AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1153710

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1153710 MtrunA17_Chr7g0244491 98.947 190 2 0 1 190 1 190 3.92e-132 368
Msa1153710 MtrunA17_Chr4g0013161 56.186 194 74 5 1 190 1 187 2.96e-51 163
Msa1153710 MtrunA17_Chr5g0438101 54.945 91 34 2 14 97 15 105 1.14e-24 95.1
Msa1153710 MtrunA17_Chr3g0114561 46.535 101 44 3 7 97 12 112 8.97e-14 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 30 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCAGAGAAAGTATATTT+TGG 0.247944 7_4:+40718269 None:intergenic
CTTAGAAAACGCCTCCTTCT+TGG 0.250226 7_4:+40718017 None:intergenic
AAGGCTCATAGTGGATTTCT+AGG 0.254788 7_4:-40717897 Msa1153710:CDS
ACTTGTCATCTTGCTTGATT+TGG 0.265877 7_4:+40718390 None:intergenic
TCTAAAAGATGGATTGGATA+TGG 0.307928 7_4:+40718337 None:intergenic
CATGAAGCAGAAGAATAATA+AGG 0.385301 7_4:+40718080 None:intergenic
TAAGAAGGTGGAGGAGTAAG+AGG 0.389098 7_4:+40718236 None:intergenic
CCACTGTTAAGCTTACCTTT+TGG 0.394737 7_4:+40717869 None:intergenic
CCTCCTTCTTGGAACAACTT+TGG 0.396645 7_4:+40718028 None:intergenic
TGTCATCTTGCTTGATTTGG+AGG 0.407390 7_4:+40718393 None:intergenic
AGGTGAAGAAGGTGAATTAG+AGG 0.413524 7_4:+40718100 None:intergenic
CCTACTTCAACACTATGCTT+TGG 0.428862 7_4:-40717942 Msa1153710:CDS
AGCTACTCTAAAAGATGGAT+TGG 0.432860 7_4:+40718331 None:intergenic
GAAGAATAATAAGGTGAAGA+AGG 0.436641 7_4:+40718089 None:intergenic
GGTTGAGATTCCCAAACAAA+AGG 0.463594 7_4:+40718299 None:intergenic
GATTTCTAGGGTTCTCCAAA+AGG 0.487669 7_4:-40717884 Msa1153710:CDS
CTTCCAAAGTTGTTCCAAGA+AGG 0.493087 7_4:-40718031 Msa1153710:CDS
GTAACAGCTACTCTAAAAGA+TGG 0.493537 7_4:+40718326 None:intergenic
TTTGTTTGGGAATCTCAACC+TGG 0.503021 7_4:-40718296 Msa1153710:CDS
TTCTCGTTCAACTAGCACTA+AGG 0.511803 7_4:-40717916 Msa1153710:CDS
TTGCATGAATAATAAGAAGG+TGG 0.547152 7_4:+40718224 None:intergenic
GTTGAGATTCCCAAACAAAA+GGG 0.549458 7_4:+40718300 None:intergenic
GAAGGTGGAGGAGTAAGAGG+AGG 0.559116 7_4:+40718239 None:intergenic
CCAAAGCATAGTGTTGAAGT+AGG 0.562382 7_4:+40717942 None:intergenic
AGGCTCATAGTGGATTTCTA+GGG 0.569085 7_4:-40717896 Msa1153710:CDS
CATGAATAATAAGAAGGTGG+AGG 0.569750 7_4:+40718227 None:intergenic
GGTGAAGAAGGTGAATTAGA+GGG 0.573292 7_4:+40718101 None:intergenic
CCAAAGTTGTTCCAAGAAGG+AGG 0.583667 7_4:-40718028 Msa1153710:CDS
ACTAGCACTAAGGCTCATAG+TGG 0.592419 7_4:-40717906 Msa1153710:CDS
AGATGATGATGATGAGTCTG+AGG 0.608111 7_4:+40718052 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTGCATGAATAATAAGA+AGG + chr7_4:40718094-40718113 None:intergenic 20.0%
!!! AAAAAGTGCAAGAAAAATAT+TGG + chr7_4:40718143-40718162 None:intergenic 20.0%
!!! TTTTTCTTGAGATTTAGTTT+TGG + chr7_4:40718166-40718185 None:intergenic 20.0%
!!! TTCTCAGAGAAAGTATATTT+TGG + chr7_4:40718046-40718065 None:intergenic 25.0%
!!! ATTTGGAGGATAGTTTTTTG+TGG + chr7_4:40717908-40717927 None:intergenic 30.0%
!! TCTAAAAGATGGATTGGATA+TGG + chr7_4:40717978-40717997 None:intergenic 30.0%
TTGCATGAATAATAAGAAGG+TGG + chr7_4:40718091-40718110 None:intergenic 30.0%
! GATCTTGAGTTTTTCTTGAT+TGG + chr7_4:40718121-40718140 None:intergenic 30.0%
GAAGAATAATAAGGTGAAGA+AGG + chr7_4:40718226-40718245 None:intergenic 30.0%
CATGAAGCAGAAGAATAATA+AGG + chr7_4:40718235-40718254 None:intergenic 30.0%
! TTTTTGTGGTTGCTCAGATT+TGG + chr7_4:40717894-40717913 None:intergenic 35.0%
ACTTGTCATCTTGCTTGATT+TGG + chr7_4:40717925-40717944 None:intergenic 35.0%
! AGCTACTCTAAAAGATGGAT+TGG + chr7_4:40717984-40718003 None:intergenic 35.0%
! GTAACAGCTACTCTAAAAGA+TGG + chr7_4:40717989-40718008 None:intergenic 35.0%
!! TGTTACTGTCCCTTTTGTTT+GGG - chr7_4:40718003-40718022 Msa1153710:CDS 35.0%
GTTGAGATTCCCAAACAAAA+GGG + chr7_4:40718015-40718034 None:intergenic 35.0%
!!! AAAGTATATTTTGGTGTGCC+AGG + chr7_4:40718037-40718056 None:intergenic 35.0%
CATGAATAATAAGAAGGTGG+AGG + chr7_4:40718088-40718107 None:intergenic 35.0%
!! TGTCATCTTGCTTGATTTGG+AGG + chr7_4:40717922-40717941 None:intergenic 40.0%
! CTGTTACTGTCCCTTTTGTT+TGG - chr7_4:40718002-40718021 Msa1153710:CDS 40.0%
GGTTGAGATTCCCAAACAAA+AGG + chr7_4:40718016-40718035 None:intergenic 40.0%
TTTGTTTGGGAATCTCAACC+TGG - chr7_4:40718016-40718035 Msa1153710:CDS 40.0%
GGTGAAGAAGGTGAATTAGA+GGG + chr7_4:40718214-40718233 None:intergenic 40.0%
AGGTGAAGAAGGTGAATTAG+AGG + chr7_4:40718215-40718234 None:intergenic 40.0%
! AGATGATGATGATGAGTCTG+AGG + chr7_4:40718263-40718282 None:intergenic 40.0%
CTTCCAAAGTTGTTCCAAGA+AGG - chr7_4:40718281-40718300 Msa1153710:CDS 40.0%
! CCAAAGCATAGTGTTGAAGT+AGG + chr7_4:40718373-40718392 None:intergenic 40.0%
CCTACTTCAACACTATGCTT+TGG - chr7_4:40718370-40718389 Msa1153710:CDS 40.0%
TTCTCGTTCAACTAGCACTA+AGG - chr7_4:40718396-40718415 Msa1153710:CDS 40.0%
!! AAGGCTCATAGTGGATTTCT+AGG - chr7_4:40718415-40718434 Msa1153710:CDS 40.0%
!! AGGCTCATAGTGGATTTCTA+GGG - chr7_4:40718416-40718435 Msa1153710:CDS 40.0%
!! GATTTCTAGGGTTCTCCAAA+AGG - chr7_4:40718428-40718447 Msa1153710:CDS 40.0%
TAAGAAGGTGGAGGAGTAAG+AGG + chr7_4:40718079-40718098 None:intergenic 45.0%
CCTCCTTCTTGGAACAACTT+TGG + chr7_4:40718287-40718306 None:intergenic 45.0%
CCAAAGTTGTTCCAAGAAGG+AGG - chr7_4:40718284-40718303 Msa1153710:CDS 45.0%
CTTAGAAAACGCCTCCTTCT+TGG + chr7_4:40718298-40718317 None:intergenic 45.0%
!!! AGGAGGCGTTTTCTAAGCTA+TGG - chr7_4:40718301-40718320 Msa1153710:CDS 45.0%
ACTAGCACTAAGGCTCATAG+TGG - chr7_4:40718406-40718425 Msa1153710:CDS 45.0%
GAAGGTGGAGGAGTAAGAGG+AGG + chr7_4:40718076-40718095 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
chr7_4 gene 40717881 40718453 40717881 ID=Msa1153710;Name=Msa1153710
chr7_4 mRNA 40717881 40718453 40717881 ID=Msa1153710-mRNA-1;Parent=Msa1153710;Name=Msa1153710-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|-1|0|1|-1|1|1|0|190
chr7_4 exon 40717881 40718453 40717881 ID=Msa1153710-mRNA-1:exon:9892;Parent=Msa1153710-mRNA-1
chr7_4 CDS 40717881 40718453 40717881 ID=Msa1153710-mRNA-1:cds;Parent=Msa1153710-mRNA-1
Gene Sequence

