AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180002113.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180002113.01.T01 MTR_1g048720 89.545 220 23 0 1 220 1 220 4.89e-146 406
MsG0180002113.01.T01 MTR_1g048720 89.498 219 23 0 1 219 1 219 1.39e-144 403
MsG0180002113.01.T01 MTR_1g048720 89.091 220 23 1 1 220 1 219 1.41e-143 399
MsG0180002113.01.T01 MTR_1g048720 89.041 219 23 1 1 219 1 218 4.24e-142 397
MsG0180002113.01.T01 MTR_1g048750 81.651 218 32 1 1 218 1 210 1.48e-128 363
MsG0180002113.01.T01 MTR_1g048710 87.671 219 18 2 1 219 1 210 1.58e-128 362
MsG0180002113.01.T01 MTR_7g090410 58.482 224 84 6 1 219 1 220 1.37e-58 186
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180002113.01.T01 AT3G56970 43.363 226 119 4 1 219 1 224 4.57e-54 174
MsG0180002113.01.T01 AT3G56980 41.126 231 122 4 1 219 1 229 3.37e-43 146
MsG0180002113.01.T01 AT2G41240 36.607 224 129 3 1 219 1 216 1.16e-38 134
MsG0180002113.01.T01 AT2G41240 36.161 224 129 4 1 219 1 215 3.26e-36 127
MsG0180002113.01.T01 AT5G04150 45.161 155 83 1 65 219 86 238 1.29e-35 126
MsG0180002113.01.T01 AT5G04150 44.516 155 84 1 65 219 86 238 1.00e-34 124

Find 41 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAATTCCGGTATGTATTTA+AGG 0.100515 1:-33133726 None:intergenic
TGATGCTGGTTATGGGTTAT+TGG 0.201953 1:-33133219 None:intergenic
TCTTCATCTCAGACCTTTGC+AGG 0.241758 1:+33134003 MsG0180002113.01.T01:CDS
CTTCTATAATTTGCATTTCC+AGG 0.265122 1:+33134032 MsG0180002113.01.T01:CDS
AGGACTCTTGAAATTGTTCC+CGG 0.321088 1:-33133706 None:intergenic
TCCACTTGCTTCTGTAATTC+CGG 0.327349 1:-33133739 None:intergenic
ATGAATTCTGATGCTGGTTA+TGG 0.358164 1:-33133227 None:intergenic
GCAGAAGAAATTAAGCATTC+CGG 0.364951 1:+33133687 MsG0180002113.01.T01:intron
GATCGCGTTCACTAGCATTA+TGG 0.375108 1:-33133368 None:intergenic
CAGAAGAAATTAAGCATTCC+GGG 0.379649 1:+33133688 MsG0180002113.01.T01:intron
TCTTCCTGTTTCTGATCAAA+TGG 0.413993 1:+33133434 MsG0180002113.01.T01:CDS
AGTACCATTTGATCAGAAAC+AGG 0.414053 1:-33133438 None:intergenic
ATGGGTTATTGGCTCTTCAA+AGG 0.419323 1:-33133208 None:intergenic
TGAATTCTGATGCTGGTTAT+GGG 0.452139 1:-33133226 None:intergenic
TGGGTTATTGGCTCTTCAAA+GGG 0.490732 1:-33133207 None:intergenic
GTCACTGCTTGTGGCTTGTG+AGG 0.494200 1:-33133322 None:intergenic
CACATCAAGATCTCAGAAAG+TGG 0.497267 1:-33133946 None:intergenic
GGAGGGACTAATTAAGAGAA+AGG 0.499478 1:+33133759 MsG0180002113.01.T01:CDS
CCTAGTGAAATTAACACACC+TGG 0.521834 1:-33134050 None:intergenic
