AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007041.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007041.01.T04 MTR_4g051110 96.429 84 3 0 1 84 140 223 1.16e-54 169
MsG0280007041.01.T04 MTR_7g116690 89.286 84 9 0 1 84 114 197 1.45e-49 156
MsG0280007041.01.T04 MTR_0002s0530 73.034 89 24 0 1 89 140 228 5.95e-41 140
MsG0280007041.01.T04 MTR_3g029540 95.349 43 2 0 32 74 44 86 8.36e-24 87.0
MsG0280007041.01.T02 MTR_4g051110 96.682 211 7 0 1 211 13 223 9.07e-154 426
MsG0280007041.01.T02 MTR_0002s0530 75.926 216 52 0 1 216 13 228 7.03e-121 352
MsG0280007041.01.T02 MTR_7g116690 77.725 211 21 2 1 211 13 197 3.91e-113 322
MsG0280007041.01.T02 MTR_4g046723 65.957 94 8 1 1 94 13 82 1.39e-34 125
MsG0280007041.01.T02 MTR_3g029540 95.349 43 2 0 159 201 44 86 3.52e-23 89.7
MsG0280007041.01.T01 MTR_4g051110 96.861 223 7 0 1 223 1 223 6.28e-164 452
MsG0280007041.01.T01 MTR_0002s0530 75.439 228 56 0 1 228 1 228 2.09e-128 372
MsG0280007041.01.T01 MTR_7g116690 78.924 223 21 2 1 223 1 197 1.02e-123 350
MsG0280007041.01.T01 MTR_4g046723 67.925 106 10 1 1 106 1 82 4.60e-43 147
MsG0280007041.01.T01 MTR_3g029540 95.349 43 2 0 171 213 44 86 4.11e-23 89.7
MsG0280007041.01.T03 MTR_4g051110 97.500 120 3 0 1 120 104 223 3.39e-83 244
MsG0280007041.01.T03 MTR_7g116690 89.524 105 11 0 16 120 93 197 3.82e-63 192
MsG0280007041.01.T03 MTR_0002s0530 70.635 126 37 0 1 126 104 229 5.74e-59 189
MsG0280007041.01.T03 MTR_3g029540 95.349 43 2 0 68 110 44 86 9.13e-24 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007041.01.T04 ATCG00160 90.476 84 8 0 1 84 140 223 5.21e-50 158
MsG0280007041.01.T02 ATCG00160 89.100 211 23 0 1 211 13 223 1.72e-139 390
MsG0280007041.01.T01 ATCG00160 88.789 223 25 0 1 223 1 223 6.08e-148 412
MsG0280007041.01.T03 ATCG00160 87.500 120 15 0 1 120 104 223 4.94e-72 215