>Msa1153710

ATGTTTAGTTCCAAATCTGAGCAACCACAAAAAACTATCCTCCAAATCAAGCAAGATGACAAGTTCTTCTGCAGACTTCTTACAAAAGAAAGTTCCATATCCAATCCATCTTTTAGAGTAGCTGTTACTGTCCCTTTTGTTTGGGAATCTCAACCTGGCACACCAAAATATACTTTCTCTGAGAAAAATCTTCCTCCTCTTACTCCTCCACCTTCTTATTATTCATGCAAAAAAATACCAATCAAGAAAAACTCAAGATCCAATATTTTTCTTGCACTTTTTCCAAAACTAAATCTCAAGAAAAATATTATGTCTTCATCATCTTCATCACCCTCTAATTCACCTTCTTCACCTTATTATTCTTCTGCTTCATGTTCTTCCTCAGACTCATCATCATCATCTTCCAAAGTTGTTCCAAGAAGGAGGCGTTTTCTAAGCTATGGTTCATCTATTGATTTCACAAGAGAAGAAGATGAAGATGCTACTTCACCTACTTCAACACTATGCTTTGGTCTTTCTCGTTCAACTAGCACTAAGGCTCATAGTGGATTTCTAGGGTTCTCCAAAAGGTAA
Protein sequence

>Msa1153710

MFSSKSEQPQKTILQIKQDDKFFCRLLTKESSISNPSFRVAVTVPFVWESQPGTPKYTFSEKNLPPLTPPPSYYSCKKIPIKKNSRSNIFLALFPKLNLKKNIMSSSSSSPSNSPSSPYYSSASCSSSDSSSSSSKVVPRRRRFLSYGSSIDFTREEDEDATSPTSTLCFGLSRSTSTKAHSGFLGFSKR*