AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058172

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058172.t1 MTR_2g035190 95.541 157 7 0 1 157 1 157 3.48e-106 300
MS.gene058172.t1 MTR_2g035320 94.268 157 9 0 1 157 1 157 6.44e-106 299
MS.gene058172.t1 MTR_2g035210 89.809 157 16 0 1 157 1 157 1.82e-100 285
MS.gene058172.t1 MTR_2g035220 88.535 157 18 0 1 157 1 157 8.20e-98 278
MS.gene058172.t1 MTR_6g033450 66.879 157 52 0 1 157 1 157 5.58e-70 208
MS.gene058172.t1 MTR_4g120970 66.879 157 52 0 1 157 1 157 5.58e-70 208
MS.gene058172.t1 MTR_2g035100 62.420 157 59 0 1 157 1 157 6.74e-67 201
MS.gene058172.t1 MTR_2g035105 61.783 157 60 0 1 157 1 157 5.57e-66 198
MS.gene058172.t1 MTR_2g035150 62.420 157 59 0 1 157 1 157 8.08e-66 198
MS.gene058172.t1 MTR_2g035130 60.510 157 62 0 1 157 1 157 1.25e-64 195
MS.gene058172.t1 MTR_2g035120 57.962 157 66 0 1 157 1 157 2.20e-61 186
MS.gene058172.t1 MTR_2g035320 88.000 100 12 0 58 157 23 122 2.80e-60 182
MS.gene058172.t1 MTR_2g035170 47.771 157 82 0 1 157 1 157 1.18e-48 154
MS.gene058172.t1 MTR_4g120950 41.615 161 87 5 1 157 1 158 1.82e-31 110
MS.gene058172.t1 MTR_4g120760 33.121 157 104 1 1 156 1 157 2.58e-29 105
MS.gene058172.t1 MTR_4g120760 33.121 157 104 1 1 156 1 157 2.58e-29 105
MS.gene058172.t1 MTR_2g435310 31.410 156 106 1 1 155 1 156 2.60e-29 105
MS.gene058172.t1 MTR_4g120940 63.014 73 27 0 85 157 47 119 1.41e-23 89.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 45 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTTAATTTGCTAGTAATT+AGG 0.154148 2.2:-53709712 None:intergenic
GTTTAATTTGCTAGTAATTA+GGG 0.258519 2.2:-53709711 None:intergenic
GGATAGCTTCTTAATAGTTC+CGG 0.311830 2.2:-53708823 None:intergenic
TACAGCTTAGTGGGAGGAAC+AGG 0.324066 2.2:+53709496 MS.gene058172:CDS
CTTGATAAGTCCAGTTCCTT+TGG 0.329858 2.2:-53709662 None:intergenic
TTCAACAATTTCAACACTTT+GGG 0.350751 2.2:-53708787 None:intergenic
CTTCAACAATTTCAACACTT+TGG 0.364915 2.2:-53708788 None:intergenic
TGGGCAGCAGAAATCACCTT+TGG 0.387864 2.2:-53708768 None:intergenic
AGATAGAGTTGCATCACCTT+TGG 0.394288 2.2:-53709614 None:intergenic
GATAGCTTCTTAATAGTTCC+GGG 0.397748 2.2:-53708822 None:intergenic
GTTGAAATTGTTGAAGGAAA+TGG 0.402462 2.2:+53708795 MS.gene058172:CDS
GAGACTAAGGCCAAAGGAAC+TGG 0.415366 2.2:+53709652 MS.gene058172:CDS
