AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680033391.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680033391.01.T01 MTR_6g045257 98.131 107 2 0 20 126 3 109 1.87e-60 181
MsG0680033391.01.T01 MTR_1g100587 83.333 72 12 0 18 89 2 73 2.13e-26 95.1
MsG0680033391.01.T01 MTR_8g098915 50.000 72 35 1 21 92 3 73 8.90e-17 71.2
MsG0680033391.01.T01 MTR_6g049320 46.429 84 36 2 6 89 26 100 1.53e-15 68.9
MsG0680033391.01.T01 MTR_3g434960 47.368 76 39 1 21 96 3 77 2.86e-15 67.0
MsG0680033391.01.T01 MTR_7g451210 50.000 74 36 1 21 94 3 75 3.42e-15 66.6
MsG0680033391.01.T01 MTR_3g434890 47.368 76 39 1 21 96 3 77 4.08e-15 66.6
MsG0680033391.01.T01 MTR_7g079110 53.731 67 30 1 21 87 3 68 5.90e-15 67.8
MsG0680033391.01.T01 MTR_7g451200 46.053 76 40 1 21 96 3 77 2.49e-14 64.7
MsG0680033391.01.T01 MTR_6g049260 45.333 75 40 1 21 95 3 76 2.96e-14 64.3
MsG0680033391.01.T01 MTR_1173s0010 46.053 76 40 1 21 96 3 77 3.06e-14 64.3
MsG0680033391.01.T01 MTR_1g099810 48.571 70 35 1 21 90 3 71 3.32e-14 65.1
MsG0680033391.01.T01 MTR_1g099800 48.571 70 35 1 21 90 3 71 3.81e-14 64.7
MsG0680033391.01.T01 MTR_6g049280 45.238 84 37 2 6 89 26 100 3.95e-14 65.1
MsG0680033391.01.T01 MTR_6g051680 44.286 70 38 1 20 89 2 70 7.69e-14 63.2
MsG0680033391.01.T01 MTR_6g049320 49.275 69 34 1 21 89 3 70 1.14e-13 63.2
MsG0680033391.01.T01 MTR_3g435000 45.455 66 36 0 31 96 16 81 2.59e-13 62.0
MsG0680033391.01.T01 MTR_6g049280 47.826 69 35 1 21 89 3 70 3.73e-13 62.0
MsG0680033391.01.T01 MTR_6g051690 41.429 70 40 1 20 89 2 70 5.32e-13 61.6
MsG0680033391.01.T01 MTR_1g099640 49.296 71 35 1 20 90 2 71 1.90e-11 57.4
MsG0680033391.01.T01 MTR_0795s0020 47.143 70 30 2 20 89 2 64 2.51e-11 57.0
MsG0680033391.01.T01 MTR_8g098915 46.296 54 29 0 39 92 1 54 3.63e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680033391.01.T01 AT5G23760 85.714 70 10 0 20 89 3 72 3.48e-26 94.7
MsG0680033391.01.T01 AT5G23760 83.607 61 10 0 29 89 1 61 3.16e-20 79.3
MsG0680033391.01.T01 AT1G01490 52.857 70 31 2 21 89 3 71 6.05e-15 67.8
MsG0680033391.01.T01 AT1G01490 52.857 70 31 2 21 89 3 71 6.05e-15 67.8
MsG0680033391.01.T01 AT1G01490 41.935 93 50 2 1 89 6 98 6.26e-15 68.2

