AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007922.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007922.01.T01 MTR_2g435310 95.960 99 4 0 23 121 62 160 7.26e-66 196
MsG0280007922.01.T01 MTR_4g120760 75.758 99 24 0 23 121 62 160 3.42e-53 164
MsG0280007922.01.T01 MTR_4g120760 74.747 99 25 0 23 121 62 160 2.25e-52 162
MsG0280007922.01.T01 MTR_2g035100 37.000 100 63 0 18 117 56 155 3.26e-18 75.5
MsG0280007922.01.T01 MTR_2g035105 37.000 100 63 0 18 117 56 155 3.52e-18 75.5
MsG0280007922.01.T01 MTR_2g035130 36.264 91 58 0 27 117 65 155 3.46e-17 72.8
MsG0280007922.01.T01 MTR_2g035120 36.264 91 58 0 27 117 65 155 8.88e-17 72.0
MsG0280007922.01.T01 MTR_2g035150 35.165 91 59 0 27 117 65 155 5.47e-16 69.7
MsG0280007922.01.T01 MTR_2g035170 33.000 100 67 0 18 117 56 155 2.02e-14 65.9
MsG0280007922.01.T01 MTR_2g035320 30.928 97 67 0 21 117 24 120 7.21e-14 63.5
MsG0280007922.01.T01 MTR_6g033450 35.556 90 58 0 28 117 66 155 8.76e-14 63.9
MsG0280007922.01.T01 MTR_4g120970 35.556 90 58 0 28 117 66 155 8.76e-14 63.9
MsG0280007922.01.T01 MTR_2g035320 30.000 100 70 0 18 117 56 155 2.77e-13 62.8
MsG0280007922.01.T01 MTR_4g120950 37.234 94 57 2 26 117 63 156 9.81e-12 58.9
MsG0280007922.01.T01 MTR_2g035210 30.000 90 63 0 28 117 66 155 1.29e-11 58.5
MsG0280007922.01.T01 MTR_2g035190 28.000 100 72 0 18 117 56 155 2.46e-11 57.8
MsG0280007922.01.T01 MTR_2g035220 30.000 90 63 0 28 117 66 155 2.51e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 23 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACAACCTCCATCATTAA+TGG 0.267686 2:-23006902 None:intergenic
ACAAGCAAATACAATGCTAT+TGG 0.304763 2:+23006934 MsG0280007922.01.T01:CDS
CAAGCAAATACAATGCTATT+GGG 0.319492 2:+23006935 MsG0280007922.01.T01:CDS
GCTTGAGTCAATTGCTTATG+AGG 0.335592 2:+23006867 MsG0280007922.01.T01:CDS
AGTCAAAGAGGAAGAGATAA+AGG 0.347021 2:+23006966 MsG0280007922.01.T01:CDS
GACTCAAGCTTGTCACCTAA+TGG 0.355452 2:-23006853 None:intergenic
AGGAAGAGATAAAGGAAGGA+AGG 0.431527 2:+23006974 MsG0280007922.01.T01:CDS
TGCTTATGAGGTTAAGTTTG+AGG 0.448209 2:+23006879 MsG0280007922.01.T01:CDS
AAGTTTGAGGCCATTAATGA+TGG 0.470153 2:+23006892 MsG0280007922.01.T01:CDS
AGTTGTGGAAGCATACTTGC+TGG 0.476134 2:+23007020 MsG0280007922.01.T01:CDS
ATGATTGAAGGAGATCCATT+AGG 0.495029 2:+23006838 MsG0280007922.01.T01:CDS
AATTGTTATTGAGGCAACAT+AGG 0.496973 2:-23006714 None:intergenic
CATTGGAATTTGCGAAGTTG+TGG 0.505117 2:+23007005 MsG0280007922.01.T01:CDS
GGAAGAGATAAAGGAAGGAA+GGG 0.516313 2:+23006975 MsG0280007922.01.T01:CDS
TGCAACTACACTATGATTGA+AGG 0.519866 2:+23006826 MsG0280007922.01.T01:CDS
GAAGGAAGGGAAAACTCCAT+TGG 0.523267 2:+23006988 MsG0280007922.01.T01:CDS
ATAAGTAAGAATTGTTATTG+AGG 0.524379 2:-23006723 None:intergenic
CACAACTTCGCAAATTCCAA+TGG 0.525042 2:-23007004 None:intergenic
AAAGAGGAAGAGATAAAGGA+AGG 0.532049 2:+23006970 MsG0280007922.01.T01:CDS
TATGATTGATAATGATAACT+TGG 0.540241 2:+23006801 MsG0280007922.01.T01:CDS
TTTGAGGCCATTAATGATGG+AGG 0.588869 2:+23006895 MsG0280007922.01.T01:CDS
AAGCAAATACAATGCTATTG+GGG 0.591788 2:+23006936 MsG0280007922.01.T01:CDS
