AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017309.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017309.01.T01 MTR_3g104950 95.833 120 5 0 1 120 1 120 4.49e-78 226
MsG0380017309.01.T01 MTR_1g015290 65.323 124 38 2 1 119 1 124 1.95e-47 149
MsG0380017309.01.T01 MTR_4g125600 57.025 121 45 5 1 119 1 116 1.93e-34 115
MsG0380017309.01.T01 MTR_2g041260 54.918 122 49 3 1 119 1 119 8.71e-24 89.0
MsG0380017309.01.T02 MTR_3g104950 100.000 51 0 0 1 51 70 120 9.34e-31 103
MsG0380017309.01.T02 MTR_1g015290 86.000 50 7 0 1 50 75 124 2.79e-25 89.7
MsG0380017309.01.T02 MTR_4g125600 76.000 50 10 1 1 50 69 116 1.29e-19 75.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017309.01.T01 AT2G06520 52.427 103 46 1 20 119 13 115 2.39e-24 90.1
MsG0380017309.01.T02 AT2G06520 74.000 50 13 0 1 50 66 115 5.95e-16 65.9

Find 22 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTATACTTGGAGCTGTTAT+TGG 0.192002 3:+94762580 MsG0380017309.01.T01:CDS
TTTGACTGTGTGATCCTCTT+TGG 0.259959 3:-94762382 None:intergenic
CTATACTTGGAGCTGTTATT+GGG 0.283981 3:+94762581 MsG0380017309.01.T01:CDS
ATTAATTAAGCTCTCTTAAC+CGG 0.332183 3:-94762619 None:intergenic
TTTGGTTGTGCGATGGGTAA+TGG 0.371937 3:-94762364 None:intergenic
AGATGCATTAATTTCAACCT+TGG 0.419109 3:-94762407 None:intergenic
TAATGCATCTTTGAAAGAAA+AGG 0.433518 3:+94762420 MsG0380017309.01.T01:CDS
CCTGATGTGGCTCATGCAGC+TGG 0.437171 3:+94762490 MsG0380017309.01.T01:CDS
ATCCTCTTTGGTTGTGCGAT+GGG 0.483107 3:-94762370 None:intergenic
TGGGGTTTCCAACTTTGATC+CGG 0.483190 3:+94762600 MsG0380017309.01.T01:CDS
CCAGCTGCATGAGCCACATC+AGG 0.505992 3:-94762490 None:intergenic
GATCCTCTTTGGTTGTGCGA+TGG 0.509446 3:-94762371 None:intergenic
CTCCATGGTTATACCTGATG+TGG 0.524546 3:+94762477 MsG0380017309.01.T01:CDS
TCTCTTAACCGGATCAAAGT+TGG 0.532912 3:-94762608 None:intergenic
TGCATCCTTGACAGCCTCCA+TGG 0.539158 3:+94762462 MsG0380017309.01.T01:CDS
GCTGTGCTAACAGCTATACT+TGG 0.540967 3:+94762568 MsG0380017309.01.T01:CDS
TATACTTGGAGCTGTTATTG+GGG 0.562747 3:+94762582 MsG0380017309.01.T01:CDS
TATAACCATGGAGGCTGTCA+AGG 0.564152 3:-94762467 None:intergenic
TACCCATCGCACAACCAAAG+AGG 0.604798 3:+94762368 MsG0380017309.01.T01:CDS
GATCACACAGTCAAAATCCA+AGG 0.634917 3:+94762390 MsG0380017309.01.T01:CDS
AGCCACATCAGGTATAACCA+TGG 0.670542 3:-94762479 None:intergenic
CACATCAGGTATAACCATGG+AGG 0.712255 3:-94762476 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATGCATCTTTGAAAGAAA+AGG + Chr3:94762420-94762439 MsG0380017309.01.T01:CDS 25.0%
AAATGCTTAGCAAAAAGTTC+TGG - Chr3:94762537-94762556 None:intergenic 30.0%
AGATGCATTAATTTCAACCT+TGG - Chr3:94762410-94762429 None:intergenic 30.0%
TAATGGCCTGAAAAATGATT+CGG - Chr3:94762350-94762369 None:intergenic 30.0%
! TTTTTGCTAAGCATTTTTGC+TGG + Chr3:94762541-94762560 MsG0380017309.01.T01:CDS 30.0%
!! ATGGATTTTTCAGCTTGTTT+TGG - Chr3:94762324-94762343 None:intergenic 30.0%
!! TGGATTTTTCAGCTTGTTTT+GGG - Chr3:94762323-94762342 None:intergenic 30.0%
CTATACTTGGAGCTGTTATT+GGG + Chr3:94762581-94762600 MsG0380017309.01.T01:CDS 35.0%
TATACTTGGAGCTGTTATTG+GGG + Chr3:94762582-94762601 MsG0380017309.01.T01:CDS 35.0%
GATCACACAGTCAAAATCCA+AGG + Chr3:94762390-94762409 MsG0380017309.01.T01:CDS 40.0%
GCTATACTTGGAGCTGTTAT+TGG + Chr3:94762580-94762599 MsG0380017309.01.T01:CDS 40.0%
TCTCTTAACCGGATCAAAGT+TGG - Chr3:94762611-94762630 None:intergenic 40.0%
TTTGACTGTGTGATCCTCTT+TGG - Chr3:94762385-94762404 None:intergenic 40.0%
! CTGAAAAATGATTCGGAGGA+TGG - Chr3:94762343-94762362 None:intergenic 40.0%
! TTGCTAAGCATTTTTGCTGG+TGG + Chr3:94762544-94762563 MsG0380017309.01.T01:CDS 40.0%
!! AGCAAAAAGTTCTGGAGAGA+TGG - Chr3:94762529-94762548 None:intergenic 40.0%
!! CATCCTCCGAATCATTTTTC+AGG + Chr3:94762341-94762360 MsG0380017309.01.T01:CDS 40.0%
AGCCACATCAGGTATAACCA+TGG - Chr3:94762482-94762501 None:intergenic 45.0%
ATCCTCTTTGGTTGTGCGAT+GGG - Chr3:94762373-94762392 None:intergenic 45.0%
CACATCAGGTATAACCATGG+AGG - Chr3:94762479-94762498 None:intergenic 45.0%
CTCCATGGTTATACCTGATG+TGG + Chr3:94762477-94762496 MsG0380017309.01.T01:CDS 45.0%
GCTGTGCTAACAGCTATACT+TGG + Chr3:94762568-94762587 MsG0380017309.01.T01:CDS 45.0%
TATAACCATGGAGGCTGTCA+AGG - Chr3:94762470-94762489 None:intergenic 45.0%
TGGGGTTTCCAACTTTGATC+CGG + Chr3:94762600-94762619 MsG0380017309.01.T01:CDS 45.0%
TTTGGTTGTGCGATGGGTAA+TGG - Chr3:94762367-94762386 None:intergenic 45.0%
! TGGCCTGAAAAATGATTCGG+AGG - Chr3:94762347-94762366 None:intergenic 45.0%
!! TTTTGGGTAGCAGAACTCAC+TGG - Chr3:94762307-94762326 None:intergenic 45.0%
GATCCTCTTTGGTTGTGCGA+TGG - Chr3:94762374-94762393 None:intergenic 50.0%
TACCCATCGCACAACCAAAG+AGG + Chr3:94762368-94762387 MsG0380017309.01.T01:CDS 50.0%
TGCATCCTTGACAGCCTCCA+TGG + Chr3:94762462-94762481 MsG0380017309.01.T01:CDS 55.0%
CCAGCTGCATGAGCCACATC+AGG - Chr3:94762493-94762512 None:intergenic 60.0%
CCTGATGTGGCTCATGCAGC+TGG + Chr3:94762490-94762509 MsG0380017309.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 94762274 94762636 94762274 ID=MsG0380017309.01;Name=MsG0380017309.01
Chr3 mRNA 94762274 94762636 94762274 ID=MsG0380017309.01.T01;Parent=MsG0380017309.01;Name=MsG0380017309.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|120
Chr3 exon 94762274 94762636 94762274 ID=MsG0380017309.01.T01:exon:1591;Parent=MsG0380017309.01.T01
Chr3 CDS 94762274 94762636 94762274 ID=MsG0380017309.01.T01:cds;Parent=MsG0380017309.01.T01
Chr3 mRNA 94762481 94762636 94762481 ID=MsG0380017309.01.T02;Parent=MsG0380017309.01;Name=MsG0380017309.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|51
Chr3 exon 94762481 94762636 94762481 ID=MsG0380017309.01.T02:exon:1592;Parent=MsG0380017309.01.T02
Chr3 CDS 94762481 94762636 94762481 ID=MsG0380017309.01.T02:cds;Parent=MsG0380017309.01.T02
Gene Sequence

