AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010136.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010136.01.T01 MTR_6g042210 99.187 123 1 0 5 127 39 161 2.58e-88 253
MsG0280010136.01.T01 MTR_3g450170 99.187 123 1 0 5 127 39 161 2.58e-88 253
MsG0280010136.01.T01 MTR_7g021700 99.187 123 1 0 5 127 513 635 2.78e-85 261
MsG0280010136.01.T01 MTR_4g006100 99.187 123 1 0 5 127 777 899 6.89e-83 260
MsG0280010136.01.T01 MTR_5g015855 99.138 116 1 0 12 127 30 145 1.64e-82 238
MsG0280010136.01.T01 MTR_0002s0160 90.909 121 11 0 5 125 41 161 6.82e-80 236
MsG0280010136.01.T01 MTR_3g054410 96.939 98 3 0 5 102 36 133 2.53e-67 200
MsG0280010136.01.T01 MTR_5g063400 97.938 97 2 0 31 127 59 155 1.00e-66 199
MsG0280010136.01.T01 MTR_4g050810 78.049 123 1 1 5 127 236 332 7.58e-61 190
MsG0280010136.01.T01 MTR_8g086030 88.679 53 6 0 58 110 60 112 1.12e-29 103
MsG0280010136.01.T01 MTR_4g070120 52.222 90 6 3 5 94 48 100 3.03e-19 77.8
MsG0280010136.01.T01 MTR_8g010570 35.780 109 64 2 5 108 93 200 2.11e-14 67.0
MsG0280010136.01.T01 MTR_8g010570 35.780 109 64 2 5 108 113 220 2.23e-14 67.4
MsG0280010136.01.T01 MTR_8g010570 35.238 105 61 3 5 104 113 215 1.77e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010136.01.T01 ATCG01090 96.667 120 4 0 5 124 39 158 2.05e-84 244
MsG0280010136.01.T01 AT1G16700 35.780 109 64 2 5 108 93 200 1.85e-14 67.4
MsG0280010136.01.T01 AT1G79010 35.780 109 64 2 5 108 93 200 2.16e-14 67.0