AATAACTAAACATAGACTTG+TGG 0.600652 2:-23007048 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTTTCAAATATTTGAAAAAC+AGG + Chr2:23006773-23006792 MsG0280007922.01.T01:CDS 20.0%
!!! ATAAGTAAGAATTGTTATTG+AGG - Chr2:23006726-23006745 None:intergenic 20.0%
!!! TATGATTGATAATGATAACT+TGG + Chr2:23006801-23006820 MsG0280007922.01.T01:CDS 20.0%
AAAACAACCTCCATCATTAA+TGG - Chr2:23006905-23006924 None:intergenic 30.0%
AAGCAAATACAATGCTATTG+GGG + Chr2:23006936-23006955 MsG0280007922.01.T01:CDS 30.0%
ACAAGCAAATACAATGCTAT+TGG + Chr2:23006934-23006953 MsG0280007922.01.T01:CDS 30.0%
CAAGCAAATACAATGCTATT+GGG + Chr2:23006935-23006954 MsG0280007922.01.T01:CDS 30.0%
! AATTGTTATTGAGGCAACAT+AGG - Chr2:23006717-23006736 None:intergenic 30.0%
AAAGAGGAAGAGATAAAGGA+AGG + Chr2:23006970-23006989 MsG0280007922.01.T01:CDS 35.0%
AGTCAAAGAGGAAGAGATAA+AGG + Chr2:23006966-23006985 MsG0280007922.01.T01:CDS 35.0%
ATGATTGAAGGAGATCCATT+AGG + Chr2:23006838-23006857 MsG0280007922.01.T01:CDS 35.0%
TGCAACTACACTATGATTGA+AGG + Chr2:23006826-23006845 MsG0280007922.01.T01:CDS 35.0%
TGCTTATGAGGTTAAGTTTG+AGG + Chr2:23006879-23006898 MsG0280007922.01.T01:CDS 35.0%
! AAGTTTGAGGCCATTAATGA+TGG + Chr2:23006892-23006911 MsG0280007922.01.T01:CDS 35.0%
AGGAAGAGATAAAGGAAGGA+AGG + Chr2:23006974-23006993 MsG0280007922.01.T01:CDS 40.0%
CACAACTTCGCAAATTCCAA+TGG - Chr2:23007007-23007026 None:intergenic 40.0%
CATTGGAATTTGCGAAGTTG+TGG + Chr2:23007005-23007024 MsG0280007922.01.T01:CDS 40.0%
GCTTGAGTCAATTGCTTATG+AGG + Chr2:23006867-23006886 MsG0280007922.01.T01:CDS 40.0%
GGAAGAGATAAAGGAAGGAA+GGG + Chr2:23006975-23006994 MsG0280007922.01.T01:CDS 40.0%
! TTTGAGGCCATTAATGATGG+AGG + Chr2:23006895-23006914 MsG0280007922.01.T01:CDS 40.0%
!!! TGGGGATTTTGAAGTCAAAG+AGG + Chr2:23006954-23006973 MsG0280007922.01.T01:CDS 40.0%
GAAGGAAGGGAAAACTCCAT+TGG + Chr2:23006988-23007007 MsG0280007922.01.T01:CDS 45.0%
GACTCAAGCTTGTCACCTAA+TGG - Chr2:23006856-23006875 None:intergenic 45.0%
! AGTTGTGGAAGCATACTTGC+TGG + Chr2:23007020-23007039 MsG0280007922.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr2 gene 23006700 23007065 23006700 ID=MsG0280007922.01;Name=MsG0280007922.01
Chr2 mRNA 23006700 23007065 23006700 ID=MsG0280007922.01.T01;Parent=MsG0280007922.01;Name=MsG0280007922.01.T01;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|121
Chr2 exon 23006700 23007065 23006700 ID=MsG0280007922.01.T01:exon:18382;Parent=MsG0280007922.01.T01
Chr2 CDS 23006700 23007065 23006700 ID=MsG0280007922.01.T01:cds;Parent=MsG0280007922.01.T01
Gene Sequence

>MsG0280007922.01.T01

ATGCAAGACTTGCTCCTATGTTGCCTCAATAACAATTCTTACTTATATGTTCTATTTATCATTGCAGCTAGTGCTTTCAAATATTTGAAAAACAGGATTGATATGATTGATAATGATAACTTGGTGTGCAACTACACTATGATTGAAGGAGATCCATTAGGTGACAAGCTTGAGTCAATTGCTTATGAGGTTAAGTTTGAGGCCATTAATGATGGAGGTTGTTTTTGTAAAATGACAAGCAAATACAATGCTATTGGGGATTTTGAAGTCAAAGAGGAAGAGATAAAGGAAGGAAGGGAAAACTCCATTGGAATTTGCGAAGTTGTGGAAGCATACTTGCTGGAGAATCCACAAGTCTATGTTTAG

Protein sequence

>MsG0280007922.01.T01

MQDLLLCCLNNNSYLYVLFIIAASAFKYLKNRIDMIDNDNLVCNYTMIEGDPLGDKLESIAYEVKFEAINDGGCFCKMTSKYNAIGDFEVKEEEIKEGRENSIGICEVVEAYLLENPQVYV*