AGAGCCTTGTAGAGTTTAGC+TGG 0.426244 2.2:-53708720 None:intergenic
GGGCAGCAGAAATCACCTTT+GGG 0.449440 2.2:-53708767 None:intergenic
TGGATATAACTACAGCTTAG+TGG 0.476164 2.2:+53709486 MS.gene058172:CDS
AAAATTGTTGCTGGCTCTGA+TGG 0.476544 2.2:+53709556 MS.gene058172:CDS
GCAGTGGATGAGGCAAACTT+TGG 0.494243 2.2:+53709466 MS.gene058172:CDS
CAAATTAGATGCAGTGGATG+AGG 0.499478 2.2:+53709456 MS.gene058172:CDS
TAATTTGTGTAGCACAAAGT+TGG 0.501990 2.2:-53709440 None:intergenic
CAAAGTGTTGAAATTGTTGA+AGG 0.502542 2.2:+53708789 MS.gene058172:CDS
GGATATAACTACAGCTTAGT+GGG 0.506709 2.2:+53709487 MS.gene058172:CDS
ATCTGAATTACCTTCAACAA+TGG 0.509250 2.2:-53708844 None:intergenic
GGACTTATCAAGGCCATTGA+GGG 0.514208 2.2:+53709673 MS.gene058172:CDS
CAAAGGAACTGGACTTATCA+AGG 0.516806 2.2:+53709663 MS.gene058172:CDS
AAGAAGCTATCCATTGTTGA+AGG 0.523757 2.2:+53708834 MS.gene058172:CDS
AGCAGTACGTGAGGAGACTA+AGG 0.536209 2.2:+53709639 MS.gene058172:CDS
GAGTTGCATCACCTTTGGTA+TGG 0.537356 2.2:-53709609 None:intergenic
TGCCACGACGTAGCCCTCAA+TGG 0.549026 2.2:-53709686 None:intergenic
GGCTCCAGCTAAACTCTACA+AGG 0.556705 2.2:+53708716 MS.gene058172:CDS
ATTGTTGCTGGCTCTGATGG+TGG 0.570543 2.2:+53709559 MS.gene058172:CDS
TGGACTTATCAAGGCCATTG+AGG 0.572485 2.2:+53709672 MS.gene058172:CDS
GTTGAAGGAAATGGAGGACC+CGG 0.599694 2.2:+53708804 MS.gene058172:CDS
GTAGAGTTTAGCTGGAGCCA+CGG 0.602676 2.2:-53708712 None:intergenic
TGCTGATGAAATCGTCCCAA+AGG 0.606260 2.2:+53708752 MS.gene058172:CDS
CTTAGTGGGAGGAACAGGGT+TGG 0.609437 2.2:+53709501 MS.gene058172:CDS
GAAATTGTTGAAGGAAATGG+AGG 0.626795 2.2:+53708798 MS.gene058172:CDS
GCTACACAAATTAGATGCAG+TGG 0.633814 2.2:+53709450 MS.gene058172:CDS
TTTCACTGAAATCTTAACAA+CGG 0.637000 2.2:-53709584 None:intergenic
GGCCATTGAGGGCTACGTCG+TGG 0.646344 2.2:+53709684 MS.gene058172:CDS
TCAGTGAAATACCATACCAA+AGG 0.652605 2.2:+53709598 MS.gene058172:CDS
CGTGAGGAGACTAAGGCCAA+AGG 0.670663 2.2:+53709646 MS.gene058172:CDS
TCTATCTGAAGCAGTACGTG+AGG 0.676642 2.2:+53709630 MS.gene058172:CDS
ACAGCTTAGTGGGAGGAACA+GGG 0.680453 2.2:+53709497 MS.gene058172:CDS
TATAACTACAGCTTAGTGGG+AGG 0.697586 2.2:+53709490 MS.gene058172:CDS
TGACGAACATGTCTCAACCG+TGG 0.725590 2.2:+53708695 MS.gene058172:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTATATAAATAATTATAA+TGG + chr2.2:53709397-53709416 MS.gene058172:intron 0.0%