TGTAGAATGAATTCTGATGC+TGG 0.526407 1:-33133233 None:intergenic
ACAAATTATTGATCTTCTTG+CGG 0.529574 1:-33133392 None:intergenic
CATGCTAAGGTCACTGCTTG+TGG 0.538806 1:-33133331 None:intergenic
CTTCATCTCAGACCTTTGCA+GGG 0.548412 1:+33134004 MsG0180002113.01.T01:CDS
AGTGTAACATGAAATCTGAA+TGG 0.555088 1:-33133911 None:intergenic
AGAATAACCTCTTCTACTTG+TGG 0.555939 1:-33133805 None:intergenic
CATCCAATTGTTGAAAACAT+AGG 0.558093 1:-33133183 None:intergenic
AAGAGTCCTTAAATACATAC+CGG 0.558696 1:+33133720 MsG0180002113.01.T01:CDS
ACTTTCTCCACAAGTAGAAG+AGG 0.561714 1:+33133798 MsG0180002113.01.T01:CDS
TCACTGCTTGTGGCTTGTGA+GGG 0.563611 1:-33133321 None:intergenic
TCTCAGAAAGTGGAATCTTG+TGG 0.569417 1:-33133936 None:intergenic
TTGATGTGTTTAGAAAATGA+TGG 0.577722 1:+33133961 MsG0180002113.01.T01:CDS
ATAGAAGACTCTCCCTGCAA+AGG 0.579465 1:-33134016 None:intergenic
CCAATTGTTGAAAACATAGG+AGG 0.582074 1:-33133180 None:intergenic
AGGAAGAAGTGAACGAAGTG+AGG 0.599839 1:-33133418 None:intergenic
CAAGCTTCTTGACCATGCTA+AGG 0.604223 1:-33133344 None:intergenic
CACAAGCAGTGACCTTAGCA+TGG 0.613188 1:+33133332 MsG0180002113.01.T01:CDS
GAATTACAGAAGCAAGTGGA+GGG 0.637164 1:+33133742 MsG0180002113.01.T01:CDS
ACCGGAATTACAGAAGCAAG+TGG 0.638678 1:+33133738 MsG0180002113.01.T01:CDS
TAAGCAAAGAATCACAAAGG+AGG 0.661765 1:+33133827 MsG0180002113.01.T01:CDS
TTCTAAGCAAAGAATCACAA+AGG 0.666729 1:+33133824 MsG0180002113.01.T01:CDS
GGAATTACAGAAGCAAGTGG+AGG 0.680107 1:+33133741 MsG0180002113.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTGCATCCACAATATAAA+GGG - Chr1:33133603-33133622 None:intergenic 25.0%
! ACAAATTATTGATCTTCTTG+CGG - Chr1:33133395-33133414 None:intergenic 25.0%
! TAATTTCTTCTGCAACATAT+AGG - Chr1:33133680-33133699 None:intergenic 25.0%
! TTGATGTGTTTAGAAAATGA+TGG + Chr1:33133961-33133980 MsG0180002113.01.T01:CDS 25.0%
!!! ATTTTGTTGTTTCAACAAGT+AGG + Chr1:33133869-33133888 MsG0180002113.01.T01:CDS 25.0%
AAGAGTCCTTAAATACATAC+CGG + Chr1:33133720-33133739 MsG0180002113.01.T01:CDS 30.0%
ACAAACAAAATACGAGAGAA+AGG - Chr1:33133469-33133488 None:intergenic 30.0%
AGTGTAACATGAAATCTGAA+TGG - Chr1:33133914-33133933 None:intergenic 30.0%
CAATTGCATCCACAATATAA+AGG - Chr1:33133604-33133623 None:intergenic 30.0%
CATCCAATTGTTGAAAACAT+AGG - Chr1:33133186-33133205 None:intergenic 30.0%
GTAATTCCGGTATGTATTTA+AGG - Chr1:33133729-33133748 None:intergenic 30.0%
TTCTAAGCAAAGAATCACAA+AGG + Chr1:33133824-33133843 MsG0180002113.01.T01:CDS 30.0%
