AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene90603

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90603.t1 MTR_5g047190 93.182 44 3 0 1 44 1 44 5.82e-23 83.2
MS.gene90603.t1 MTR_4g077970 61.538 52 20 0 1 52 20 71 4.07e-17 72.8
MS.gene90603.t1 MTR_2g017890 65.385 52 18 0 1 52 23 74 4.35e-17 72.8
MS.gene90603.t1 MTR_5g029680 59.615 52 21 0 1 52 40 91 6.46e-17 72.4
MS.gene90603.t1 MTR_5g017470 61.538 52 20 0 1 52 17 68 4.75e-16 69.3
MS.gene90603.t1 MTR_8g087540 59.615 52 21 0 1 52 20 71 7.22e-16 69.3
MS.gene90603.t1 MTR_8g083100 61.538 52 20 0 1 52 30 81 8.08e-16 69.3
MS.gene90603.t1 MTR_5g010680 55.769 52 23 0 1 52 32 83 1.76e-15 68.2
MS.gene90603.t1 MTR_6g043060 59.615 52 21 0 1 52 30 81 2.27e-15 67.8
MS.gene90603.t1 MTR_8g105780 67.925 53 16 1 1 52 30 82 2.31e-15 67.8
MS.gene90603.t1 MTR_7g095680 57.692 52 22 0 1 52 57 108 3.19e-15 67.4
MS.gene90603.t1 MTR_4g045757 59.184 49 20 0 2 50 23 71 3.67e-15 62.8
MS.gene90603.t1 MTR_2g100680 63.462 52 19 0 1 52 39 90 1.03e-14 66.2
MS.gene90603.t1 MTR_1g100777 57.692 52 22 0 1 52 26 77 1.14e-14 65.5
MS.gene90603.t1 MTR_5g089170 55.769 52 23 0 1 52 33 84 1.67e-14 64.7
MS.gene90603.t1 MTR_3g104550 55.769 52 23 0 1 52 54 105 2.27e-14 65.1
MS.gene90603.t1 MTR_3g101870 53.846 52 24 0 1 52 32 83 6.48e-14 63.9
MS.gene90603.t1 MTR_0020s0020 53.846 52 24 0 1 52 41 92 1.46e-13 62.8
MS.gene90603.t1 MTR_1g061170 53.846 52 24 0 1 52 57 108 1.74e-13 62.8
MS.gene90603.t1 MTR_7g091370 50.000 52 26 0 1 52 30 81 2.05e-13 61.6
MS.gene90603.t1 MTR_2g100670 57.692 52 22 0 1 52 149 200 2.22e-13 62.4
MS.gene90603.t1 MTR_2g100670 57.692 52 22 0 1 52 41 92 2.24e-13 62.0
MS.gene90603.t1 MTR_1g071360 51.923 52 25 0 1 52 37 88 2.73e-13 62.0
MS.gene90603.t1 MTR_1g071360 51.923 52 25 0 1 52 40 91 4.87e-13 61.2
MS.gene90603.t1 MTR_6g086805 50.000 52 26 0 1 52 19 70 1.34e-12 60.1
MS.gene90603.t1 MTR_1g102860 51.923 52 25 0 1 52 48 99 1.67e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene90603.t1 AT3G02990 59.615 52 21 0 1 52 31 82 5.95e-17 72.4
MS.gene90603.t1 AT4G17750 61.538 52 20 0 1 52 60 111 6.43e-17 72.4
MS.gene90603.t1 AT5G62020 63.462 52 19 0 1 52 31 82 8.51e-17 71.2
MS.gene90603.t1 AT1G32330 65.385 52 18 0 1 52 45 96 1.21e-16 71.6
MS.gene90603.t1 AT1G32330 65.385 52 18 0 1 52 45 96 1.22e-16 71.6
MS.gene90603.t1 AT4G13980 65.385 52 18 0 1 52 31 82 3.23e-16 70.5
MS.gene90603.t1 AT4G11660 55.769 52 23 0 1 52 67 118 5.42e-16 69.7
MS.gene90603.t1 AT5G54070 53.846 52 24 0 1 52 79 130 5.92e-16 69.3
MS.gene90603.t1 AT5G16820 55.769 52 23 0 1 52 35 86 1.04e-15 68.9
MS.gene90603.t1 AT5G16820 55.769 52 23 0 1 52 35 86 1.04e-15 68.9
MS.gene90603.t1 AT2G26150 57.692 52 22 0 1 52 52 103 1.49e-15 68.2
MS.gene90603.t1 AT2G26150 57.692 52 22 0 1 52 52 103 1.49e-15 68.2
MS.gene90603.t1 AT4G36990 53.846 52 24 0 1 52 22 73 7.80e-15 65.9
MS.gene90603.t1 AT3G24520 53.846 52 24 0 1 52 25 76 5.06e-14 63.9
MS.gene90603.t1 AT1G46264 51.923 52 25 0 1 52 42 93 8.82e-14 63.5
MS.gene90603.t1 AT3G22830 55.769 52 23 0 1 52 69 120 1.57e-13 62.8
MS.gene90603.t1 AT1G67970 58.491 53 21 1 1 52 27 79 5.38e-13 61.2
MS.gene90603.t1 AT5G43840 57.692 52 22 0 1 52 27 78 5.79e-13 60.8
MS.gene90603.t1 AT5G03720 50.000 52 26 0 1 52 63 114 1.06e-12 60.5
MS.gene90603.t1 AT5G03720 50.000 52 26 0 1 52 63 114 1.06e-12 60.5
MS.gene90603.t1 AT2G41690 51.923 52 25 0 1 52 48 99 2.34e-12 58.9
MS.gene90603.t1 AT3G51910 51.923 52 25 0 1 52 37 88 4.11e-12 58.5
MS.gene90603.t1 AT3G63350 50.000 52 26 0 1 52 36 87 4.63e-12 58.5
MS.gene90603.t1 AT5G45710 60.976 41 16 0 12 52 32 72 4.92e-12 58.5
MS.gene90603.t1 AT5G45710 60.976 41 16 0 12 52 32 72 4.92e-12 58.5