Find 37 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTCATTTGGAAACATATC+TGG 0.181531 2:+9790709 MsG0280007041.01.T01:CDS
TTACGCTTTGCCGATATAAA+AGG 0.251568 2:-9790371 None:intergenic
ATGGAAGCTGGAGTTCATTT+TGG 0.255790 2:+9790314 MsG0280007041.01.T01:CDS
CAAGAGACAATTATCTCATT+TGG 0.294663 2:+9790697 MsG0280007041.01.T01:CDS
ATCAACGATTATTACAATAT+CGG 0.341941 2:-9790759 None:intergenic
TTTATCAGAAGCTTGTGATT+TGG 0.358806 2:+9790433 MsG0280007041.01.T01:CDS
CTAATTTGTTAAGAATTAAT+CGG 0.359442 2:-9790916 None:intergenic
ATCGAAATATCTGCTAGATC+TGG 0.363586 2:-9790863 None:intergenic
CTTCGAGAATGTATCACTTT+GGG 0.388824 2:+9790803 MsG0280007041.01.T01:CDS
GGAAAACAATTCTTAATTGT+TGG 0.390734 2:+9790476 MsG0280007041.01.T01:CDS
AAACGAGACTTCGTAAGTTC+AGG 0.412190 2:+9790609 MsG0280007041.01.T01:CDS
TGCAGCCCGTGTTACTGAAT+CGG 0.431042 2:-9790516 None:intergenic
TGATCAGCAAGAAGAATATA+CGG 0.437056 2:+9790778 MsG0280007041.01.T01:CDS
TCGGAGGTATGTTAACGAAT+TGG 0.448395 2:+9790576 MsG0280007041.01.T01:CDS
TTGGCCATGATACTCGGAAA+TGG 0.459897 2:+9790333 MsG0280007041.01.T01:CDS
TCTTCGAGAATGTATCACTT+TGG 0.477646 2:+9790802 MsG0280007041.01.T01:CDS
AACGAGACTTCGTAAGTTCA+GGG 0.478021 2:+9790610 MsG0280007041.01.T01:CDS
TCAACGATTATTACAATATC+GGG 0.480431 2:-9790758 None:intergenic
TTGAGAACGGAGCAAAAGAC+AGG 0.482432 2:+9790635 MsG0280007041.01.T01:CDS
GATTCCATTTCCGAGTATCA+TGG 0.488914 2:-9790337 None:intergenic
TTTGAAGAGATGATGGAAGC+TGG 0.489132 2:+9790302 MsG0280007041.01.T01:CDS
GTATCGATTAAACAAATCGT+TGG 0.491426 2:-9790830 None:intergenic
GCTATAGCATCATCATTAGC+TGG 0.518853 2:-9790887 None:intergenic
TCGAAATATCTGCTAGATCT+GGG 0.525094 2:-9790862 None:intergenic
TTTATATCGGCAAAGCGTAA+AGG 0.529937 2:+9790374 MsG0280007041.01.T01:CDS
GATATAAAAGGTGCCATTCG+AGG 0.542260 2:-9790359 None:intergenic
TCTCATTTGGAAACATATCT+GGG 0.550552 2:+9790710 MsG0280007041.01.T01:CDS
GGGTGGCATAAAATATATGA+CGG 0.585418 2:+9790730 MsG0280007041.01.T01:CDS
TAAGTTCAGGGACTTGAGAA+CGG 0.589134 2:+9790622 MsG0280007041.01.T01:CDS
GGTGGCATAAAATATATGAC+GGG 0.610359 2:+9790731 MsG0280007041.01.T01:CDS
AGCAGCCGATTCAGTAACAC+GGG 0.610911 2:+9790511 MsG0280007041.01.T01:CDS
TCGGAAATGGAATCCTCGAA+TGG 0.635386 2:+9790346 MsG0280007041.01.T01:CDS
AAGCAGCCGATTCAGTAACA+CGG 0.653513 2:+9790510 MsG0280007041.01.T01:CDS
TGAGAACGGAGCAAAAGACA+GGG 0.670658 2:+9790636 MsG0280007041.01.T01:CDS
CATTTGGAAACATATCTGGG+TGG 0.732935 2:+9790713 MsG0280007041.01.T01:CDS
GTGGCATAAAATATATGACG+GGG 0.737363 2:+9790732 MsG0280007041.01.T01:CDS
TAATTGTCTCTTGAACATAG+CGG 0.783646 2:-9790687 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTCATTATGTTAATAAAAAA+TGG + Chr2:9790552-9790571 MsG0280007041.01.T01:CDS 15.0%
!!! CTAATTTGTTAAGAATTAAT+CGG - Chr2:9790919-9790938 None:intergenic 15.0%
!! ATCAACGATTATTACAATAT+CGG - Chr2:9790762-9790781 None:intergenic 20.0%
!! TATGTTAATAAAAAATGGCT+CGG + Chr2:9790557-9790576 MsG0280007041.01.T01:CDS 20.0%
! GGAAAACAATTCTTAATTGT+TGG + Chr2:9790476-9790495 MsG0280007041.01.T01:CDS 25.0%
! TCAACGATTATTACAATATC+GGG - Chr2:9790761-9790780 None:intergenic 25.0%
!!! AATTAGTTTTGCAATTTGTG+AGG + Chr2:9790933-9790952 MsG0280007041.01.T01:CDS 25.0%
!!! ATTAGTTTTGCAATTTGTGA+GGG + Chr2:9790934-9790953 MsG0280007041.01.T01:CDS 25.0%
ATCTCATTTGGAAACATATC+TGG + Chr2:9790709-9790728 MsG0280007041.01.T01:CDS 30.0%
CAAGAGACAATTATCTCATT+TGG + Chr2:9790697-9790716 MsG0280007041.01.T01:CDS 30.0%
TAATTGTCTCTTGAACATAG+CGG - Chr2:9790690-9790709 None:intergenic 30.0%
TCTCATTTGGAAACATATCT+GGG + Chr2:9790710-9790729 MsG0280007041.01.T01:CDS 30.0%
TGATCAGCAAGAAGAATATA+CGG + Chr2:9790778-9790797 MsG0280007041.01.T01:CDS 30.0%
TTTATCAGAAGCTTGTGATT+TGG + Chr2:9790433-9790452 MsG0280007041.01.T01:CDS 30.0%
!! CATAACTTTTGAAGAGATGA+TGG + Chr2:9790295-9790314 MsG0280007041.01.T01:CDS 30.0%
!! GTATCGATTAAACAAATCGT+TGG - Chr2:9790833-9790852 None:intergenic 30.0%
ATCGAAATATCTGCTAGATC+TGG - Chr2:9790866-9790885 None:intergenic 35.0%