!!! AAATAAAAGTATAACATAAA+TGG - chr2.2:53709201-53709220 None:intergenic 10.0%
!!! TTTGTCAATTTTTAAATAAA+AGG - chr2.2:53708988-53709007 None:intergenic 10.0%
!!! TTTTATACCAAAAAAAAAAA+AGG + chr2.2:53709114-53709133 MS.gene058172:intron 10.0%
!!! TAATTTAACTTTCTTTTCTT+TGG - chr2.2:53709093-53709112 None:intergenic 15.0%
!!! TTAACTTCCTTTTTTTTTTT+TGG - chr2.2:53709124-53709143 None:intergenic 15.0%
!! AATAGTAATCCAATTCTATT+TGG + chr2.2:53709163-53709182 MS.gene058172:intron 20.0%
! AATAGAATCTTGAGAAATGA+AGG + chr2.2:53709224-53709243 MS.gene058172:intron 25.0%
! AGGGTTATGTCTAATAATTA+TGG + chr2.2:53709269-53709288 MS.gene058172:intron 25.0%
! ATAATTATTAGACATAACCC+TGG - chr2.2:53709270-53709289 None:intergenic 25.0%
! TATAATGGTTATATTGCAGA+TGG + chr2.2:53709412-53709431 MS.gene058172:intron 25.0%
! TTCAACAATTTCAACACTTT+GGG - chr2.2:53708790-53708809 None:intergenic 25.0%
! TTCAGATGATTATTGATACT+CGG + chr2.2:53709308-53709327 MS.gene058172:intron 25.0%
! TTTCACTGAAATCTTAACAA+CGG - chr2.2:53709587-53709606 None:intergenic 25.0%
!!! CATCTGAATCATTTTTTTGA+AGG - chr2.2:53709296-53709315 None:intergenic 25.0%
ATCTGAATTACCTTCAACAA+TGG - chr2.2:53708847-53708866 None:intergenic 30.0%
CATGACTATCCAAATAGAAT+TGG - chr2.2:53709175-53709194 None:intergenic 30.0%
CTTCAACAATTTCAACACTT+TGG - chr2.2:53708791-53708810 None:intergenic 30.0%
GTTGAAATTGTTGAAGGAAA+TGG + chr2.2:53708795-53708814 MS.gene058172:CDS 30.0%
! TAATTTGTGTAGCACAAAGT+TGG - chr2.2:53709443-53709462 None:intergenic 30.0%
! TTTGAGACAAAAATTGTTGC+TGG + chr2.2:53709547-53709566 MS.gene058172:CDS 30.0%
!! CAAAGTGTTGAAATTGTTGA+AGG + chr2.2:53708789-53708808 MS.gene058172:CDS 30.0%
AAGAAGCTATCCATTGTTGA+AGG + chr2.2:53708834-53708853 MS.gene058172:CDS 35.0%
ATAATACATAAGCTCGTTCC+AGG + chr2.2:53709249-53709268 MS.gene058172:intron 35.0%
GAAATTGTTGAAGGAAATGG+AGG + chr2.2:53708798-53708817 MS.gene058172:CDS 35.0%
GACAAACATGATGTGACAAA+TGG + chr2.2:53709002-53709021 MS.gene058172:intron 35.0%
GATAGCTTCTTAATAGTTCC+GGG - chr2.2:53708825-53708844 None:intergenic 35.0%
GGATAGCTTCTTAATAGTTC+CGG - chr2.2:53708826-53708845 None:intergenic 35.0%
GGATATAACTACAGCTTAGT+GGG + chr2.2:53709487-53709506 MS.gene058172:CDS 35.0%