! CTATGTTTTCAACAATTGGA+TGG + Chr1:33133184-33133203 MsG0180002113.01.T01:CDS 30.0%
! CTTCTATAATTTGCATTTCC+AGG + Chr1:33134032-33134051 MsG0180002113.01.T01:CDS 30.0%
! GATGCAATTGTTATTGCATA+GGG + Chr1:33133614-33133633 MsG0180002113.01.T01:intron 30.0%
! TCATTTTCAGCATCAATTTG+AGG + Chr1:33133278-33133297 MsG0180002113.01.T01:CDS 30.0%
AGAATAACCTCTTCTACTTG+TGG - Chr1:33133808-33133827 None:intergenic 35.0%
AGTACCATTTGATCAGAAAC+AGG - Chr1:33133441-33133460 None:intergenic 35.0%
AGTCTAAGCCCTTTATATTG+TGG + Chr1:33133592-33133611 MsG0180002113.01.T01:intron 35.0%
CAGAAGAAATTAAGCATTCC+GGG + Chr1:33133688-33133707 MsG0180002113.01.T01:intron 35.0%
CCAATTGTTGAAAACATAGG+AGG - Chr1:33133183-33133202 None:intergenic 35.0%
GCAGAAGAAATTAAGCATTC+CGG + Chr1:33133687-33133706 MsG0180002113.01.T01:intron 35.0%
TAAGCAAAGAATCACAAAGG+AGG + Chr1:33133827-33133846 MsG0180002113.01.T01:CDS 35.0%
TGTAGAATGAATTCTGATGC+TGG - Chr1:33133236-33133255 None:intergenic 35.0%
! ATGAATTCTGATGCTGGTTA+TGG - Chr1:33133230-33133249 None:intergenic 35.0%
! CCTCCTATGTTTTCAACAAT+TGG + Chr1:33133180-33133199 MsG0180002113.01.T01:CDS 35.0%
! GGATGCAATTGTTATTGCAT+AGG + Chr1:33133613-33133632 MsG0180002113.01.T01:intron 35.0%
! TGAATTCTGATGCTGGTTAT+GGG - Chr1:33133229-33133248 None:intergenic 35.0%
!! TCTTCCTGTTTCTGATCAAA+TGG + Chr1:33133434-33133453 MsG0180002113.01.T01:CDS 35.0%
ACTTTCTCCACAAGTAGAAG+AGG + Chr1:33133798-33133817 MsG0180002113.01.T01:CDS 40.0%
AGGACTCTTGAAATTGTTCC+CGG - Chr1:33133709-33133728 None:intergenic 40.0%
CACATCAAGATCTCAGAAAG+TGG - Chr1:33133949-33133968 None:intergenic 40.0%
GAATTACAGAAGCAAGTGGA+GGG + Chr1:33133742-33133761 MsG0180002113.01.T01:CDS 40.0%
GGAGGGACTAATTAAGAGAA+AGG + Chr1:33133759-33133778 MsG0180002113.01.T01:CDS 40.0%
TCCACTTGCTTCTGTAATTC+CGG - Chr1:33133742-33133761 None:intergenic 40.0%
TCTCAGAAAGTGGAATCTTG+TGG - Chr1:33133939-33133958 None:intergenic 40.0%
! TGATGCTGGTTATGGGTTAT+TGG - Chr1:33133222-33133241 None:intergenic 40.0%
!! ATGGGTTATTGGCTCTTCAA+AGG - Chr1:33133211-33133230 None:intergenic 40.0%
!! TGGGTTATTGGCTCTTCAAA+GGG - Chr1:33133210-33133229 None:intergenic 40.0%
!!! GCGATTGCGATGCTTTTTTT+GGG + Chr1:33133560-33133579 MsG0180002113.01.T01:intron 40.0%
!!! TGCGATTGCGATGCTTTTTT+TGG + Chr1:33133559-33133578 MsG0180002113.01.T01:intron 40.0%
ACCGGAATTACAGAAGCAAG+TGG + Chr1:33133738-33133757 MsG0180002113.01.T01:CDS 45.0%
ACTACGCGATTGCAAACGTT+AGG - Chr1:33133539-33133558 None:intergenic 45.0%
