AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055941


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055941.t1 MTR_7g094220 94.805 154 8 0 1 154 1 154 2.23e-97 280
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055941.t1 AT2G48070 80.769 78 15 0 77 154 56 133 4.46e-42 139
MS.gene055941.t1 AT2G48070 80.769 78 15 0 77 154 56 133 4.46e-42 139
MS.gene055941.t1 AT2G48070 80.769 78 15 0 77 154 56 133 4.64e-42 139

Find 43 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCAGACCAACCTGATCTT+TGG 0.218609 7.4:-14920852 MS.gene055941:CDS
CTTCAAACCATTACCTTTGT+AGG 0.281560 7.4:-14921670 MS.gene055941:CDS
AATAGACAAAGAACTTAAAA+AGG 0.327859 7.4:-14921462 MS.gene055941:intron
AGAGGAAGTGCTTTCTTCAT+TGG 0.351463 7.4:+14921499 None:intergenic
AAAGGTAATGGTTTGAAGAA+TGG 0.382770 7.4:+14921675 None:intergenic
ACCTGATCTTTGGAGATTGA+TGG 0.394975 7.4:-14920842 MS.gene055941:CDS
TGATGGGAATGTGGTCCATT+TGG 0.397897 7.4:-14920825 MS.gene055941:CDS
CTTAAGGTTGAAAGGTACTT+TGG 0.417588 7.4:+14921599 None:intergenic
AGTGCTTTCTTCATTGGTGT+TGG 0.419272 7.4:+14921505 None:intergenic
GAACTTACTGAACATCCAAA+TGG 0.422454 7.4:+14920810 None:intergenic
TGAAAGGTACTTTGGAAGGT+TGG 0.424998 7.4:+14921607 None:intergenic
ACAGTATACAAGGTACTTCC+AGG 0.432743 7.4:+14920940 None:intergenic
GGGATAAGGTGAGCGTCTTA+AGG 0.439792 7.4:+14921583 None:intergenic
AGCGTATGCATCAATGTTGT+TGG 0.443654 7.4:-14920905 MS.gene055941:CDS
AGCTGCAACCTTTGCACCGA+GGG 0.452896 7.4:-14920992 MS.gene055941:CDS
ATTTGAAGTGGCACATGCAA+TGG 0.456020 7.4:+14921562 None:intergenic
TTTGATGCCGTTGAAGCCCT+CGG 0.469009 7.4:+14920976 None:intergenic
GTTTGAATTGGAGAGACTAA+AGG 0.476477 7.4:+14921638 None:intergenic
CCCATCAATCTCCAAAGATC+AGG 0.478700 7.4:+14920841 None:intergenic
TTTGAATTGGAGAGACTAAA+GGG 0.483141 7.4:+14921639 None:intergenic
TACAACTTCTTCATTTGAAG+TGG 0.486651 7.4:+14921550 None:intergenic
TTTGAAGTGGCACATGCAAT+GGG 0.489031 7.4:+14921563 None:intergenic
TTCAAACCATTACCTTTGTA+GGG 0.495407 7.4:-14921669 MS.gene055941:CDS
AAGGTACTTCCAGGTACTGC+AGG 0.496122 7.4:+14920949 None:intergenic
CCTGATCTTTGGAGATTGAT+GGG 0.498697 7.4:-14920841 MS.gene055941:CDS
CAAAGATCAGGTTGGTCTGA+AGG 0.501488 7.4:+14920853 None:intergenic
CTTTGCACCGAGGGCTTCAA+CGG 0.504270 7.4:-14920983 MS.gene055941:CDS
GTGGCACATGCAATGGGATA+AGG 0.520683 7.4:+14921569 None:intergenic
AGGTTGAAAGGTACTTTGGA+AGG 0.535613 7.4:+14921603 None:intergenic
AAATGAAGAAGTTGTAGAAG+AGG 0.535694 7.4:-14921543 MS.gene055941:CDS
AAAGATCAGGTTGGTCTGAA+GGG 0.540412 7.4:+14920854 None:intergenic
AATTGGAGAGACTAAAGGGT+AGG 0.543404 7.4:+14921643 None:intergenic
CGTTGAAGCCCTCGGTGCAA+AGG 0.550250 7.4:+14920984 None:intergenic
GCGTATGCATCAATGTTGTT+GGG 0.556094 7.4:-14920904 MS.gene055941:CDS
AGGGTACCCTACAAAGGTAA+TGG 0.556258 7.4:+14921663 None:intergenic
GTGAGCGTCTTAAGGTTGAA+AGG 0.597321 7.4:+14921591 None:intergenic
AGGTACTTCCAGGTACTGCA+GGG 0.609643 7.4:+14920950 None:intergenic
ATTGGAGAGACTAAAGGGTA+GGG 0.611399 7.4:+14921644 None:intergenic
TTTGGAGATTGATGGGAATG+TGG 0.629488 7.4:-14920834 MS.gene055941:CDS
AAGGGTAGGGTACCCTACAA+AGG 0.641142 7.4:+14921657 None:intergenic
TCAATCTCCAAAGATCAGGT+TGG 0.648619 7.4:+14920845 None:intergenic
TATGCATCAATGTTGTTGGG+TGG 0.664299 7.4:-14920901 MS.gene055941:CDS