>MsG0380017309.01.T01

ATGGCTTCTGCTTCTGTTGCAACAGCTTTGCCAGTGAGTTCTGCTACCCAAAACAAGCTGAAAAATCCATCCTCCGAATCATTTTTCAGGCCATTACCCATCGCACAACCAAAGAGGATCACACAGTCAAAATCCAAGGTTGAAATTAATGCATCTTTGAAAGAAAAGGCAGTGACAGCACTTACAGCTGCATCCTTGACAGCCTCCATGGTTATACCTGATGTGGCTCATGCAGCTGGATCTGATCTCTCGCCATCTCTCCAGAACTTTTTGCTAAGCATTTTTGCTGGTGGAGCTGTGCTAACAGCTATACTTGGAGCTGTTATTGGGGTTTCCAACTTTGATCCGGTTAAGAGAGCTTAA

>MsG0380017309.01.T02

ATGGTTATACCTGATGTGGCTCATGCAGCTGGATCTGATCTCTCGCCATCTCTCCAGAACTTTTTGCTAAGCATTTTTGCTGGTGGAGCTGTGCTAACAGCTATACTTGGAGCTGTTATTGGGGTTTCCAACTTTGATCCGGTTAAGAGAGCTTAA

Protein sequence

>MsG0380017309.01.T01

MASASVATALPVSSATQNKLKNPSSESFFRPLPIAQPKRITQSKSKVEINASLKEKAVTALTAASLTASMVIPDVAHAAGSDLSPSLQNFLLSIFAGGAVLTAILGAVIGVSNFDPVKRA*

>MsG0380017309.01.T02

MVIPDVAHAAGSDLSPSLQNFLLSIFAGGAVLTAILGAVIGVSNFDPVKRA*