AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60685

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60685.t1 MTR_1g098690 96.729 214 7 0 1 214 1 214 4.94e-151 418
MS.gene60685.t1 MTR_1246s0010 58.503 147 54 4 1 144 1 143 6.95e-48 154
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60685.t1 AT1G76770 55.118 127 54 1 1 124 1 127 1.89e-40 138
MS.gene60685.t1 AT1G76780 51.181 127 59 1 1 124 1 127 8.81e-35 130
MS.gene60685.t1 AT1G76780 51.181 127 59 1 1 124 1 127 8.81e-35 130

Find 38 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGTCCACCTTTGGTTCT+TGG 0.114619 1.2:-70758871 MS.gene60685:CDS
AATCCCTAATGGAGTTGTTT+TGG 0.253932 1.2:-70759136 MS.gene60685:CDS
CTAGGACGTCTCTTCTTAAC+AGG 0.266778 1.2:+70758907 None:intergenic
TCTTCTCTTGCACTTTGTTC+TGG 0.267416 1.2:+70758970 None:intergenic
AAGAAAGAGCTGAAAATAAA+AGG 0.299279 1.2:-70759177 MS.gene60685:CDS
TTATCCAAAACAACTCCATT+AGG 0.309228 1.2:+70759132 None:intergenic
GACAGGTCCTGCTCTGTCTT+TGG 0.343396 1.2:+70759647 None:intergenic
TATCCAAAACAACTCCATTA+GGG 0.362753 1.2:+70759133 None:intergenic
ATTGCTATGGAGGTTGAGTT+AGG 0.385137 1.2:-70759726 None:intergenic
ATGGCAACCTTGTCCACCTT+TGG 0.390972 1.2:-70758878 MS.gene60685:CDS
AAGAAGTTTAAAATCCCTAA+TGG 0.416386 1.2:-70759147 MS.gene60685:CDS
GTCTTTGGCAAACTGAAAAT+CGG 0.424320 1.2:+70759662 None:intergenic
TGTCCACCTTTGGTTCTTGG+AGG 0.424444 1.2:-70758868 MS.gene60685:CDS
GGCAAACTGAAAATCGGAAA+TGG 0.448387 1.2:+70759668 None:intergenic
CTGAAAATCGGAAATGGAAG+TGG 0.492573 1.2:+70759674 None:intergenic
CAGTTTGCCAAAGACAGAGC+AGG 0.497784 1.2:-70759654 MS.gene60685:CDS
AGAAGAAGTGAAGGAAGAAG+AGG 0.509148 1.2:-70759016 MS.gene60685:CDS
AAGTGCAAGAGAAGAAGTAA+AGG 0.509195 1.2:-70758962 MS.gene60685:CDS
GTTTCTTTAGATAAGAAGAC+AGG 0.514312 1.2:+70759630 None:intergenic
TAGCAAAAGGAGTGCTGAGT+GGG 0.529464 1.2:-70759047 MS.gene60685:CDS
GACATCAACATTAACAAAGA+TGG 0.531815 1.2:-70759258 MS.gene60685:CDS
AAAGGAGTGCTGAGTGGGGT+GGG 0.541345 1.2:-70759042 MS.gene60685:CDS
GAAGAAGTGAAGGAAGAAGA+GGG 0.550743 1.2:-70759015 MS.gene60685:CDS
CCAAGAACCAAAGGTGGACA+AGG 0.550847 1.2:+70758871 None:intergenic
TACAGATGATAAGAGTGAAG+AGG 0.565214 1.2:-70758938 MS.gene60685:CDS
CAAAGCTAAGTATTACGAAG+AGG 0.566739 1.2:-70759106 MS.gene60685:CDS
ACCTTTGAGATGTGCTGTGA+GGG 0.582015 1.2:+70759593 None:intergenic
GCTAAGTATTACGAAGAGGA+AGG 0.582114 1.2:-70759102 MS.gene60685:CDS
ACCCTCACAGCACATCTCAA+AGG 0.582279 1.2:-70759594 MS.gene60685:intron
AAAAGGAGTGCTGAGTGGGG+TGG 0.583010 1.2:-70759043 MS.gene60685:CDS
AAAGGTGGACAAGGTTGCCA+TGG 0.584568 1.2:+70758880 None:intergenic
GGTGGGAATAGAAGAAGTGA+AGG 0.616063 1.2:-70759025 MS.gene60685:CDS
GTTGATCCTCCAAGAACCAA+AGG 0.621557 1.2:+70758862 None:intergenic
GATCCTCCAAGAACCAAAGG+TGG 0.669806 1.2:+70758865 None:intergenic
AGCAAAAGGAGTGCTGAGTG+GGG 0.706883 1.2:-70759046 MS.gene60685:CDS
AACCTTTGAGATGTGCTGTG+AGG 0.714535 1.2:+70759592 None:intergenic
AGAGACGTCCTAGAAAACCA+TGG 0.719572 1.2:-70758897 MS.gene60685:CDS
ATAGCAAAAGGAGTGCTGAG+TGG 0.729591 1.2:-70759048 MS.gene60685:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGAAAGAGCTGAAAATAAA+AGG - chr1.2:70759347-70759366 MS.gene60685:intron 25.0%
! ATATGTTCATCATATCAACA+TGG + chr1.2:70759222-70759241 None:intergenic 25.0%
!! AAGAAGTTTAAAATCCCTAA+TGG - chr1.2:70759377-70759396 MS.gene60685:intron 25.0%
CAACATGGTATCATTAACAT+AGG + chr1.2:70759207-70759226 None:intergenic 30.0%
GACATCAACATTAACAAAGA+TGG - chr1.2:70759266-70759285 MS.gene60685:CDS 30.0%
GTTTCTTTAGATAAGAAGAC+AGG + chr1.2:70758897-70758916 None:intergenic 30.0%
TATCCAAAACAACTCCATTA+GGG + chr1.2:70759394-70759413 None:intergenic 30.0%
TTATCCAAAACAACTCCATT+AGG + chr1.2:70759395-70759414 None:intergenic 30.0%
