AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene84723

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene84723.t1 MTR_8g026960 77.178 241 6 2 1 192 1 241 2.11e-126 355
MS.gene84723.t1 MTR_3g092150 31.553 206 93 5 35 192 40 245 1.76e-16 75.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene84723.t1 AT2G46680 35.573 253 94 7 8 192 7 258 9.59e-29 107
MS.gene84723.t1 AT2G46680 36.653 251 92 8 8 192 7 256 1.79e-28 107
MS.gene84723.t1 AT3G61890 38.389 211 68 7 36 192 33 235 1.56e-26 101

Find 23 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTACTCTGACTTTGCTCTAT+TGG 0.221851 8.3:+67409592 None:intergenic
GCTAATTGCAACTTCTTTCT+TGG 0.222692 8.3:+67410156 None:intergenic
ATTATCAATGGTGGGACTTT+TGG 0.297638 8.3:-67409291 MS.gene84723:CDS
TTTGAATCAAATGATTTGTT+AGG 0.319546 8.3:-67409328 MS.gene84723:CDS
TCAAAAGCACTCCAATCTTC+TGG 0.368233 8.3:+67409346 None:intergenic
ATGGAAAGTGCAGCAGAAAA+TGG 0.377944 8.3:-67409544 MS.gene84723:CDS
TGTTCTGATCTTTCCATTGA+AGG 0.384421 8.3:+67409484 None:intergenic
CTTTAACATCACCAGAAGAT+TGG 0.390865 8.3:-67409357 MS.gene84723:CDS
TGATGAACAAATCAAATCAT+TGG 0.409448 8.3:-67410211 MS.gene84723:CDS
TTTGGTTTAGAAGATGAAAC+TGG 0.409611 8.3:-67409412 MS.gene84723:CDS
AGCATAAAAGTTGAATACTT+TGG 0.419671 8.3:-67409430 MS.gene84723:CDS
GATCTTTCCATTGAAGGACT+TGG 0.420894 8.3:+67409490 None:intergenic
TTGCAATTAGCTAGAGAGCT+TGG 0.453561 8.3:-67410144 MS.gene84723:CDS
AACCATATAGCAACTTGTCT+TGG 0.480304 8.3:+67410114 None:intergenic
GGTGAAACCAAGTCCTTCAA+TGG 0.505148 8.3:-67409497 MS.gene84723:CDS
TATAGTTATTCAGCAGAAGC+AGG 0.509566 8.3:-67410309 MS.gene84723:CDS
AATCAAGTTGTGATTATCAA+TGG 0.520398 8.3:-67409303 MS.gene84723:CDS
AACAATCAAATGTGAGGCTG+AGG 0.535331 8.3:-67409518 MS.gene84723:CDS
CAAGTTGTGATTATCAATGG+TGG 0.557189 8.3:-67409300 MS.gene84723:CDS
AAGTTGTGATTATCAATGGT+GGG 0.604345 8.3:-67409299 MS.gene84723:CDS
AGTTAAAGAAGCAAACAGCA+TGG 0.635070 8.3:-67409563 MS.gene84723:CDS
TGGAGGAACAATCAAATGTG+AGG 0.637358 8.3:-67409524 MS.gene84723:CDS
GAAAGTGCAGCAGAAAATGG+AGG 0.672573 8.3:-67409541 MS.gene84723:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAAACATTAAAATTGAAT+TGG + chr8.3:67409728-67409747 None:intergenic 10.0%
!! TCAAAATAGTTACAATAATT+TGG - chr8.3:67409575-67409594 MS.gene84723:CDS 15.0%
!! TGCGAAATTATTATTAATAA+CGG - chr8.3:67409775-67409794 MS.gene84723:intron 15.0%
!! GAAATTATTATTAATAACGG+TGG - chr8.3:67409778-67409797 MS.gene84723:intron 20.0%
!! TAATCATATAGTAATTTGAC+TGG - chr8.3:67409950-67409969 MS.gene84723:intron 20.0%
!!! ATGAATTTTTTTGCTTAGAA+TGG - chr8.3:67409683-67409702 MS.gene84723:intron 20.0%
