AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048689.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048689.01.T01 MTR_6g042210 99.379 161 1 0 1 161 1 161 1.28e-119 334
MsG0080048689.01.T01 MTR_3g450170 99.379 161 1 0 1 161 1 161 1.28e-119 334
MsG0080048689.01.T01 MTR_7g021700 99.379 161 1 0 1 161 475 635 3.47e-116 342
MsG0080048689.01.T01 MTR_4g006100 99.379 161 1 0 1 161 739 899 5.30e-113 341
MsG0080048689.01.T01 MTR_0002s0160 88.050 159 19 0 1 159 3 161 4.83e-106 304
MsG0080048689.01.T01 MTR_3g054410 96.241 133 5 0 4 136 1 133 9.28e-94 268
MsG0080048689.01.T01 MTR_4g050810 82.609 161 2 1 1 161 198 332 7.84e-91 268
MsG0080048689.01.T01 MTR_5g015855 100.000 116 0 0 46 161 30 145 3.16e-84 244
MsG0080048689.01.T01 MTR_5g063400 97.938 97 2 0 65 161 59 155 4.73e-67 201
MsG0080048689.01.T01 MTR_8g086030 86.792 53 7 0 92 144 60 112 6.83e-28 100
MsG0080048689.01.T01 MTR_4g070120 47.368 114 17 2 18 128 27 100 8.57e-23 88.2
MsG0080048689.01.T01 MTR_8g010570 33.871 124 76 2 24 142 78 200 1.75e-15 71.2
MsG0080048689.01.T01 MTR_8g010570 33.871 124 76 2 24 142 98 220 2.10e-15 71.2
MsG0080048689.01.T01 MTR_8g010570 33.333 120 73 3 24 138 98 215 2.10e-14 68.2
MsG0080048689.01.T02 MTR_6g042210 99.259 135 1 0 1 135 27 161 3.03e-98 279
MsG0080048689.01.T02 MTR_3g450170 99.259 135 1 0 1 135 27 161 3.03e-98 279
MsG0080048689.01.T02 MTR_7g021700 99.259 135 1 0 1 135 501 635 4.50e-95 286
MsG0080048689.01.T02 MTR_4g006100 99.259 135 1 0 1 135 765 899 1.78e-92 286
MsG0080048689.01.T02 MTR_0002s0160 90.769 130 12 0 4 133 32 161 1.50e-87 256
MsG0080048689.01.T02 MTR_5g015855 100.000 116 0 0 20 135 30 145 6.85e-84 242
MsG0080048689.01.T02 MTR_3g054410 95.455 110 5 0 1 110 24 133 7.69e-75 219
MsG0080048689.01.T02 MTR_4g050810 79.259 135 2 1 1 135 224 332 1.57e-69 212
MsG0080048689.01.T02 MTR_5g063400 97.938 97 2 0 39 135 59 155 1.17e-66 199
MsG0080048689.01.T02 MTR_4g070120 57.843 102 6 3 1 102 36 100 1.91e-28 101
MsG0080048689.01.T02 MTR_8g086030 86.792 53 7 0 66 118 60 112 4.80e-28 100
MsG0080048689.01.T02 MTR_8g010570 34.711 121 73 2 1 116 81 200 2.78e-15 69.7
MsG0080048689.01.T02 MTR_8g010570 34.711 121 73 2 1 116 101 220 2.83e-15 70.1
MsG0080048689.01.T02 MTR_8g010570 34.188 117 70 3 1 112 101 215 2.61e-14 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048689.01.T01 ATCG01090 93.671 158 10 0 1 158 1 158 9.91e-112 315
MsG0080048689.01.T01 AT1G16700 36.364 110 64 2 38 142 92 200 3.99e-15 70.5
MsG0080048689.01.T01 AT1G79010 36.364 110 64 2 38 142 92 200 4.91e-15 70.1
MsG0080048689.01.T02 ATCG01090 96.212 132 5 0 1 132 27 158 1.19e-93 268
MsG0080048689.01.T02 AT1G16700 36.364 110 64 2 12 116 92 200 4.20e-15 69.3
MsG0080048689.01.T02 AT1G79010 36.364 110 64 2 12 116 92 200 4.38e-15 69.3