Find 17 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCATTTATCAAATTCAAAA+TGG 0.238267 2:-65286479 None:intergenic
AACTATAATCAAATTGCTTT+GGG 0.280375 2:+65286714 MsG0280010136.01.T01:CDS
GAACTATAATCAAATTGCTT+TGG 0.315151 2:+65286713 MsG0280010136.01.T01:CDS
TAGATTTACCCGTTGTTGAT+TGG 0.366477 2:+65286535 MsG0280010136.01.T01:CDS
ACCCGTTGTTGATTGGAAAC+TGG 0.369567 2:+65286542 MsG0280010136.01.T01:CDS
GTCATTGATAAACAATTTGT+TGG 0.381894 2:-65286651 None:intergenic
TCAACAACGGGTAAATCTAT+AGG 0.423346 2:-65286531 None:intergenic
TTCATAAGGATATTGAATAG+TGG 0.431463 2:-65286421 None:intergenic
TCATTGATAAACAATTTGTT+GGG 0.458639 2:-65286650 None:intergenic
CAATTACTGACATTGGTAAA+CGG 0.469669 2:-65286737 None:intergenic
TCCAGTTTCCAATCAACAAC+GGG 0.472196 2:-65286543 None:intergenic
TCATAAGGATATTGAATAGT+GGG 0.482165 2:-65286420 None:intergenic
TAATCATCAATTACTGACAT+TGG 0.558627 2:-65286744 None:intergenic
CATAAGGATATTGAATAGTG+GGG 0.595300 2:-65286419 None:intergenic
ATCACATCGGAACGTTTCCG+CGG 0.597937 2:+65286450 MsG0280010136.01.T01:CDS
TTCCAGTTTCCAATCAACAA+CGG 0.610406 2:-65286544 None:intergenic
ATTCAAAATGGATTCGACCG+CGG 0.695705 2:-65286467 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATGAAAAATTAATCACAT+CGG + Chr2:65286437-65286456 MsG0280010136.01.T01:CDS 15.0%
!! AACTATAATCAAATTGCTTT+GGG + Chr2:65286714-65286733 MsG0280010136.01.T01:CDS 20.0%
!! TGCATTTATCAAATTCAAAA+TGG - Chr2:65286482-65286501 None:intergenic 20.0%
!!! GATGTGATTAATTTTTCATA+AGG - Chr2:65286438-65286457 None:intergenic 20.0%
!!! TCATTGATAAACAATTTGTT+GGG - Chr2:65286653-65286672 None:intergenic 20.0%
! GAACTATAATCAAATTGCTT+TGG + Chr2:65286713-65286732 MsG0280010136.01.T01:CDS 25.0%
! GTCATTGATAAACAATTTGT+TGG - Chr2:65286654-65286673 None:intergenic 25.0%
! TAATCATCAATTACTGACAT+TGG - Chr2:65286747-65286766 None:intergenic 25.0%
! TCATAAGGATATTGAATAGT+GGG - Chr2:65286423-65286442 None:intergenic 25.0%
! TTCATAAGGATATTGAATAG+TGG - Chr2:65286424-65286443 None:intergenic 25.0%
!!! TTCAGAATCTGTATTTTTTG+TGG + Chr2:65286609-65286628 MsG0280010136.01.T01:CDS 25.0%
CAATTACTGACATTGGTAAA+CGG - Chr2:65286740-65286759 None:intergenic 30.0%
CATAAGGATATTGAATAGTG+GGG - Chr2:65286422-65286441 None:intergenic 30.0%
TAGATTTACCCGTTGTTGAT+TGG + Chr2:65286535-65286554 MsG0280010136.01.T01:CDS 35.0%
TCAACAACGGGTAAATCTAT+AGG - Chr2:65286534-65286553 None:intergenic 35.0%
TTCCAGTTTCCAATCAACAA+CGG - Chr2:65286547-65286566 None:intergenic 35.0%
TCCAGTTTCCAATCAACAAC+GGG - Chr2:65286546-65286565 None:intergenic 40.0%
! ATTCAAAATGGATTCGACCG+CGG - Chr2:65286470-65286489 None:intergenic 40.0%
! ACCCGTTGTTGATTGGAAAC+TGG + Chr2:65286542-65286561 MsG0280010136.01.T01:CDS 45.0%
ATCACATCGGAACGTTTCCG+CGG + Chr2:65286450-65286469 MsG0280010136.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr2 gene 65286411 65286794 65286411 ID=MsG0280010136.01;Name=MsG0280010136.01
Chr2 mRNA 65286411 65286794 65286411 ID=MsG0280010136.01.T01;Parent=MsG0280010136.01;Name=MsG0280010136.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|127
Chr2 exon 65286411 65286794 65286411 ID=MsG0280010136.01.T01:exon:18017;Parent=MsG0280010136.01.T01
Chr2 CDS 65286411 65286794 65286411 ID=MsG0280010136.01.T01:cds;Parent=MsG0280010136.01.T01
Gene Sequence

>MsG0280010136.01.T01

ATGAACGTCCCCACTATTCAATATCCTTATGAAAAATTAATCACATCGGAACGTTTCCGCGGTCGAATCCATTTTGAATTTGATAAATGCATTGCTTGTGAAGTATGTGTTCGTGTATGTCCTATAGATTTACCCGTTGTTGATTGGAAACTGGAAACTGATATTCGAAAGAAACGATTGCTAAATTACAGTATTGATTTCAGAATCTGTATTTTTTGTGGTAACTGTATTGAGTATTGCCCAACAAATTGTTTATCAATGACTGAAGAATATGAACTTTCAACTTATGATCGTCACGAATTGAACTATAATCAAATTGCTTTGGGCCGTTTACCAATGTCAGTAATTGATGATTATACAATTCGAACAATTCAAATAAAATAA
Protein sequence

>MsG0280010136.01.T01

MNVPTIQYPYEKLITSERFRGRIHFEFDKCIACEVCVRVCPIDLPVVDWKLETDIRKKRLLNYSIDFRICIFCGNCIEYCPTNCLSMTEEYELSTYDRHELNYNQIALGRLPMSVIDDYTIRTIQIK*