.01.T01:intron 35.0%
!! CTATACTTTGGGATGTTTCA+TGG - Chr7:92386614-92386633 MsG0780041557.01.T01:intron 35.0%
!!! TAGTTTTAAGTTGGAGCATG+AGG + Chr7:92386439-92386458 None:intergenic 35.0%
AACATCTTCTGTATGTGGTC+TGG + Chr7:92387311-92387330 None:intergenic 40.0%
AAGACCATTGTAGTTCACCA+AGG + Chr7:92386763-92386782 None:intergenic 40.0%
ACATCTTCTGTATGTGGTCT+GGG + Chr7:92387310-92387329 None:intergenic 40.0%
ATAATGCATGACAGGCACTA+TGG + Chr7:92386170-92386189 None:intergenic 40.0%
ATGAGTAACAACTTTGCCCA+AGG + Chr7:92385905-92385924 None:intergenic 40.0%
CATCCATATAACCAGCTTCA+TGG + Chr7:92387403-92387422 None:intergenic 40.0%
CATCCATGAAGCTGGTTATA+TGG - Chr7:92387397-92387416 MsG0780041557.01.T01:CDS 40.0%
CCAGCATATGCGTACATAAA+TGG + Chr7:92386517-92386536 None:intergenic 40.0%
CCATTTATGTACGCATATGC+TGG - Chr7:92386514-92386533 MsG0780041557.01.T01:intron 40.0%
GCTGGTTATATGGATGCATA+TGG - Chr7:92387407-92387426 MsG0780041557.01.T01:CDS 40.0%
GGCAAAGTTGTTACTCATTC+TGG - Chr7:92385907-92385926 MsG0780041557.01.T01:CDS 40.0%
TATATGGATGCATATGGGCT+TGG - Chr7:92387413-92387432 MsG0780041557.01.T01:CDS 40.0%
TCAACCTTGGTGAACTACAA+TGG - Chr7:92386756-92386775 MsG0780041557.01.T01:intron 40.0%
TTGGTCATGGACCAAATGAT+TGG - Chr7:92387432-92387451 MsG0780041557.01.T01:CDS 40.0%
! ATAAACGATTCGGATCCATC+AGG + Chr7:92387124-92387143 None:intergenic 40.0%
!! AGTGATGATGGTCATGATCA+TGG - Chr7:92387344-92387363 MsG0780041557.01.T01:intron 40.0%
!! TCTGTTTGCTGTTTCTTAGG+AGG - Chr7:92387197-92387216 MsG0780041557.01.T01:intron 40.0%
AAAATCAGGAGGCAAGAGCA+AGG + Chr7:92387070-92387089 None:intergenic 45.0%
ATCTTCTCTTCTCTCCCCAA+AGG + Chr7:92386949-92386968 None:intergenic 45.0%
GATGGTCATGATCATGGTCA+CGG - Chr7:92387350-92387369 MsG0780041557.01.T01:intron 45.0%
! TCTGTATGTGGTCTGGGATA+GGG + Chr7:92387304-92387323 None:intergenic 45.0%
! TTCTGTATGTGGTCTGGGAT+AGG + Chr7:92387305-92387324 None:intergenic 45.0%
!! CATATGCTGGTTTGACGTTC+TGG - Chr7:92386527-92386546 MsG0780041557.01.T01:intron 45.0%
CATGGATGTGAGCTTCACCA+AGG + Chr7:92387385-92387404 None:intergenic 50.0%
GAAGCTCACATCCATGAAGC+TGG - Chr7:92387389-92387408 MsG0780041557.01.T01:CDS 50.0%
GAGTAGGCGAATAGCCGAAT+GGG + Chr7:92387102-92387121 None:intergenic 50.0%
GATTCGGATCCATCAGGAGT+AGG + Chr7:92387118-92387137 None:intergenic 50.0%
! CTGTATGTGGTCTGGGATAG+GGG + Chr7:92387303-92387322 None:intergenic 50.0%
! GATGCATATGGGCTTGGTCA+TGG - Chr7:92387419-92387438 MsG0780041557.01.T01:CDS 50.0%
! TACTCATTCTGGAGGCCGTT+GGG - Chr7:92385918-92385937 MsG0780041557.01.T01:CDS 50.0%
! TGTATGTGGTCTGGGATAGG+GGG + Chr7:92387302-92387321 None:intergenic 50.0%
! TTACTCATTCTGGAGGCCGT+TGG - Chr7:92385917-92385936 MsG0780041557.01.T01:CDS 50.0%
GGAGTAGGCGAATAGCCGAA+TGG + Chr7:92387103-92387122 None:intergenic 55.0%
GGCTATTCGCCTACTCCTGA+TGG - Chr7:92387106-92387125 MsG0780041557.01.T01:intron 55.0%
TTGTGCACACCTGAGCCCAA+CGG + Chr7:92385936-92385955 None:intergenic 55.0%
CGGGTTGCTGGTGCTTCCTT+GGG - Chr7:92385886-92385905 MsG0780041557.01.T01:CDS 60.0%
GGTCACGGACATGATCGCCT+TGG - Chr7:92387365-92387384 MsG0780041557.01.T01:intron 60.0%
! TCGCGAAGGAATCGGGTTGC+TGG - Chr7:92385874-92385893 MsG0780041557.01.T01:CDS 60.0%
! TCGGGTTGCTGGTGCTTCCT+TGG - Chr7:92385885-92385904 MsG0780041557.01.T01:CDS 60.0%
! TTCTGGAGGCCGTTGGGCTC+AGG - Chr7:92385924-92385943 MsG0780041557.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 92385868 92387457 92385868 ID=MsG0780041557.01;Name=MsG0780041557.01
Chr7 mRNA 92385868 92387457 92385868 ID=MsG0780041557.01.T01;Parent=MsG0780041557.01;Name=MsG0780041557.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|93
Chr7 exon 92387380 92387457 92387380 ID=MsG0780041557.01.T01:exon:20162;Parent=MsG0780041557.01.T01
Chr7 exon 92385868 92386071 92385868 ID=MsG0780041557.01.T01:exon:20161;Parent=MsG0780041557.01.T01
Chr7 CDS 92387380 92387457 92387380 ID=MsG0780041557.01.T01:cds;Parent=MsG0780041557.01.T01
Chr7 CDS 92385868 92386071 92385868 ID=MsG0780041557.01.T01:cds;Parent=MsG0780041557.01.T01
Gene Sequence

>MsG0780041557.01.T01

ATGGAGTCGCGAAGGAATCGGGTTGCTGGTGCTTCCTTGGGCAAAGTTGTTACTCATTCTGGAGGCCGTTGGGCTCAGTTTGTCTTGTCGCTACCAAAAACTGTCAGAAAAGTTGAGCAAGAGCCCCCTATCCCAGACCACATACAGAAGATGTTTGATGAAGCTAAAAGTGATGATGGTCATGATCATGGTCACGGACATGATCGCCTTGGTGAAGCTCACATCCATGAAGCTGGTTATATGGATGCATATGGGCTTGGTCATGGACCAAATGATTGGTGA
Protein sequence

>MsG0780041557.01.T01

MESRRNRVAGASLGKVVTHSGGRWAQFVLSLPKTVRKVEQEPPIPDHIQKMFDEAKSDDGHDHGHGHDRLGEAHIHEAGYMDAYGLGHGPNDW*