TTGATATGATGAACATATGC+AGG - chr1.2:70759224-70759243 MS.gene60685:CDS 30.0%
! ATTTTCAGCTCTTTCTTGAA+TGG + chr1.2:70759344-70759363 None:intergenic 30.0%
AAGTGCAAGAGAAGAAGTAA+AGG - chr1.2:70759562-70759581 MS.gene60685:intron 35.0%
CAAAGCTAAGTATTACGAAG+AGG - chr1.2:70759418-70759437 MS.gene60685:intron 35.0%
CCAAAAACGGAAATAGCAAA+AGG - chr1.2:70759464-70759483 MS.gene60685:intron 35.0%
GAGAATAGTGATGCCAAAAA+CGG - chr1.2:70759451-70759470 MS.gene60685:intron 35.0%
GGTACAAAAATTTCAGTGAG+TGG - chr1.2:70759287-70759306 MS.gene60685:intron 35.0%
GTCTTTGGCAAACTGAAAAT+CGG + chr1.2:70758865-70758884 None:intergenic 35.0%
TACAGATGATAAGAGTGAAG+AGG - chr1.2:70759586-70759605 MS.gene60685:intron 35.0%
! AATCCCTAATGGAGTTGTTT+TGG - chr1.2:70759388-70759407 MS.gene60685:intron 35.0%
!!! CCTTTTGCTATTTCCGTTTT+TGG + chr1.2:70759467-70759486 None:intergenic 35.0%
AGAAGAAGTGAAGGAAGAAG+AGG - chr1.2:70759508-70759527 MS.gene60685:intron 40.0%
CTGAAAATCGGAAATGGAAG+TGG + chr1.2:70758853-70758872 None:intergenic 40.0%
GAAGAAGTGAAGGAAGAAGA+GGG - chr1.2:70759509-70759528 MS.gene60685:intron 40.0%
GCTAAGTATTACGAAGAGGA+AGG - chr1.2:70759422-70759441 MS.gene60685:intron 40.0%
GGCAAACTGAAAATCGGAAA+TGG + chr1.2:70758859-70758878 None:intergenic 40.0%
TCTTCTCTTGCACTTTGTTC+TGG + chr1.2:70759557-70759576 None:intergenic 40.0%
AGAGACGTCCTAGAAAACCA+TGG - chr1.2:70759627-70759646 MS.gene60685:CDS 45.0%
CCACTTGTAAGACTGTTCGA+CGG - chr1.2:70759027-70759046 MS.gene60685:CDS 45.0%
CTAGGACGTCTCTTCTTAAC+AGG + chr1.2:70759620-70759639 None:intergenic 45.0%
GGTGGGAATAGAAGAAGTGA+AGG - chr1.2:70759499-70759518 MS.gene60685:intron 45.0%
GTTGATCCTCCAAGAACCAA+AGG + chr1.2:70759665-70759684 None:intergenic 45.0%
! CAAGGTTGCCATGGTTTTCT+AGG + chr1.2:70759638-70759657 None:intergenic 45.0%
!! AACCTTTGAGATGTGCTGTG+AGG + chr1.2:70758935-70758954 None:intergenic 45.0%
!! ACCTTTGAGATGTGCTGTGA+GGG + chr1.2:70758934-70758953 None:intergenic 45.0%
!! ATAGCAAAAGGAGTGCTGAG+TGG - chr1.2:70759476-70759495 MS.gene60685:intron 45.0%
!! TAGCAAAAGGAGTGCTGAGT+GGG - chr1.2:70759477-70759496 MS.gene60685:intron 45.0%
AAAGGTGGACAAGGTTGCCA+TGG + chr1.2:70759647-70759666 None:intergenic 50.0%
ACCCTCACAGCACATCTCAA+AGG - chr1.2:70758930-70758949 MS.gene60685:CDS 50.0%
ATGGCAACCTTGTCCACCTT+TGG - chr1.2:70759646-70759665 MS.gene60685:CDS 50.0%
CAGTTTGCCAAAGACAGAGC+AGG - chr1.2:70758870-70758889 MS.gene60685:CDS 50.0%
CCAAGAACCAAAGGTGGACA+AGG + chr1.2:70759656-70759675 None:intergenic 50.0%
CCGTCGAACAGTCTTACAAG+TGG + chr1.2:70759030-70759049 None:intergenic 50.0%
GATCCTCCAAGAACCAAAGG+TGG + chr1.2:70759662-70759681 None:intergenic 50.0%
!! AGCAAAAGGAGTGCTGAGTG+GGG - chr1.2:70759478-70759497 MS.gene60685:intron 50.0%
!! CCTTGTCCACCTTTGGTTCT+TGG - chr1.2:70759653-70759672 MS.gene60685:CDS 50.0%
!! TGTCCACCTTTGGTTCTTGG+AGG - chr1.2:70759656-70759675 MS.gene60685:CDS 50.0%
GACAGGTCCTGCTCTGTCTT+TGG + chr1.2:70758880-70758899 None:intergenic 55.0%
!! AAAAGGAGTGCTGAGTGGGG+TGG - chr1.2:70759481-70759500 MS.gene60685:intron 55.0%
!! AAAGGAGTGCTGAGTGGGGT+GGG - chr1.2:70759482-70759501 MS.gene60685:intron 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 70758804 70759742 70758804 ID=MS.gene60685
chr1.2 mRNA 70758804 70759742 70758804 ID=MS.gene60685.t1;Parent=MS.gene60685
chr1.2 exon 70759595 70759742 70759595 ID=MS.gene60685.t1.exon1;Parent=MS.gene60685.t1
chr1.2 CDS 70759595 70759742 70759595 ID=cds.MS.gene60685.t1;Parent=MS.gene60685.t1
chr1.2 exon 70758804 70759300 70758804 ID=MS.gene60685.t1.exon2;Parent=MS.gene60685.t1
chr1.2 CDS 70758804 70759300 70758804 ID=cds.MS.gene60685.t1;Parent=MS.gene60685.t1
Gene Sequence