Find 6 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAACTGATTCCATTATTTCC+TGG 0.361860 5.1:+35176609 MS.gene90603:CDS
GTTGGCACTCCAGGAAATAA+TGG 0.377697 5.1:-35176618 None:intergenic
ACTTCTACAGTTGGCACTCC+AGG 0.475767 5.1:-35176627 None:intergenic
AATGATGAAACTTCTACAGT+TGG 0.549787 5.1:-35176636 None:intergenic
GAATTCATTCGATCTTGCAA+AGG 0.564573 5.1:+35176661 MS.gene90603:CDS
TTATTATGCTTAAAATATCG+AGG 0.653247 5.1:-35176692 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAGAAATCAAAAAACCTTAA+TGG - chr5.1:35176907-35176926 None:intergenic 20.0%
!! AGAAATCAAAAAACCTTAAT+GGG - chr5.1:35176906-35176925 None:intergenic 20.0%
!! TTATTATGCTTAAAATATCG+AGG - chr5.1:35176695-35176714 None:intergenic 20.0%
!!! TTTAATGTACTTCATTTTCT+TGG + chr5.1:35176758-35176777 MS.gene90603:intron 20.0%
! ACACATTAAAAAAACCTCAA+TGG - chr5.1:35176861-35176880 None:intergenic 25.0%
! ACATTAAAAAAACCTCAATG+GGG - chr5.1:35176859-35176878 None:intergenic 25.0%
! CACATTAAAAAAACCTCAAT+GGG - chr5.1:35176860-35176879 None:intergenic 25.0%
! GAAATCAAAAAACCTTAATG+GGG - chr5.1:35176905-35176924 None:intergenic 25.0%
!!! TTTTTTTTATCACCCCATTA+AGG + chr5.1:35176890-35176909 MS.gene90603:intron 25.0%
AATGATGAAACTTCTACAGT+TGG - chr5.1:35176639-35176658 None:intergenic 30.0%
! TAACTGATTCCATTATTTCC+TGG + chr5.1:35176609-35176628 MS.gene90603:CDS 30.0%
!!! TTTTTTTAATCACCCCATTG+AGG + chr5.1:35176844-35176863 MS.gene90603:intron 30.0%
GAATTCATTCGATCTTGCAA+AGG + chr5.1:35176661-35176680 MS.gene90603:CDS 35.0%
GTTGGCACTCCAGGAAATAA+TGG - chr5.1:35176621-35176640 None:intergenic 45.0%
ACTTCTACAGTTGGCACTCC+AGG - chr5.1:35176630-35176649 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 35176593 35176956 35176593 ID=MS.gene90603
chr5.1 mRNA 35176593 35176956 35176593 ID=MS.gene90603.t1;Parent=MS.gene90603
chr5.1 exon 35176593 35176748 35176593 ID=MS.gene90603.t1.exon1;Parent=MS.gene90603.t1
chr5.1 CDS 35176593 35176748 35176593 ID=cds.MS.gene90603.t1;Parent=MS.gene90603.t1
chr5.1 exon 35176948 35176956 35176948 ID=MS.gene90603.t1.exon2;Parent=MS.gene90603.t1
chr5.1 CDS 35176948 35176956 35176948 ID=cds.MS.gene90603.t1;Parent=MS.gene90603.t1
Gene Sequence

>MS.gene90603

ATGGTTGAAGATTCTTTAACTGATTCCATTATTTCCTGGAGTGCCAACTGTAGAAGTTTCATCATTTCGAATTCATTCGATCTTGCAAAGGATTTGTTACCTCGATATTTTAAGCATAATAACTTCTCAAGTTTCAATAGACGATTGAATACATATGTAAGCAACTTTAATGTACTTCATTTTCTTGGTTTTTTTAAATTGTTATGTTATCATTTTAATGTTTTATTATTGTGTTAATGTTGTTTATTTAATTTTTTTAATCACCCCATTGAGGTTTTTTTAATGTGTTTATTTAATTTTTTTTTATCACCCCATTAAGGTTTTTTGATTTCTTGAATTGTGTTATGATTTTTAGTTTGATTAA
Protein sequence

>MS.gene90603.t1

MVEDSLTDSIISWSANCRSFIISNSFDLAKDLLPRYFKHNNFSSFNRRLNTYFD