TAATACATAAGCTCGTTCCA+GGG + chr2.2:53709250-53709269 MS.gene058172:intron 35.0%
TCAGTGAAATACCATACCAA+AGG + chr2.2:53709598-53709617 MS.gene058172:CDS 35.0%
TGGATATAACTACAGCTTAG+TGG + chr2.2:53709486-53709505 MS.gene058172:CDS 35.0%
! GTTGTACCGACAAATTTGAT+CGG - chr2.2:53708948-53708967 None:intergenic 35.0%
!! CGGTCTAAAACAATTTTACG+CGG - chr2.2:53708921-53708940 None:intergenic 35.0%
AGATAGAGTTGCATCACCTT+TGG - chr2.2:53709617-53709636 None:intergenic 40.0%
CAAAGGAACTGGACTTATCA+AGG + chr2.2:53709663-53709682 MS.gene058172:CDS 40.0%
CAAATTAGATGCAGTGGATG+AGG + chr2.2:53709456-53709475 MS.gene058172:CDS 40.0%
CGACAAATTTGATCGGTTGT+CGG - chr2.2:53708941-53708960 None:intergenic 40.0%
CGACAACCGATCAAATTTGT+CGG + chr2.2:53708939-53708958 MS.gene058172:intron 40.0%
CTTGATAAGTCCAGTTCCTT+TGG - chr2.2:53709665-53709684 None:intergenic 40.0%
GCTACACAAATTAGATGCAG+TGG + chr2.2:53709450-53709469 MS.gene058172:CDS 40.0%
TATAACTACAGCTTAGTGGG+AGG + chr2.2:53709490-53709509 MS.gene058172:CDS 40.0%
!! AAAATTGTTGCTGGCTCTGA+TGG + chr2.2:53709556-53709575 MS.gene058172:CDS 40.0%
GAGTTGCATCACCTTTGGTA+TGG - chr2.2:53709612-53709631 None:intergenic 45.0%
GGACTTATCAAGGCCATTGA+GGG + chr2.2:53709673-53709692 MS.gene058172:CDS 45.0%
TGCTGATGAAATCGTCCCAA+AGG + chr2.2:53708752-53708771 MS.gene058172:CDS 45.0%
TGGACTTATCAAGGCCATTG+AGG + chr2.2:53709672-53709691 MS.gene058172:CDS 45.0%
! AGAGCCTTGTAGAGTTTAGC+TGG - chr2.2:53708723-53708742 None:intergenic 45.0%
! TCTATCTGAAGCAGTACGTG+AGG + chr2.2:53709630-53709649 MS.gene058172:CDS 45.0%
ACAGCTTAGTGGGAGGAACA+GGG + chr2.2:53709497-53709516 MS.gene058172:CDS 50.0%
AGCAGTACGTGAGGAGACTA+AGG + chr2.2:53709639-53709658 MS.gene058172:CDS 50.0%
GAGACTAAGGCCAAAGGAAC+TGG + chr2.2:53709652-53709671 MS.gene058172:CDS 50.0%
GCAGTGGATGAGGCAAACTT+TGG + chr2.2:53709466-53709485 MS.gene058172:CDS 50.0%
GGCTCCAGCTAAACTCTACA+AGG + chr2.2:53708716-53708735 MS.gene058172:CDS 50.0%
GGGCAGCAGAAATCACCTTT+GGG - chr2.2:53708770-53708789 None:intergenic 50.0%
GTAGAGTTTAGCTGGAGCCA+CGG - chr2.2:53708715-53708734 None:intergenic 50.0%
GTTGAAGGAAATGGAGGACC+CGG + chr2.2:53708804-53708823 MS.gene058172:CDS 50.0%
TACAGCTTAGTGGGAGGAAC+AGG + chr2.2:53709496-53709515 MS.gene058172:CDS 50.0%
TGACGAACATGTCTCAACCG+TGG + chr2.2:53708695-53708714 MS.gene058172:CDS 50.0%