CTTCGAGAATGTATCACTTT+GGG + Chr2:9790803-9790822 MsG0280007041.01.T01:CDS 35.0%
GGGTGGCATAAAATATATGA+CGG + Chr2:9790730-9790749 MsG0280007041.01.T01:CDS 35.0%
GGTGGCATAAAATATATGAC+GGG + Chr2:9790731-9790750 MsG0280007041.01.T01:CDS 35.0%
GTGGCATAAAATATATGACG+GGG + Chr2:9790732-9790751 MsG0280007041.01.T01:CDS 35.0%
TCGAAATATCTGCTAGATCT+GGG - Chr2:9790865-9790884 None:intergenic 35.0%
TCTTCGAGAATGTATCACTT+TGG + Chr2:9790802-9790821 MsG0280007041.01.T01:CDS 35.0%
TTACGCTTTGCCGATATAAA+AGG - Chr2:9790374-9790393 None:intergenic 35.0%
TTTATATCGGCAAAGCGTAA+AGG + Chr2:9790374-9790393 MsG0280007041.01.T01:CDS 35.0%
! GTTAATAAAAAATGGCTCGG+AGG + Chr2:9790560-9790579 MsG0280007041.01.T01:CDS 35.0%
! TCGAATGGCACCTTTTATAT+CGG + Chr2:9790361-9790380 MsG0280007041.01.T01:CDS 35.0%
!! TTCATTTTGGCCATGATACT+CGG + Chr2:9790327-9790346 MsG0280007041.01.T01:CDS 35.0%
AAACGAGACTTCGTAAGTTC+AGG + Chr2:9790609-9790628 MsG0280007041.01.T01:CDS 40.0%
AACGAGACTTCGTAAGTTCA+GGG + Chr2:9790610-9790629 MsG0280007041.01.T01:CDS 40.0%
CATTTGGAAACATATCTGGG+TGG + Chr2:9790713-9790732 MsG0280007041.01.T01:CDS 40.0%
GATTCCATTTCCGAGTATCA+TGG - Chr2:9790340-9790359 None:intergenic 40.0%
GCTATAGCATCATCATTAGC+TGG - Chr2:9790890-9790909 None:intergenic 40.0%
TAAGTTCAGGGACTTGAGAA+CGG + Chr2:9790622-9790641 MsG0280007041.01.T01:CDS 40.0%
! AACATAGCGGCATCTCTTTT+TGG - Chr2:9790677-9790696 None:intergenic 40.0%
! ATGGAAGCTGGAGTTCATTT+TGG + Chr2:9790314-9790333 MsG0280007041.01.T01:CDS 40.0%
! GTTTTTGATGCAGCAAGCAT+GGG + Chr2:9790455-9790474 MsG0280007041.01.T01:CDS 40.0%
! TCGGAGGTATGTTAACGAAT+TGG + Chr2:9790576-9790595 MsG0280007041.01.T01:CDS 40.0%
!! GATATAAAAGGTGCCATTCG+AGG - Chr2:9790362-9790381 None:intergenic 40.0%
!! TTTGAAGAGATGATGGAAGC+TGG + Chr2:9790302-9790321 MsG0280007041.01.T01:CDS 40.0%
TCGGAAATGGAATCCTCGAA+TGG + Chr2:9790346-9790365 MsG0280007041.01.T01:CDS 45.0%
TGAGAACGGAGCAAAAGACA+GGG + Chr2:9790636-9790655 MsG0280007041.01.T01:CDS 45.0%
TTGAGAACGGAGCAAAAGAC+AGG + Chr2:9790635-9790654 MsG0280007041.01.T01:CDS 45.0%
TTGGCCATGATACTCGGAAA+TGG + Chr2:9790333-9790352 MsG0280007041.01.T01:CDS 45.0%
! AAGCAGCCGATTCAGTAACA+CGG + Chr2:9790510-9790529 MsG0280007041.01.T01:CDS 45.0%
! GGTTTTTGATGCAGCAAGCA+TGG + Chr2:9790454-9790473 MsG0280007041.01.T01:CDS 45.0%
! AGCAGCCGATTCAGTAACAC+GGG + Chr2:9790511-9790530 MsG0280007041.01.T01:CDS 50.0%
! TGCAGCCCGTGTTACTGAAT+CGG - Chr2:9790519-9790538 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr2 gene 9790275 9790988 9790275 ID=MsG0280007041.01;Name=MsG0280007041.01
Chr2 mRNA 9790275 9790988 9790275 ID=MsG0280007041.01.T01;Parent=MsG0280007041.01;Name=MsG0280007041.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|237
Chr2 exon 9790275 9790988 9790275 ID=MsG0280007041.01.T01:exon:2786;Parent=MsG0280007041.01.T01
Chr2 CDS 9790275 9790988 9790275 ID=MsG0280007041.01.T01:cds;Parent=MsG0280007041.01.T01
Chr2 mRNA 9790311 9790988 9790311 ID=MsG0280007041.01.T02;Parent=MsG0280007041.01;Name=MsG0280007041.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|225
Chr2 exon 9790311 9790988 9790311 ID=MsG0280007041.01.T02:exon:2787;Parent=MsG0280007041.01.T02
Chr2 CDS 9790311 9790988 9790311 ID=MsG0280007041.01.T02:cds;Parent=MsG0280007041.01.T02
Chr2 mRNA 9790584 9790988 9790584 ID=MsG0280007041.01.T03;Parent=MsG0280007041.01;Name=MsG0280007041.01.T03;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|134
Chr2 exon 9790584 9790988 9790584 ID=MsG0280007041.01.T03:exon:2788;Parent=MsG0280007041.01.T03
Chr2 CDS 9790584 9790988 9790584 ID=MsG0280007041.01.T03:cds;Parent=MsG0280007041.01.T03
Chr2 mRNA 9790692 9790988 9790692 ID=MsG0280007041.01.T04;Parent=MsG0280007041.01;Name=MsG0280007041.01.T04;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|98
Chr2 exon 9790692 9790988 9790692 ID=MsG0280007041.01.T04:exon:2789;Parent=MsG0280007041.01.T04
Chr2 CDS 9790692 9790988 9790692 ID=MsG0280007041.01.T04:cds;Parent=MsG0280007041.01.T04
Gene Sequence