CAGCTGCAACCTTTGCACCG+AGG 0.683525 7.4:-14920993 MS.gene055941:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTTCTAAAAATTGATTAA+GGG - chr7.4:14921122-14921141 MS.gene055941:intron 15.0%
!!! TCATTTCAAATCATATTTTA+AGG - chr7.4:14921075-14921094 MS.gene055941:intron 15.0%
!! AATAGACAAAGAACTTAAAA+AGG - chr7.4:14921013-14921032 MS.gene055941:intron 20.0%
!! ACACAATCATATATATGATA+AGG - chr7.4:14921285-14921304 MS.gene055941:intron 20.0%
!! ATTAGAAAGATAGAGAAAAA+TGG - chr7.4:14921407-14921426 MS.gene055941:intron 20.0%
!! CACAATCATATATATGATAA+GGG - chr7.4:14921286-14921305 MS.gene055941:intron 20.0%
!!! AAGCATAGATTTTTACAAAA+TGG + chr7.4:14921105-14921124 None:intergenic 20.0%
!!! AGCATAGATTTTTACAAAAT+GGG + chr7.4:14921104-14921123 None:intergenic 20.0%
!!! ATGTTTGTTTTTGAATTGAT+AGG - chr7.4:14921447-14921466 MS.gene055941:intron 20.0%
!!! GCTTTTCTAAAAATTGATTA+AGG - chr7.4:14921121-14921140 MS.gene055941:intron 20.0%
!!! TGATTTGAAATGAAAATTGA+AGG + chr7.4:14921068-14921087 None:intergenic 20.0%
!!! TTTTTAAGTTCTTTGTCTAT+TGG + chr7.4:14921014-14921033 None:intergenic 20.0%
! AACTTCAAAAACAGTATACA+AGG + chr7.4:14921548-14921567 None:intergenic 25.0%
! ATTGAAGGATTATACAAAGA+TGG + chr7.4:14921053-14921072 None:intergenic 25.0%
! TTGAAAACAGCTTATTATCA+TGG + chr7.4:14921232-14921251 None:intergenic 25.0%
!!! TTTGTTTTTGAATTGATAGG+TGG - chr7.4:14921450-14921469 MS.gene055941:intron 25.0%
AAATGAAGAAGTTGTAGAAG+AGG - chr7.4:14920932-14920951 MS.gene055941:CDS 30.0%
ACAGCTTAATTAAGCACTTA+TGG + chr7.4:14921318-14921337 None:intergenic 30.0%
ATTAAGCTGTTTATGGAAAC+AGG - chr7.4:14921328-14921347 MS.gene055941:intron 30.0%
GACAAAGAACTTAAAAAGGT+TGG - chr7.4:14921017-14921036 MS.gene055941:intron 30.0%
GTGCTTAATTAAGCTGTTTA+TGG - chr7.4:14921321-14921340 MS.gene055941:intron 30.0%
TACAACTTCTTCATTTGAAG+TGG + chr7.4:14920928-14920947 None:intergenic 30.0%
TTAAGCTGTTTATGGAAACA+GGG - chr7.4:14921329-14921348 MS.gene055941:intron 30.0%
TTCAAACCATTACCTTTGTA+GGG - chr7.4:14920806-14920825 MS.gene055941:CDS 30.0%
TTTGAATTGGAGAGACTAAA+GGG + chr7.4:14920839-14920858 None:intergenic 30.0%
! AAAGGTAATGGTTTGAAGAA+TGG + chr7.4:14920803-14920822 None:intergenic 30.0%
!! AATCACTTTTCAGACTATCT+GGG - chr7.4:14921184-14921203 MS.gene055941:intron 30.0%
!! TAATCACTTTTCAGACTATC+TGG - chr7.4:14921183-14921202 MS.gene055941:intron 30.0%
!!! TTGGTTTTGTTGGTTTGAAT+TGG + chr7.4:14920852-14920871 None:intergenic 30.0%
CTTCAAACCATTACCTTTGT+AGG - chr7.4:14920805-14920824 MS.gene055941:CDS 35.0%
GAACTTACTGAACATCCAAA+TGG + chr7.4:14921668-14921687 None:intergenic 35.0%
GTTTGAATTGGAGAGACTAA+AGG + chr7.4:14920840-14920859 None:intergenic 35.0%
TAAGCTGTTTATGGAAACAG+GGG - chr7.4:14921330-14921349 MS.gene055941:intron 35.0%
TATTGGAGTAGAAAAAGCAG+AGG + chr7.4:14920997-14921016 None:intergenic 35.0%
! ATGGCATAGACATTTTCCAT+GGG + chr7.4:14921213-14921232 None:intergenic 35.0%
! ATGTTGCTTGAGAGTAAATG+AGG - chr7.4:14921382-14921401 MS.gene055941:intron 35.0%
! TGTTGCTTGAGAGTAAATGA+GGG - chr7.4:14921383-14921402 MS.gene055941:intron 35.0%
!! CTTAAGGTTGAAAGGTACTT+TGG + chr7.4:14920879-14920898 None:intergenic 35.0%
AAGCTGTTTATGGAAACAGG+GGG - chr7.4:14921331-14921350 MS.gene055941:intron 40.0%
AATTGGAGAGACTAAAGGGT+AGG + chr7.4:14920835-14920854 None:intergenic 40.0%
AGCGTATGCATCAATGTTGT+TGG - chr7.4:14921570-14921589 MS.gene055941:CDS 40.0%
AGTGCTTTCTTCATTGGTGT+TGG + chr7.4:14920973-14920992 None:intergenic 40.0%