>MS.gene60685

ATGGAGGTTGAGTTAGGTCTAAAGATTACAAGAACAAAAGATGACACCACTTCCATTTCCGATTTTCAGTTTGCCAAAGACAGAGCAGGACCTGTCTTCTTATCTAAAGAAACTGATGCAACTTTCACCCTCACAGCACATCTCAAAGGTTTCTTCACAATCAACTCTTTTAAATTATGTTATTCACTTAAGAGTCTGTTTGAATTTGCTTATTTGAGCATAACCACTTGTAAGACTGTTCGACGGAGTTTATGAAAACATCTTATGATAGCTTGTGAAAACAAATTAAATTTTATTTTAACTTTTGTTATCAAAATAGTTCATGCATAAACACTTATACATGAGATTATACTATACTTATTTAAATAAAGTTGTTTATTATTTTTGTTTTCTTCTATTTCCTATGTTAATGATACCATGTTGATATGATGAACATATGCAGGTTATAAGAAAGAGAACATTGACATCAACATTAACAAAGATGGTACAAAAATTTCAGTGAGTGGAGAAAAAGAAGTACAAGAAATGCAGATGATACCATTCAAGAAAGAGCTGAAAATAAAAGGATTTAGAAAGAAGTTTAAAATCCCTAATGGAGTTGTTTTGGATAAGATCAAAGCTAAGTATTACGAAGAGGAAGGAGTGCTGAGAATAGTGATGCCAAAAACGGAAATAGCAAAAGGAGTGCTGAGTGGGGTGGGAATAGAAGAAGTGAAGGAAGAAGAGGGTGCAAGTAGCATTATAGAAGAACCAGAACAAAGTGCAAGAGAAGAAGTAAAGGTTACAGATGATAAGAGTGAAGAGGAAAATGCTCCTGTTAAGAAGAGACGTCCTAGAAAACCATGGCAACCTTGTCCACCTTTGGTTCTTGGAGGATCAACTTTGCTTGTATCTATTATCTTTCTTGTAATGCACTATATTAGAGTGAGAAAGAGTTGA
Protein sequence

>MS.gene60685.t1

MEVELGLKITRTKDDTTSISDFQFAKDRAGPVFLSKETDATFTLTAHLKGYKKENIDININKDGTKISVSGEKEVQEMQMIPFKKELKIKGFRKKFKIPNGVVLDKIKAKYYEEEGVLRIVMPKTEIAKGVLSGVGIEEVKEEEGASSIIEEPEQSAREEVKVTDDKSEEENAPVKKRRPRKPWQPCPPLVLGGSTLLVSIIFLVMHYIRVRKS