Find 24 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCATTTATCAAATTCAAAA+TGG 0.238267 contig404end:-28702 None:intergenic
GATATGTTCCTTATGGTAAC+TGG 0.277192 contig404end:+28529 None:intergenic
AACTATAATCAAATTGCTTT+GGG 0.280375 contig404end:+28937 MsG0080048689.01.T01:CDS
CTAAATTACAGTATTGATTT+CGG 0.292964 contig404end:+28814 MsG0080048689.01.T01:CDS
TATTTACGATATGTTCCTTA+TGG 0.293240 contig404end:+28522 None:intergenic
TAAGGATATTGAATAGTTAC+AGG 0.312119 contig404end:-28640 None:intergenic
GAACTATAATCAAATTGCTT+TGG 0.315151 contig404end:+28936 MsG0080048689.01.T01:CDS
GTAACTGGGTTCATGAATTA+TGG 0.358256 contig404end:+28544 MsG0080048689.01.T01:CDS
TAGATTTACCCGTTGTTGAT+TGG 0.366477 contig404end:+28758 MsG0080048689.01.T01:CDS
ACCCGTTGTTGATTGGAAAC+TGG 0.369567 contig404end:+28765 MsG0080048689.01.T01:CDS
GTCATTGATAAACAATTTGT+TGG 0.381894 contig404end:-28874 None:intergenic
TCAACAACGGGTAAATCTAT+AGG 0.423346 contig404end:-28754 None:intergenic
TCATTGATAAACAATTTGTT+GGG 0.458639 contig404end:-28873 None:intergenic
CAATTACTGACATTGGTAAA+CGG 0.469669 contig404end:-28960 None:intergenic
TCCAGTTTCCAATCAACAAC+GGG 0.472196 contig404end:-28766 None:intergenic
TCATGAACCCAGTTACCATA+AGG 0.530158 contig404end:-28537 None:intergenic
TAATCATCAATTACTGACAT+TGG 0.558627 contig404end:-28967 None:intergenic
GACCAATGTACCTTGCAGCT+CGG 0.566243 contig404end:-28579 None:intergenic
GTCCGAGCTGCAAGGTACAT+TGG 0.580316 contig404end:+28577 MsG0080048689.01.T01:CDS
ATATGTTCCTTATGGTAACT+GGG 0.594325 contig404end:+28530 None:intergenic
ATCACATCGGAACGTTTCCG+CGG 0.597937 contig404end:+28673 MsG0080048689.01.T01:CDS
TTCCAGTTTCCAATCAACAA+CGG 0.610406 contig404end:-28767 None:intergenic
AACAAACAGTCCGAGCTGCA+AGG 0.631261 contig404end:+28569 MsG0080048689.01.T01:CDS
ATTCAAAATGGATTCGACCG+CGG 0.695705 contig404end:-28690 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATGAAAAATTAATCACAT+CGG + contig404end:28660-28679 MsG0080048689.01.T01:CDS 15.0%
!! AACTATAATCAAATTGCTTT+GGG + contig404end:28937-28956 MsG0080048689.01.T01:CDS 20.0%
!! TGCATTTATCAAATTCAAAA+TGG - contig404end:28705-28724 None:intergenic 20.0%
!!! CTAAATTACAGTATTGATTT+CGG + contig404end:28814-28833 MsG0080048689.01.T01:CDS 20.0%
!!! GATGTGATTAATTTTTCATA+AGG - contig404end:28661-28680 None:intergenic 20.0%
!!! TCATTGATAAACAATTTGTT+GGG - contig404end:28876-28895 None:intergenic 20.0%
! GAACTATAATCAAATTGCTT+TGG + contig404end:28936-28955 MsG0080048689.01.T01:CDS 25.0%
! GTCATTGATAAACAATTTGT+TGG - contig404end:28877-28896 None:intergenic 25.0%
! TAAGGATATTGAATAGTTAC+AGG - contig404end:28643-28662 None:intergenic 25.0%
! TAATCATCAATTACTGACAT+TGG - contig404end:28970-28989 None:intergenic 25.0%
CAATTACTGACATTGGTAAA+CGG - contig404end:28963-28982 None:intergenic 30.0%
!!! TTCGGAATCTGTATTTTTTG+TGG + contig404end:28832-28851 MsG0080048689.01.T01:CDS 30.0%
GTAACTGGGTTCATGAATTA+TGG + contig404end:28544-28563 MsG0080048689.01.T01:CDS 35.0%
TAGATTTACCCGTTGTTGAT+TGG + contig404end:28758-28777 MsG0080048689.01.T01:CDS 35.0%
TCAACAACGGGTAAATCTAT+AGG - contig404end:28757-28776 None:intergenic 35.0%
TTCCAGTTTCCAATCAACAA+CGG - contig404end:28770-28789 None:intergenic 35.0%
TCATGAACCCAGTTACCATA+AGG - contig404end:28540-28559 None:intergenic 40.0%
TCCAGTTTCCAATCAACAAC+GGG - contig404end:28769-28788 None:intergenic 40.0%
! ATTCAAAATGGATTCGACCG+CGG - contig404end:28693-28712 None:intergenic 40.0%
! ACCCGTTGTTGATTGGAAAC+TGG + contig404end:28765-28784 MsG0080048689.01.T01:CDS 45.0%
AACAAACAGTCCGAGCTGCA+AGG + contig404end:28569-28588 MsG0080048689.01.T01:CDS 50.0%
ATCACATCGGAACGTTTCCG+CGG + contig404end:28673-28692 MsG0080048689.01.T01:CDS 50.0%
GACCAATGTACCTTGCAGCT+CGG - contig404end:28582-28601 None:intergenic 50.0%
GTCCGAGCTGCAAGGTACAT+TGG + contig404end:28577-28596 MsG0080048689.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
contig404end gene 28532 29017 28532 ID=MsG0080048689.01;Name=MsG0080048689.01
contig404end mRNA 28532 29017 28532 ID=MsG0080048689.01.T01;Parent=MsG0080048689.01;Name=MsG0080048689.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|161
contig404end exon 28532 29017 28532 ID=MsG0080048689.01.T01:exon:16632;Parent=MsG0080048689.01.T01
contig404end CDS 28532 29017 28532 ID=MsG0080048689.01.T01:cds;Parent=MsG0080048689.01.T01
contig404end mRNA 28610 29017 28610 ID=MsG0080048689.01.T02;Parent=MsG0080048689.01;Name=MsG0080048689.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|135
contig404end exon 28610 29017 28610 ID=MsG0080048689.01.T02:exon:16633;Parent=MsG0080048689.01.T02
contig404end CDS 28610 29017 28610 ID=MsG0080048689.01.T02:cds;Parent=MsG0080048689.01.T02
contig404end mRNA 28970 29017 28970 ID=MsG0080048689.01.T03;Parent=MsG0080048689.01;Name=MsG0080048689.01.T03;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|15
contig404end exon 28970 29017 28970 ID=MsG0080048689.01.T03:exon:16634;Parent=MsG0080048689.01.T03
contig404end CDS 28970 29017 28970 ID=MsG0080048689.01.T03:cds;Parent=MsG0080048689.01.T03
Gene Sequence