AGGAAGAAGTGAACGAAGTG+AGG - Chr1:33133421-33133440 None:intergenic 45.0%
ATAGAAGACTCTCCCTGCAA+AGG - Chr1:33134019-33134038 None:intergenic 45.0%
CAAGCTTCTTGACCATGCTA+AGG - Chr1:33133347-33133366 None:intergenic 45.0%
CTTCATCTCAGACCTTTGCA+GGG + Chr1:33134004-33134023 MsG0180002113.01.T01:CDS 45.0%
GATCGCGTTCACTAGCATTA+TGG - Chr1:33133371-33133390 None:intergenic 45.0%
GGAATTACAGAAGCAAGTGG+AGG + Chr1:33133741-33133760 MsG0180002113.01.T01:CDS 45.0%
TCTTCATCTCAGACCTTTGC+AGG + Chr1:33134003-33134022 MsG0180002113.01.T01:CDS 45.0%
CACAAGCAGTGACCTTAGCA+TGG + Chr1:33133332-33133351 MsG0180002113.01.T01:CDS 50.0%
CATGCTAAGGTCACTGCTTG+TGG - Chr1:33133334-33133353 None:intergenic 50.0%
! TCACTGCTTGTGGCTTGTGA+GGG - Chr1:33133324-33133343 None:intergenic 50.0%
! GTCACTGCTTGTGGCTTGTG+AGG - Chr1:33133325-33133344 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 33133165 33134062 33133165 ID=MsG0180002113.01;Name=MsG0180002113.01
Chr1 mRNA 33133165 33134062 33133165 ID=MsG0180002113.01.T01;Parent=MsG0180002113.01;Name=MsG0180002113.01.T01;_AED=0.21;_eAED=0.21;_QI=0|0|0|1|1|1|2|0|220
Chr1 exon 33133165 33133455 33133165 ID=MsG0180002113.01.T01:exon:7453;Parent=MsG0180002113.01.T01
Chr1 exon 33133691 33134062 33133691 ID=MsG0180002113.01.T01:exon:7452;Parent=MsG0180002113.01.T01
Chr1 CDS 33133165 33133455 33133165 ID=MsG0180002113.01.T01:cds;Parent=MsG0180002113.01.T01
Chr1 CDS 33133691 33134062 33133691 ID=MsG0180002113.01.T01:cds;Parent=MsG0180002113.01.T01
Gene Sequence

>MsG0180002113.01.T01

ATGTTAGTGATATCTCCTCCTATGTTTTCAACAATTGGATGGCCCTTTGAAGAGCCAATAACCCATAACCAGCATCAGAATTCATTCTACAAAGACACTGCTGATCAATTATTTCATTTTCAGCATCAATTTGAGGCAGAAATTAATTCAAAAGATCCCTCACAAGCCACAAGCAGTGACCTTAGCATGGTCAAGAAGCTTGTCCATAATGCTAGTGAACGCGATCGCCGCAAGAAGATCAATAATTTGTATTCCTCACTTCGTTCACTTCTTCCTGTTTCTGATCAAATGAAGAAATTAAGCATTCCGGGAACAATTTCAAGAGTCCTTAAATACATACCGGAATTACAGAAGCAAGTGGAGGGACTAATTAAGAGAAAGGATGAGATCTTACTGAGACTTTCTCCACAAGTAGAAGAGGTTATTCTAAGCAAAGAATCACAAAGGAGGAAGCATAGTTACAACTCTGATTTTGTTGTTTCAACAAGTAGGCTCAATGATAGTGAAATTACCATTCAGATTTCATGTTACACTGTCCACAAGATTCCACTTTCTGAGATCTTGATGTGTTTAGAAAATGATGGTTTTTTGCTTCTTAATCTTTCTTCATCTCAGACCTTTGCAGGGAGAGTCTTCTATAATTTGCATTTCCAGGTGTGTTAA
Protein sequence

>MsG0180002113.01.T01

MLVISPPMFSTIGWPFEEPITHNQHQNSFYKDTADQLFHFQHQFEAEINSKDPSQATSSDLSMVKKLVHNASERDRRKKINNLYSSLRSLLPVSDQMKKLSIPGTISRVLKYIPELQKQVEGLIKRKDEILLRLSPQVEEVILSKESQRRKHSYNSDFVVSTSRLNDSEITIQISCYTVHKIPLSEILMCLENDGFLLLNLSSSQTFAGRVFYNLHFQVC*