Find 14 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCAGAAGGTTGTGTTAA+AGG 0.218749 6:+63821451 MsG0680033391.01.T01:CDS
CCATTCTCTTATTCTTTCAT+TGG 0.262849 6:+63821420 MsG0680033391.01.T01:CDS
TTCAATTGTAGCAGATATAA+AGG 0.339856 6:+63821652 MsG0680033391.01.T01:CDS
GAGCAAAAGTTGACAGTGAT+TGG 0.373869 6:+63821674 MsG0680033391.01.T01:CDS
AGGAAAGAAAGAAGAGAAGA+AGG 0.404813 6:+63821790 MsG0680033391.01.T01:CDS
GTTGACAGTGATTGGTTCAA+TGG 0.405513 6:+63821682 MsG0680033391.01.T01:CDS
AGAGAAGAAAGAAGAGAAGA+AGG 0.411074 6:+63821838 MsG0680033391.01.T01:CDS
GAAGCAGCTGCAGATATCTA+TGG 0.439199 6:+63821515 MsG0680033391.01.T01:CDS
GAAGAAGGAGGAAAAGAAAG+AGG 0.464286 6:+63821853 MsG0680033391.01.T01:CDS
GAAGAAAGAAGAGAAGAAGG+AGG 0.516884 6:+63821841 MsG0680033391.01.T01:CDS
TTGGATTGATTCAAAGCAGA+AGG 0.521385 6:+63821439 MsG0680033391.01.T01:CDS
CCAATGAAAGAATAAGAGAA+TGG 0.525008 6:-63821420 None:intergenic
GCAAAAGAAGAGAAGAAAGA+AGG 0.526342 6:+63821770 MsG0680033391.01.T01:CDS
AAAGTGGATATTGTATCTGT+TGG 0.556535 6:+63821743 MsG0680033391.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AATGTTATTTAATAAATCAA+AGG + Chr6:63821586-63821605 MsG0680033391.01.T01:intron 10.0%
!!! TTATTTTTCTAATTTTTCTT+TGG + Chr6:63821941-63821960 MsG0680033391.01.T01:three_prime_UTR 10.0%
!! ATAAGAGAATGGAAAAAAAA+TGG - Chr6:63821412-63821431 None:intergenic 20.0%
! GAAAGAGGAGAAAAAATAAA+AGG + Chr6:63821868-63821887 MsG0680033391.01.T01:exon 25.0%
! TTCAATTGTAGCAGATATAA+AGG + Chr6:63821652-63821671 MsG0680033391.01.T01:CDS 25.0%
!!! GTTGTTGATTTTGATGAATA+GGG + Chr6:63821624-63821643 MsG0680033391.01.T01:intron 25.0%
!!! TGTTGTTGATTTTGATGAAT+AGG + Chr6:63821623-63821642 MsG0680033391.01.T01:intron 25.0%
!!! TTGTTGATTTTGATGAATAG+GGG + Chr6:63821625-63821644 MsG0680033391.01.T01:intron 25.0%
AAAGTGGATATTGTATCTGT+TGG + Chr6:63821743-63821762 MsG0680033391.01.T01:CDS 30.0%
AGAGAAAAAAGAGGAGAAAA+AGG + Chr6:63821814-63821833 MsG0680033391.01.T01:CDS 30.0%
CCAATGAAAGAATAAGAGAA+TGG - Chr6:63821423-63821442 None:intergenic 30.0%
CCATTCTCTTATTCTTTCAT+TGG + Chr6:63821420-63821439 MsG0680033391.01.T01:CDS 30.0%
AAAGCAGAAGGTTGTGTTAA+AGG + Chr6:63821451-63821470 MsG0680033391.01.T01:CDS 35.0%
AGAGAAGAAAGAAGAGAAGA+AGG + Chr6:63821838-63821857 MsG0680033391.01.T01:CDS 35.0%
AGGAAAGAAAGAAGAGAAGA+AGG + Chr6:63821790-63821809 MsG0680033391.01.T01:CDS 35.0%
GAAGAAGGAAGAGAAAAAAG+AGG + Chr6:63821805-63821824 MsG0680033391.01.T01:CDS 35.0%
GCAAAAGAAGAGAAGAAAGA+AGG + Chr6:63821770-63821789 MsG0680033391.01.T01:CDS 35.0%
GCTGAAAAAAGTAGGAAAAG+TGG + Chr6:63821727-63821746 MsG0680033391.01.T01:CDS 35.0%
GTGAAGAAGCTGAAAAAAGT+AGG + Chr6:63821719-63821738 MsG0680033391.01.T01:CDS 35.0%
! TCTTTCTTCTCTTCTTTTGC+AGG - Chr6:63821770-63821789 None:intergenic 35.0%
! TGCTTCTATAGCTTTTTGCT+TGG - Chr6:63821501-63821520 None:intergenic 35.0%
! TTGGATTGATTCAAAGCAGA+AGG + Chr6:63821439-63821458 MsG0680033391.01.T01:CDS 35.0%
GAAGAAAGAAGAGAAGAAGG+AGG + Chr6:63821841-63821860 MsG0680033391.01.T01:CDS 40.0%
GAAGAAGGAGGAAAAGAAAG+AGG + Chr6:63821853-63821872 MsG0680033391.01.T01:CDS 40.0%
GAGCAAAAGTTGACAGTGAT+TGG + Chr6:63821674-63821693 MsG0680033391.01.T01:CDS 40.0%
! GTTGACAGTGATTGGTTCAA+TGG + Chr6:63821682-63821701 MsG0680033391.01.T01:CDS 40.0%
GAAGCAGCTGCAGATATCTA+TGG + Chr6:63821515-63821534 MsG0680033391.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr6 gene 63821398 63822005 63821398 ID=MsG0680033391.01;Name=MsG0680033391.01
Chr6 mRNA 63821398 63822005 63821398 ID=MsG0680033391.01.T01;Parent=MsG0680033391.01;Name=MsG0680033391.01.T01;_AED=0.28;_eAED=0.36;_QI=0|1|0.5|1|1|1|2|119|126
Chr6 exon 63821645 63822005 63821645 ID=MsG0680033391.01.T01:exon:32983;Parent=MsG0680033391.01.T01
Chr6 exon 63821398 63821536 63821398 ID=MsG0680033391.01.T01:exon:32982;Parent=MsG0680033391.01.T01
Chr6 CDS 63821398 63821536 63821398 ID=MsG0680033391.01.T01:cds;Parent=MsG0680033391.01.T01
Chr6 CDS 63821645 63821886 63821645 ID=MsG0680033391.01.T01:cds;Parent=MsG0680033391.01.T01
Chr6 three_prime_UTR 63821887 63822005 63821887 ID=MsG0680033391.01.T01:three_prime_utr;Parent=MsG0680033391.01.T01
Gene Sequence

>MsG0680033391.01.T01

TTGTTTATATACCATTTTTTTTCCATTCTCTTATTCTTTCATTGGATTGATTCAAAGCAGAAGGTTGTGTTAAAGGTGTTAACTATGACAGATGACAAAACCAAGCAAAAAGCTATAGAAGCAGCTGCAGATATCTATGGGGTTGATTCAATTGTAGCAGATATAAAGGAGCAAAAGTTGACAGTGATTGGTTCAATGGATACAGTAAAAATTGTGAAGAAGCTGAAAAAAGTAGGAAAAGTGGATATTGTATCTGTTGGTCCTGCAAAAGAAGAGAAGAAAGAAGGAAAGAAAGAAGAGAAGAAGGAAGAGAAAAAAGAGGAGAAAAAGGAAGAGAAGAAAGAAGAGAAGAAGGAGGAAAAGAAAGAGGAGAAAAAATAA

Protein sequence

>MsG0680033391.01.T01

LFIYHFFSILLFFHWIDSKQKVVLKVLTMTDDKTKQKAIEAAADIYGVDSIVADIKEQKLTVIGSMDTVKIVKKLKKVGKVDIVSVGPAKEEKKEGKKEEKKEEKKEEKKEEKKEEKKEEKKEEKK*