AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene06023


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06023.t1 MTR_8g099035 92.517 147 11 0 1 147 81 227 2.85e-96 277
MS.gene06023.t1 MTR_8g028475 38.393 112 68 1 19 130 93 203 2.66e-21 85.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene06023.t1 AT2G46150 33.871 124 80 2 19 141 93 215 1.58e-19 81.3
MS.gene06023.t1 AT3G54200 31.868 91 62 0 25 115 114 204 8.75e-11 58.2

Find 31 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTTGAAACTTCCACTTATA+AGG 0.143507 4.1:+5118692 None:intergenic
TATTGGATTCATTAATATTT+AGG 0.155942 4.1:-5118284 None:intergenic
ATACAAATTCATTCACTTTC+AGG 0.174928 4.1:-5118618 MS.gene06023:CDS
TTCTATAATGGAATTGATAT+TGG 0.258144 4.1:-5118571 MS.gene06023:CDS
AATATGTTCAAGAGGTCAAT+TGG 0.340166 4.1:-5118373 MS.gene06023:CDS
GTTGAAACTTCCACTTATAA+GGG 0.363902 4.1:+5118693 None:intergenic
ACACGTGGTGATAATTGTAT+TGG 0.405537 4.1:-5118301 MS.gene06023:CDS
AATTCATTCACTTTCAGGTA+TGG 0.412565 4.1:-5118613 MS.gene06023:CDS
AGTACTTATACGAAGATCAA+TGG 0.434098 4.1:-5118412 MS.gene06023:CDS
AGCTTGTGGACAATCAAGAT+TGG 0.439651 4.1:-5118468 MS.gene06023:CDS
ATATGTTCAAGAGGTCAATT+GGG 0.448508 4.1:-5118372 MS.gene06023:CDS
AATAGTGTTACCCTTATAAG+TGG 0.474862 4.1:-5118703 MS.gene06023:CDS
ATTCATTCACTTTCAGGTAT+GGG 0.482613 4.1:-5118612 MS.gene06023:CDS
TATAATGGAATTGATATTGG+AGG 0.495203 4.1:-5118568 MS.gene06023:CDS
AGTACATACGATATCCCAAC+AGG 0.525073 4.1:-5118331 MS.gene06023:CDS
AAAAGCTAAGGCGCAAAGAA+CGG 0.530162 4.1:-5118527 MS.gene06023:CDS
CACGTGTGATTGAACCTGTT+GGG 0.532056 4.1:+5118317 None:intergenic
TTCATTCACTTTCAGGTATG+GGG 0.551722 4.1:-5118611 MS.gene06023:CDS
AATGGAATTGATATTGGAGG+AGG 0.560744 4.1:-5118565 MS.gene06023:CDS
CTTATAAGTGGAAGTTTCAA+CGG 0.570737 4.1:-5118691 MS.gene06023:CDS
TGGAGGAGGAATACAACCAC+CGG 0.577353 4.1:-5118551 MS.gene06023:CDS
ACAACCACCGGGAAAAGCTA+AGG 0.582230 4.1:-5118539 MS.gene06023:CDS
AAATATTGAATATGTTCAAG+AGG 0.596331 4.1:-5118381 MS.gene06023:CDS
CCACGTGTGATTGAACCTGT+TGG 0.609505 4.1:+5118316 None:intergenic
CTAAGGCGCAAAGAACGGCA+AGG 0.613584 4.1:-5118522 MS.gene06023:CDS
GGCAAGGGTAAACGTGACAT+TGG 0.620256 4.1:-5118506 MS.gene06023:CDS
TAAGGCGCAAAGAACGGCAA+GGG 0.636962 4.1:-5118521 MS.gene06023:CDS
TATGTTCAAGAGGTCAATTG+GGG 0.679448 4.1:-5118371 MS.gene06023:CDS
GGAGGAGGAATACAACCACC+GGG 0.691763 4.1:-5118550 MS.gene06023:CDS
CCAACAGGTTCAATCACACG+TGG 0.713111 4.1:-5118316 MS.gene06023:CDS
AATTCCATTATAGAAAACAG+TGG 0.718426 4.1:+5118579 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATATTGAATATGTTCAAG+AGG - chr4.1:5118610-5118629 MS.gene06023:CDS 20.0%
!!! TTCTATAATGGAATTGATAT+TGG - chr4.1:5118420-5118439 MS.gene06023:CDS 20.0%
! AATTCCATTATAGAAAACAG+TGG + chr4.1:5118415-5118434 None:intergenic 25.0%
! ATACAAATTCATTCACTTTC+AGG - chr4.1:5118373-5118392 MS.gene06023:CDS 25.0%
!! TATAATGGAATTGATATTGG+AGG - chr4.1:5118423-5118442 MS.gene06023:CDS 25.0%
AATAGTGTTACCCTTATAAG+TGG - chr4.1:5118288-5118307 MS.gene06023:CDS 30.0%
AATATGTTCAAGAGGTCAAT+TGG - chr4.1:5118618-5118637 MS.gene06023:CDS 30.0%
AGTACTTATACGAAGATCAA+TGG - chr4.1:5118579-5118598 MS.gene06023:CDS 30.0%
ATATGTTCAAGAGGTCAATT+GGG - chr4.1:5118619-5118638 MS.gene06023:CDS 30.0%
CTTATAAGTGGAAGTTTCAA+CGG - chr4.1:5118300-5118319 MS.gene06023:CDS 30.0%
GTTGAAACTTCCACTTATAA+GGG + chr4.1:5118301-5118320 None:intergenic 30.0%
! AACACCACTGTTTTCTATAA+TGG - chr4.1:5118408-5118427 MS.gene06023:CDS 30.0%
! AATTCATTCACTTTCAGGTA+TGG - chr4.1:5118378-5118397 MS.gene06023:CDS 30.0%
! ATTCATTCACTTTCAGGTAT+GGG - chr4.1:5118379-5118398 MS.gene06023:CDS 30.0%
AATGGAATTGATATTGGAGG+AGG - chr4.1:5118426-5118445 MS.gene06023:CDS 35.0%
ACACGTGGTGATAATTGTAT+TGG - chr4.1:5118690-5118709 MS.gene06023:CDS 35.0%
CGTTGAAACTTCCACTTATA+AGG + chr4.1:5118302-5118321 None:intergenic 35.0%
GATTAATGCGAAAAAGCTTG+TGG - chr4.1:5118509-5118528 MS.gene06023:CDS 35.0%
TATGTTCAAGAGGTCAATTG+GGG - chr4.1:5118620-5118639 MS.gene06023:CDS 35.0%
! TTCATTCACTTTCAGGTATG+GGG - chr4.1:5118380-5118399 MS.gene06023:CDS 35.0%
AAAAGCTAAGGCGCAAAGAA+CGG - chr4.1:5118464-5118483 MS.gene06023:CDS 40.0%
AGCTTGTGGACAATCAAGAT+TGG - chr4.1:5118523-5118542 MS.gene06023:CDS 40.0%
AGTACATACGATATCCCAAC+AGG - chr4.1:5118660-5118679 MS.gene06023:CDS 40.0%
CACGTGTGATTGAACCTGTT+GGG + chr4.1:5118677-5118696 None:intergenic 45.0%
ACAACCACCGGGAAAAGCTA+AGG - chr4.1:5118452-5118471 MS.gene06023:CDS 50.0%
CCAACAGGTTCAATCACACG+TGG - chr4.1:5118675-5118694 MS.gene06023:CDS 50.0%
CCACGTGTGATTGAACCTGT+TGG + chr4.1:5118678-5118697 None:intergenic 50.0%
GGCAAGGGTAAACGTGACAT+TGG - chr4.1:5118485-5118504 MS.gene06023:CDS 50.0%
TAAGGCGCAAAGAACGGCAA+GGG - chr4.1:5118470-5118489 MS.gene06023:CDS 50.0%
TGGAGGAGGAATACAACCAC+CGG - chr4.1:5118440-5118459 MS.gene06023:CDS 50.0%
!! CTTTGCGCCTTAGCTTTTCC+CGG + chr4.1:5118462-5118481 None:intergenic 50.0%
CTAAGGCGCAAAGAACGGCA+AGG - chr4.1:5118469-5118488 MS.gene06023:CDS 55.0%
GGAGGAGGAATACAACCACC+GGG - chr4.1:5118441-5118460 MS.gene06023:CDS 55.0%
!! TGCGCCTTAGCTTTTCCCGG+TGG + chr4.1:5118459-5118478 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 5118285 5118728 5118285 ID=MS.gene06023
chr4.1 mRNA 5118285 5118728 5118285 ID=MS.gene06023.t1;Parent=MS.gene06023
chr4.1 exon 5118285 5118728 5118285 ID=MS.gene06023.t1.exon1;Parent=MS.gene06023.t1
chr4.1 CDS 5118285 5118728 5118285 ID=cds.MS.gene06023.t1;Parent=MS.gene06023.t1
Gene Sequence