ATTGGAGAGACTAAAGGGTA+GGG + chr7.4:14920834-14920853 None:intergenic 40.0%
GCGTATGCATCAATGTTGTT+GGG - chr7.4:14921571-14921590 MS.gene055941:CDS 40.0%
TATGCATCAATGTTGTTGGG+TGG - chr7.4:14921574-14921593 MS.gene055941:CDS 40.0%
TCAATCTCCAAAGATCAGGT+TGG + chr7.4:14921633-14921652 None:intergenic 40.0%
TTTGGAGATTGATGGGAATG+TGG - chr7.4:14921641-14921660 MS.gene055941:CDS 40.0%
! ACAGTATACAAGGTACTTCC+AGG + chr7.4:14921538-14921557 None:intergenic 40.0%
! ACCTGATCTTTGGAGATTGA+TGG - chr7.4:14921633-14921652 MS.gene055941:CDS 40.0%
! ATTTGAAGTGGCACATGCAA+TGG + chr7.4:14920916-14920935 None:intergenic 40.0%
! CATGGCATAGACATTTTCCA+TGG + chr7.4:14921214-14921233 None:intergenic 40.0%
! CCTGATCTTTGGAGATTGAT+GGG - chr7.4:14921634-14921653 MS.gene055941:CDS 40.0%
! TTTGAAGTGGCACATGCAAT+GGG + chr7.4:14920915-14920934 None:intergenic 40.0%
!! AAAGATCAGGTTGGTCTGAA+GGG + chr7.4:14921624-14921643 None:intergenic 40.0%
!! AGAGGAAGTGCTTTCTTCAT+TGG + chr7.4:14920979-14920998 None:intergenic 40.0%
!! AGGTTGAAAGGTACTTTGGA+AGG + chr7.4:14920875-14920894 None:intergenic 40.0%
!! TGAAAGGTACTTTGGAAGGT+TGG + chr7.4:14920871-14920890 None:intergenic 40.0%
!!! CTTTGGAAGGTTGGTTTTGT+TGG + chr7.4:14920862-14920881 None:intergenic 40.0%
AGCTGTTTATGGAAACAGGG+GGG - chr7.4:14921332-14921351 MS.gene055941:intron 45.0%
CCCATCAATCTCCAAAGATC+AGG + chr7.4:14921637-14921656 None:intergenic 45.0%
CTTCAGACCAACCTGATCTT+TGG - chr7.4:14921623-14921642 MS.gene055941:CDS 45.0%
GTGAGCGTCTTAAGGTTGAA+AGG + chr7.4:14920887-14920906 None:intergenic 45.0%
TCAAAAAACCCTGCAGTACC+TGG - chr7.4:14921517-14921536 MS.gene055941:CDS 45.0%
TGATGGGAATGTGGTCCATT+TGG - chr7.4:14921650-14921669 MS.gene055941:CDS 45.0%
! AGGGTACCCTACAAAGGTAA+TGG + chr7.4:14920815-14920834 None:intergenic 45.0%
!! CAAAGATCAGGTTGGTCTGA+AGG + chr7.4:14921625-14921644 None:intergenic 45.0%
ACAGGGGGGTTCACTTAGAA+AGG - chr7.4:14921346-14921365 MS.gene055941:intron 50.0%
CAGACTATCTGGGTAACCCA+TGG - chr7.4:14921194-14921213 MS.gene055941:intron 50.0%
GGGATAAGGTGAGCGTCTTA+AGG + chr7.4:14920895-14920914 None:intergenic 50.0%
GTGGCACATGCAATGGGATA+AGG + chr7.4:14920909-14920928 None:intergenic 50.0%
TTTGATGCCGTTGAAGCCCT+CGG + chr7.4:14921502-14921521 None:intergenic 50.0%
! AAGGGTAGGGTACCCTACAA+AGG + chr7.4:14920821-14920840 None:intergenic 50.0%
! AAGGTACTTCCAGGTACTGC+AGG + chr7.4:14921529-14921548 None:intergenic 50.0%
! AGGTACTTCCAGGTACTGCA+GGG + chr7.4:14921528-14921547 None:intergenic 50.0%
AGCTGCAACCTTTGCACCGA+GGG - chr7.4:14921483-14921502 MS.gene055941:CDS 55.0%
CTTTGCACCGAGGGCTTCAA+CGG - chr7.4:14921492-14921511 MS.gene055941:CDS 55.0%
CAGCTGCAACCTTTGCACCG+AGG - chr7.4:14921482-14921501 MS.gene055941:CDS 60.0%
! CGTTGAAGCCCTCGGTGCAA+AGG + chr7.4:14921494-14921513 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 14920786 14921711 14920786 ID=MS.gene055941
chr7.4 mRNA 14920786 14921711 14920786 ID=MS.gene055941.t1;Parent=MS.gene055941
chr7.4 exon 14921463 14921711 14921463 ID=MS.gene055941.t1.exon1;Parent=MS.gene055941.t1
chr7.4 CDS 14921463 14921711 14921463 ID=cds.MS.gene055941.t1;Parent=MS.gene055941.t1
chr7.4 exon 14920786 14921028 14920786 ID=MS.gene055941.t1.exon2;Parent=MS.gene055941.t1
chr7.4 CDS 14920786 14921028 14920786 ID=cds.MS.gene055941.t1;Parent=MS.gene055941.t1
Gene Sequence