>MsG0080048689.01.T01

ATGTTCCTTATGGTAACTGGGTTCATGAATTATGGTCAACAAACAGTCCGAGCTGCAAGGTACATTGGTCAAAGTTTCATGATTATCTTATCTCACGCAAATCGTTTACCTGTAACTATTCAATATCCTTATGAAAAATTAATCACATCGGAACGTTTCCGCGGTCGAATCCATTTTGAATTTGATAAATGCATTGCTTGTGAAGTATGTGTTCGTGTATGTCCTATAGATTTACCCGTTGTTGATTGGAAACTGGAAACTGATATTCGAAAGAAACGATTGCTAAATTACAGTATTGATTTCGGAATCTGTATTTTTTGTGGTAACTGTATTGAGTATTGCCCAACAAATTGTTTATCAATGACTGAAGAATATGAACTTTCAACTTATGATCGTCACGAATTGAACTATAATCAAATTGCTTTGGGCCGTTTACCAATGTCAGTAATTGATGATTATACAATTCGAACAATTCAAATAAAATAA

>MsG0080048689.01.T03

ATGTCAGTAATTGATGATTATACAATTCGAACAATTCAAATAAAATAA

>MsG0080048689.01.T02

ATGATTATCTTATCTCACGCAAATCGTTTACCTGTAACTATTCAATATCCTTATGAAAAATTAATCACATCGGAACGTTTCCGCGGTCGAATCCATTTTGAATTTGATAAATGCATTGCTTGTGAAGTATGTGTTCGTGTATGTCCTATAGATTTACCCGTTGTTGATTGGAAACTGGAAACTGATATTCGAAAGAAACGATTGCTAAATTACAGTATTGATTTCGGAATCTGTATTTTTTGTGGTAACTGTATTGAGTATTGCCCAACAAATTGTTTATCAATGACTGAAGAATATGAACTTTCAACTTATGATCGTCACGAATTGAACTATAATCAAATTGCTTTGGGCCGTTTACCAATGTCAGTAATTGATGATTATACAATTCGAACAATTCAAATAAAATAA

Protein sequence

>MsG0080048689.01.T01

MFLMVTGFMNYGQQTVRAARYIGQSFMIILSHANRLPVTIQYPYEKLITSERFRGRIHFEFDKCIACEVCVRVCPIDLPVVDWKLETDIRKKRLLNYSIDFGICIFCGNCIEYCPTNCLSMTEEYELSTYDRHELNYNQIALGRLPMSVIDDYTIRTIQIK*

>MsG0080048689.01.T03

MSVIDDYTIRTIQIK*

>MsG0080048689.01.T02

MIILSHANRLPVTIQYPYEKLITSERFRGRIHFEFDKCIACEVCVRVCPIDLPVVDWKLETDIRKKRLLNYSIDFGICIFCGNCIEYCPTNCLSMTEEYELSTYDRHELNYNQIALGRLPMSVIDDYTIRTIQIK*