AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066013

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066013.t1 MTR_1g075340 90.000 70 7 0 1 70 1 70 5.29e-42 131
MS.gene066013.t1 MTR_1g075340 90.000 70 7 0 1 70 1 70 5.29e-42 131
MS.gene066013.t1 MTR_1g075410 83.824 68 11 0 3 70 5 72 1.84e-36 117
MS.gene066013.t1 MTR_5g090250 84.286 70 11 0 1 70 1 70 2.74e-36 116
MS.gene066013.t1 MTR_5g090250 84.286 70 11 0 1 70 1 70 2.74e-36 116
MS.gene066013.t1 MTR_1g075380 79.412 68 14 0 3 70 4 71 8.44e-32 105
MS.gene066013.t1 MTR_1g070335 54.286 70 32 0 1 70 1 70 8.93e-22 80.1
MS.gene066013.t1 MTR_5g045470 53.731 67 31 0 4 70 3 69 6.76e-19 72.8
MS.gene066013.t1 MTR_1g070330 55.556 54 24 0 17 70 1 54 1.36e-15 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066013.t1 AT2G38870 52.857 70 33 0 1 70 1 70 1.45e-21 79.7
MS.gene066013.t1 AT5G43580 55.556 72 30 1 1 70 28 99 4.85e-21 79.0
MS.gene066013.t1 AT3G46860 46.032 63 34 0 8 70 23 85 3.97e-13 58.5
MS.gene066013.t1 AT5G43570 46.575 73 33 1 1 67 1 73 6.03e-12 56.2
MS.gene066013.t1 AT2G38900 42.188 64 37 0 7 70 10 73 2.04e-11 53.9
MS.gene066013.t1 AT2G38900 42.188 64 37 0 7 70 25 88 3.10e-11 53.9
MS.gene066013.t1 AT5G43570 50.000 60 30 0 8 67 24 83 6.40e-11 53.9