>MS.gene055941

ATGAACACTTTAATCCATTCTTCAAACCATTACCTTTGTAGGGTACCCTACCCTTTAGTCTCTCCAATTCAAACCAACAAAACCAACCTTCCAAAGTACCTTTCAACCTTAAGACGCTCACCTTATCCCATTGCATGTGCCACTTCAAATGAAGAAGTTGTAGAAGAGGTTAAAGTAGTTGAATCCAACACCAATGAAGAAAGCACTTCCTCTGCTTTTTCTACTCCAATAGACAAAGAACTTAAAAAGGTTGGTTGCTTCACACCATCTTTGTATAATCCTTCAATTTTCATTTCAAATCATATTTTAAGGACACCCATTTTGTAAAAATCTATGCTTTTCTAAAAATTGATTAAGGGTCTGTTTGTATTGATTTATCTGAGCTTATTTAATGACATAATCACTTTTCAGACTATCTGGGTAACCCATGGAAAATGTCTATGCCATGATAATAAGCTGTTTTCAACTGATTTTCTATGTAGTTATAGAAATAACTTGTACACAATCATATATATGATAAGGGCTTATGCCATAAGTGCTTAATTAAGCTGTTTATGGAAACAGGGGGGTTCACTTAGAAAGGTTTTTGTTGTTGCATGTTGCTTGAGAGTAAATGAGGGCATTAGAAAGATAGAGAAAAATGGTGTTTTTTGCATTTGAAATGTTTGTTTTTGAATTGATAGGTGGCTCAGAAGACAGCTGCAACCTTTGCACCGAGGGCTTCAACGGCATCAAAAAACCCTGCAGTACCTGGAAGTACCTTGTATACTGTTTTTGAAGTTCAAGCGTATGCATCAATGTTGTTGGGTGGAGCTTTGTCTTTTAATCTCATTTTCCCTTCAGACCAACCTGATCTTTGGAGATTGATGGGAATGTGGTCCATTTGGATGTTCAGTAAGTTCAAAACCTACCATTTTTTATCTTGA

Protein sequence

>MS.gene055941.t1

MNTLIHSSNHYLCRVPYPLVSPIQTNKTNLPKYLSTLRRSPYPIACATSNEEVVEEVKVVESNTNEESTSSAFSTPIDKELKKVAQKTAATFAPRASTASKNPAVPGSTLYTVFEVQAYASMLLGGALSFNLIFPSDQPDLWRLMGMWSIWMFSKFKTYHFLS