>MS.gene06023

ATGAATAGTGTTACCCTTATAAGTGGAAGTTTCAACGGTAGCAACGCTTCGAATAACGTTACAATTCTTGCTGATATGTCTGTGAAGAATACAAATTCATTCACTTTCAGGTATGGGGCAGCAAACACCACTGTTTTCTATAATGGAATTGATATTGGAGGAGGAATACAACCACCGGGAAAAGCTAAGGCGCAAAGAACGGCAAGGGTAAACGTGACATTGGTGATTAATGCGAAAAAGCTTGTGGACAATCAAGATTGGATTATTGATGTTAGAGATCAAGCTTTGAATTTCAGTACTTATACGAAGATCAATGGAAAAGTGAAAATATTGAATATGTTCAAGAGGTCAATTGGGGTTGAGTTGAATTGTACTAGTACATACGATATCCCAACAGGTTCAATCACACGTGGTGATAATTGTATTGGATTCATTAATATTTAG

Protein sequence

>MS.gene06023.t1

MNSVTLISGSFNGSNASNNVTILADMSVKNTNSFTFRYGAANTTVFYNGIDIGGGIQPPGKAKAQRTARVNVTLVINAKKLVDNQDWIIDVRDQALNFSTYTKINGKVKILNMFKRSIGVELNCTSTYDIPTGSITRGDNCIGFINI