Find 26 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTCCACTCCAACCAATTC+TGG 0.174728 1.2:-58079311 None:intergenic
CTGTGACAGGGTTTGGGTTT+GGG 0.259063 1.2:+58079424 MS.gene066013:CDS
ACTTCCGCTGTGACAGGGTT+TGG 0.267379 1.2:+58079417 MS.gene066013:CDS
CTTCCGCTGTGACAGGGTTT+GGG 0.309008 1.2:+58079418 MS.gene066013:CDS
GCTGTGACAGGGTTTGGGTT+TGG 0.326505 1.2:+58079423 MS.gene066013:CDS
TAAAGATGGAATTGTCTATC+AGG 0.326953 1.2:+58079451 MS.gene066013:CDS
CCTTTGACTTCCGCTGTGAC+AGG 0.333094 1.2:+58079411 MS.gene066013:CDS
TAAGAGTTCATGGCCAGAAT+TGG 0.414180 1.2:+58079298 MS.gene066013:CDS
TGGGTTTGGGTTAATAAAGA+TGG 0.418377 1.2:+58079437 MS.gene066013:CDS
TGTGGTCAGGTAAGAGTTCA+TGG 0.426967 1.2:+58079288 MS.gene066013:intron
CTTTGACTTCCGCTGTGACA+GGG 0.463269 1.2:+58079412 MS.gene066013:CDS
CTGTCACAGCGGAAGTCAAA+GGG 0.467050 1.2:-58079410 None:intergenic
GATGCCATCATTGTGCTAGA+AGG 0.504821 1.2:+58079377 MS.gene066013:CDS
CCAGAATTGGTTGGAGTGGA+AGG 0.515293 1.2:+58079311 MS.gene066013:CDS
AGTTCCTTCTAGCACAATGA+TGG 0.538007 1.2:-58079381 None:intergenic
AATTCAGAGGGAGAATCCAT+TGG 0.542280 1.2:+58079352 MS.gene066013:CDS
CCTGTCACAGCGGAAGTCAA+AGG 0.545493 1.2:-58079411 None:intergenic
ATGGCCAGAATTGGTTGGAG+TGG 0.561764 1.2:+58079307 MS.gene066013:CDS
AGTTCATGGCCAGAATTGGT+TGG 0.565712 1.2:+58079302 MS.gene066013:CDS
ATTGGTTGGAGTGGAAGGAA+AGG 0.570071 1.2:+58079316 MS.gene066013:CDS
AGCAGAAGCTACAATTCAGA+GGG 0.593359 1.2:+58079340 MS.gene066013:CDS
TAGCAGAAGCTACAATTCAG+AGG 0.596029 1.2:+58079339 MS.gene066013:CDS
ACAATGATGGCATCAACCAA+TGG 0.650325 1.2:-58079368 None:intergenic
AAAATGTCTGATGAATGCAA+AGG 0.675933 1.2:+58079128 None:intergenic
TGTCACAGCGGAAGTCAAAG+GGG 0.698463 1.2:-58079409 None:intergenic
AAACCCAAACCCTGTCACAG+CGG 0.730650 1.2:-58079421 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATGAATAATAAATTGAA+TGG + chr1.2:58079218-58079237 MS.gene066013:intron 10.0%
!!! AAATTTTTATTATAACTTGA+TGG + chr1.2:58079247-58079266 MS.gene066013:intron 10.0%
!!! TTACATGCATATATATTTTT+TGG + chr1.2:58079181-58079200 MS.gene066013:intron 15.0%
! TTGAATGAATCAATATTGTG+TGG + chr1.2:58079270-58079289 MS.gene066013:intron 25.0%
TAAAGATGGAATTGTCTATC+AGG + chr1.2:58079451-58079470 MS.gene066013:CDS 30.0%
GTCTATCAGGTTCCAAAAAT+TGG + chr1.2:58079464-58079483 MS.gene066013:CDS 35.0%
TGAATCAATATTGTGTGGTC+AGG + chr1.2:58079275-58079294 MS.gene066013:intron 35.0%
! TGGGTTTGGGTTAATAAAGA+TGG + chr1.2:58079437-58079456 MS.gene066013:CDS 35.0%
AATTCAGAGGGAGAATCCAT+TGG + chr1.2:58079352-58079371 MS.gene066013:CDS 40.0%
ACAATGATGGCATCAACCAA+TGG - chr1.2:58079371-58079390 None:intergenic 40.0%
AGCAGAAGCTACAATTCAGA+GGG + chr1.2:58079340-58079359 MS.gene066013:CDS 40.0%
AGTTCCTTCTAGCACAATGA+TGG - chr1.2:58079384-58079403 None:intergenic 40.0%
GTCTGATGAATGCAAAGGTA+AGG + chr1.2:58079133-58079152 MS.gene066013:intron 40.0%
TAAGAGTTCATGGCCAGAAT+TGG + chr1.2:58079298-58079317 MS.gene066013:CDS 40.0%
TAGCAGAAGCTACAATTCAG+AGG + chr1.2:58079339-58079358 MS.gene066013:CDS 40.0%
AGTTCATGGCCAGAATTGGT+TGG + chr1.2:58079302-58079321 MS.gene066013:CDS 45.0%
ATTGGTTGGAGTGGAAGGAA+AGG + chr1.2:58079316-58079335 MS.gene066013:CDS 45.0%
GATGCCATCATTGTGCTAGA+AGG + chr1.2:58079377-58079396 MS.gene066013:CDS 45.0%
TGTGGTCAGGTAAGAGTTCA+TGG + chr1.2:58079288-58079307 MS.gene066013:intron 45.0%
AAACCCAAACCCTGTCACAG+CGG - chr1.2:58079424-58079443 None:intergenic 50.0%
ATGGCCAGAATTGGTTGGAG+TGG + chr1.2:58079307-58079326 MS.gene066013:CDS 50.0%
CCAGAATTGGTTGGAGTGGA+AGG + chr1.2:58079311-58079330 MS.gene066013:CDS 50.0%
CCTTCCACTCCAACCAATTC+TGG - chr1.2:58079314-58079333 None:intergenic 50.0%
CTGTCACAGCGGAAGTCAAA+GGG - chr1.2:58079413-58079432 None:intergenic 50.0%
TGTCACAGCGGAAGTCAAAG+GGG - chr1.2:58079412-58079431 None:intergenic 50.0%
! CTGTGACAGGGTTTGGGTTT+GGG + chr1.2:58079424-58079443 MS.gene066013:CDS 50.0%
! CTTTGACTTCCGCTGTGACA+GGG + chr1.2:58079412-58079431 MS.gene066013:CDS 50.0%
ACTTCCGCTGTGACAGGGTT+TGG + chr1.2:58079417-58079436 MS.gene066013:CDS 55.0%
CCTGTCACAGCGGAAGTCAA+AGG - chr1.2:58079414-58079433 None:intergenic 55.0%
CTTCCGCTGTGACAGGGTTT+GGG + chr1.2:58079418-58079437 MS.gene066013:CDS 55.0%
! CCTTTGACTTCCGCTGTGAC+AGG + chr1.2:58079411-58079430 MS.gene066013:CDS 55.0%
! GCTGTGACAGGGTTTGGGTT+TGG + chr1.2:58079423-58079442 MS.gene066013:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 58079131 58079490 58079131 ID=MS.gene066013
chr1.2 mRNA 58079131 58079490 58079131 ID=MS.gene066013.t1;Parent=MS.gene066013
chr1.2 exon 58079131 58079149 58079131 ID=MS.gene066013.t1.exon1;Parent=MS.gene066013.t1
chr1.2 CDS 58079131 58079149 58079131 ID=cds.MS.gene066013.t1;Parent=MS.gene066013.t1
chr1.2 exon 58079297 58079490 58079297 ID=MS.gene066013.t1.exon2;Parent=MS.gene066013.t1
chr1.2 CDS 58079297 58079490 58079297 ID=cds.MS.gene066013.t1;Parent=MS.gene066013.t1
Gene Sequence

>MS.gene066013

ATGTCTGATGAATGCAAAGGTAAGGTGTTATAATATAAAATATAATATGTTTACATGCATATATATTTTTTGGTTACATTACATTCATATATGAATAATAAATTGAATGGTTTGTGAAATTTTTATTATAACTTGATGGTTGAATGAATCAATATTGTGTGGTCAGGTAAGAGTTCATGGCCAGAATTGGTTGGAGTGGAAGGAAAGGTAGCAGAAGCTACAATTCAGAGGGAGAATCCATTGGTTGATGCCATCATTGTGCTAGAAGGAACTGATGTCCCCTTTGACTTCCGCTGTGACAGGGTTTGGGTTTGGGTTAATAAAGATGGAATTGTCTATCAGGTTCCAAAAATTGGATAG
Protein sequence

>MS.gene066013.t1

MSDECKGKSSWPELVGVEGKVAEATIQRENPLVDAIIVLEGTDVPFDFRCDRVWVWVNKDGIVYQVPKIG