TGGGCAGCAGAAATCACCTT+TGG - chr2.2:53708771-53708790 None:intergenic 50.0%
!! ATTGTTGCTGGCTCTGATGG+TGG + chr2.2:53709559-53709578 MS.gene058172:CDS 50.0%
CGTGAGGAGACTAAGGCCAA+AGG + chr2.2:53709646-53709665 MS.gene058172:CDS 55.0%
CTTAGTGGGAGGAACAGGGT+TGG + chr2.2:53709501-53709520 MS.gene058172:CDS 55.0%
TGCCACGACGTAGCCCTCAA+TGG - chr2.2:53709689-53709708 None:intergenic 60.0%
GGCCATTGAGGGCTACGTCG+TGG + chr2.2:53709684-53709703 MS.gene058172:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 53708675 53709723 53708675 ID=MS.gene058172
chr2.2 mRNA 53708675 53709723 53708675 ID=MS.gene058172.t1;Parent=MS.gene058172
chr2.2 exon 53708675 53708855 53708675 ID=MS.gene058172.t1.exon1;Parent=MS.gene058172.t1
chr2.2 CDS 53708675 53708855 53708675 ID=cds.MS.gene058172.t1;Parent=MS.gene058172.t1
chr2.2 exon 53709431 53709723 53709431 ID=MS.gene058172.t1.exon2;Parent=MS.gene058172.t1
chr2.2 CDS 53709431 53709723 53709431 ID=cds.MS.gene058172.t1;Parent=MS.gene058172.t1
Gene Sequence

>MS.gene058172

ATGGGTGTTTTTACTTTCAATGACGAACATGTCTCAACCGTGGCTCCAGCTAAACTCTACAAGGCTCTTGCAAAAGATGCTGATGAAATCGTCCCAAAGGTGATTTCTGCTGCCCAAAGTGTTGAAATTGTTGAAGGAAATGGAGGACCCGGAACTATTAAGAAGCTATCCATTGTTGAAGGTAATTCAGATCATATACTATGTAGAAATATATAATACTTGAGATCAAATGATACATAGTGTCCGCGTAAAATTGTTTTAGACCGACAACCGATCAAATTTGTCGGTACAACAAAGAATAGTGTAACTACCTTTTATTTAAAAATTGACAAACATGATGTGACAAATGGAAGAGTTGCAATTGATTAATAATTTGATTAAATGATTCACAAATATGTAAGTTAAATTCATTATACCAAAGAAAAGAAAGTTAAATTAATTTTATACCAAAAAAAAAAAAGGAAGTTAAATACAACTGTAGCAAAAAAAATAGTAATCCAATTCTATTTGGATAGTCATGAAGCCATTTATGTTATACTTTTATTTTAAAATAGAATCTTGAGAAATGAAGGAGATAATACATAAGCTCGTTCCAGGGTTATGTCTAATAATTATGGACCTTCAAAAAAATGATTCAGATGATTATTGATACTCGGTAAAGTTCAAATCGATCTTTAACATAAAGAGTTTTTAGTCAAACTTTACTTATATTGAAAAAAAAATATTATATAAATAATTATAATGGTTATATTGCAGATGGCAAAACCAACTTTGTGCTACACAAATTAGATGCAGTGGATGAGGCAAACTTTGGATATAACTACAGCTTAGTGGGAGGAACAGGGTTGGATGAAAATTTAGAGAAAGTTGAATTTGAGACAAAAATTGTTGCTGGCTCTGATGGTGGATCCGTTGTTAAGATTTCAGTGAAATACCATACCAAAGGTGATGCAACTCTATCTGAAGCAGTACGTGAGGAGACTAAGGCCAAAGGAACTGGACTTATCAAGGCCATTGAGGGCTACGTCGTGGCAAACCCTAATTACTAG
Protein sequence

>MS.gene058172.t1

MGVFTFNDEHVSTVAPAKLYKALAKDADEIVPKVISAAQSVEIVEGNGGPGTIKKLSIVEDGKTNFVLHKLDAVDEANFGYNYSLVGGTGLDENLEKVEFETKIVAGSDGGSVVKISVKYHTKGDATLSEAVREETKAKGTGLIKAIEGYVVANPNY