>MsG0280007041.01.T04

ATGTTCAAGAGACAATTATCTCATTTGGAAACATATCTGGGTGGCATAAAATATATGACGGGGTTACCCGATATTGTAATAATCGTTGATCAGCAAGAAGAATATACGGCTCTTCGAGAATGTATCACTTTGGGAATTCCAACGATTTGTTTAATCGATACAAATTGTGACCCAGATCTAGCAGATATTTCGATTCCAGCTAATGATGATGCTATAGCTTCAATCCGATTAATTCTTAACAAATTAGTTTTGCAATTTGTGAGGGTCGTTCTAGCTATATACGAAATTTTTGATTAA

>MsG0280007041.01.T02

ATGATGGAAGCTGGAGTTCATTTTGGCCATGATACTCGGAAATGGAATCCTCGAATGGCACCTTTTATATCGGCAAAGCGTAAAGGTATTCATATTACAAATCTTACTCGAACTGCTCGTTTTTTATCAGAAGCTTGTGATTTGGTTTTTGATGCAGCAAGCATGGGAAAACAATTCTTAATTGTTGGTACAAAAAAAAAAGCAGCCGATTCAGTAACACGGGCTGCAATAAGAGCTCGATGTCATTATGTTAATAAAAAATGGCTCGGAGGTATGTTAACGAATTGGTATACTACAGAAACGAGACTTCGTAAGTTCAGGGACTTGAGAACGGAGCAAAAGACAGGGAAACTGAACTCTCTTCCAAAAAGAGATGCCGCTATGTTCAAGAGACAATTATCTCATTTGGAAACATATCTGGGTGGCATAAAATATATGACGGGGTTACCCGATATTGTAATAATCGTTGATCAGCAAGAAGAATATACGGCTCTTCGAGAATGTATCACTTTGGGAATTCCAACGATTTGTTTAATCGATACAAATTGTGACCCAGATCTAGCAGATATTTCGATTCCAGCTAATGATGATGCTATAGCTTCAATCCGATTAATTCTTAACAAATTAGTTTTGCAATTTGTGAGGGTCGTTCTAGCTATATACGAAATTTTTGATTAA

>MsG0280007041.01.T01

ATGACAAAAAGATATTGGAACATAACTTTTGAAGAGATGATGGAAGCTGGAGTTCATTTTGGCCATGATACTCGGAAATGGAATCCTCGAATGGCACCTTTTATATCGGCAAAGCGTAAAGGTATTCATATTACAAATCTTACTCGAACTGCTCGTTTTTTATCAGAAGCTTGTGATTTGGTTTTTGATGCAGCAAGCATGGGAAAACAATTCTTAATTGTTGGTACAAAAAAAAAAGCAGCCGATTCAGTAACACGGGCTGCAATAAGAGCTCGATGTCATTATGTTAATAAAAAATGGCTCGGAGGTATGTTAACGAATTGGTATACTACAGAAACGAGACTTCGTAAGTTCAGGGACTTGAGAACGGAGCAAAAGACAGGGAAACTGAACTCTCTTCCAAAAAGAGATGCCGCTATGTTCAAGAGACAATTATCTCATTTGGAAACATATCTGGGTGGCATAAAATATATGACGGGGTTACCCGATATTGTAATAATCGTTGATCAGCAAGAAGAATATACGGCTCTTCGAGAATGTATCACTTTGGGAATTCCAACGATTTGTTTAATCGATACAAATTGTGACCCAGATCTAGCAGATATTTCGATTCCAGCTAATGATGATGCTATAGCTTCAATCCGATTAATTCTTAACAAATTAGTTTTGCAATTTGTGAGGGTCGTTCTAGCTATATACGAAATTTTTGATTAA

>MsG0280007041.01.T03

ATGTTAACGAATTGGTATACTACAGAAACGAGACTTCGTAAGTTCAGGGACTTGAGAACGGAGCAAAAGACAGGGAAACTGAACTCTCTTCCAAAAAGAGATGCCGCTATGTTCAAGAGACAATTATCTCATTTGGAAACATATCTGGGTGGCATAAAATATATGACGGGGTTACCCGATATTGTAATAATCGTTGATCAGCAAGAAGAATATACGGCTCTTCGAGAATGTATCACTTTGGGAATTCCAACGATTTGTTTAATCGATACAAATTGTGACCCAGATCTAGCAGATATTTCGATTCCAGCTAATGATGATGCTATAGCTTCAATCCGATTAATTCTTAACAAATTAGTTTTGCAATTTGTGAGGGTCGTTCTAGCTATATACGAAATTTTTGATTAA

Protein sequence

>MsG0280007041.01.T04

MFKRQLSHLETYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLIDTNCDPDLADISIPANDDAIASIRLILNKLVLQFVRVVLAIYEIFD*

>MsG0280007041.01.T02

MMEAGVHFGHDTRKWNPRMAPFISAKRKGIHITNLTRTARFLSEACDLVFDAASMGKQFLIVGTKKKAADSVTRAAIRARCHYVNKKWLGGMLTNWYTTETRLRKFRDLRTEQKTGKLNSLPKRDAAMFKRQLSHLETYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLIDTNCDPDLADISIPANDDAIASIRLILNKLVLQFVRVVLAIYEIFD*

>MsG0280007041.01.T01

MTKRYWNITFEEMMEAGVHFGHDTRKWNPRMAPFISAKRKGIHITNLTRTARFLSEACDLVFDAASMGKQFLIVGTKKKAADSVTRAAIRARCHYVNKKWLGGMLTNWYTTETRLRKFRDLRTEQKTGKLNSLPKRDAAMFKRQLSHLETYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLIDTNCDPDLADISIPANDDAIASIRLILNKLVLQFVRVVLAIYEIFD*

>MsG0280007041.01.T03

MLTNWYTTETRLRKFRDLRTEQKTGKLNSLPKRDAAMFKRQLSHLETYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTICLIDTNCDPDLADISIPANDDAIASIRLILNKLVLQFVRVVLAIYEIFD*