!!! TTTGAATCAAATGATTTGTT+AGG - chr8.3:67410281-67410300 MS.gene84723:CDS 20.0%
! AAAGTTTGAATCTATGAAGA+AGG - chr8.3:67409602-67409621 MS.gene84723:CDS 25.0%
! AAGACAAACATTACTAATAC+AGG - chr8.3:67409626-67409645 MS.gene84723:intron 25.0%
! AGAAAAACAAGAATACAAAG+AGG - chr8.3:67409370-67409389 MS.gene84723:CDS 25.0%
! AGCATAAAAGTTGAATACTT+TGG - chr8.3:67410179-67410198 MS.gene84723:CDS 25.0%
! ATCTTGTCAACATTTCAAAA+TGG + chr8.3:67409751-67409770 None:intergenic 25.0%
! TGATGAACAAATCAAATCAT+TGG - chr8.3:67409398-67409417 MS.gene84723:CDS 25.0%
!! AATCAAGTTGTGATTATCAA+TGG - chr8.3:67410306-67410325 MS.gene84723:CDS 25.0%
AAGTTGTGATTATCAATGGT+GGG - chr8.3:67410310-67410329 MS.gene84723:CDS 30.0%
TTCAAAACAAAAGAGCTAGA+TGG - chr8.3:67409517-67409536 MS.gene84723:CDS 30.0%
! TTTGGTTTAGAAGATGAAAC+TGG - chr8.3:67410197-67410216 MS.gene84723:CDS 30.0%
!! CTTGTTTTTCTTCTTTCTCA+TGG + chr8.3:67409361-67409380 None:intergenic 30.0%
AACCATATAGCAACTTGTCT+TGG + chr8.3:67409498-67409517 None:intergenic 35.0%
AGTTAAAGAAGCAAACAGCA+TGG - chr8.3:67410046-67410065 MS.gene84723:intron 35.0%
CAAGTTGTGATTATCAATGG+TGG - chr8.3:67410309-67410328 MS.gene84723:CDS 35.0%
CTTTAACATCACCAGAAGAT+TGG - chr8.3:67410252-67410271 MS.gene84723:CDS 35.0%
GCTAATTGCAACTTCTTTCT+TGG + chr8.3:67409456-67409475 None:intergenic 35.0%
TATAGTTATTCAGCAGAAGC+AGG - chr8.3:67409300-67409319 MS.gene84723:CDS 35.0%
TGTTCTGATCTTTCCATTGA+AGG + chr8.3:67410128-67410147 None:intergenic 35.0%
! AATTTTGCTGAACATGCTGA+TGG - chr8.3:67410227-67410246 MS.gene84723:CDS 35.0%
! GATTGACTTTGTATCTTCAG+TGG + chr8.3:67409835-67409854 None:intergenic 35.0%
!! ATTATCAATGGTGGGACTTT+TGG - chr8.3:67410318-67410337 MS.gene84723:CDS 35.0%
AACAATCAAATGTGAGGCTG+AGG - chr8.3:67410091-67410110 MS.gene84723:intron 40.0%
AGCCAAGACAAGTTGCTATA+TGG - chr8.3:67409493-67409512 MS.gene84723:CDS 40.0%
CTAATGACCATCGTGTTCAT+CGG + chr8.3:67409877-67409896 None:intergenic 40.0%
CTACTCTGACTTTGCTCTAT+TGG + chr8.3:67410020-67410039 None:intergenic 40.0%
GATCTTTCCATTGAAGGACT+TGG + chr8.3:67410122-67410141 None:intergenic 40.0%
GATGAACACGATGGTCATTA+GGG - chr8.3:67409876-67409895 MS.gene84723:intron 40.0%
TGGAGGAACAATCAAATGTG+AGG - chr8.3:67410085-67410104 MS.gene84723:intron 40.0%
TTGCAATTAGCTAGAGAGCT+TGG - chr8.3:67409465-67409484 MS.gene84723:CDS 40.0%
! ATGGAAAGTGCAGCAGAAAA+TGG - chr8.3:67410065-67410084 MS.gene84723:intron 40.0%
!! TCAAAAGCACTCCAATCTTC+TGG + chr8.3:67410266-67410285 None:intergenic 40.0%
CGATGAACACGATGGTCATT+AGG - chr8.3:67409875-67409894 MS.gene84723:intron 45.0%
GGTGAAACCAAGTCCTTCAA+TGG - chr8.3:67410112-67410131 MS.gene84723:intron 45.0%
GTTCATCGGTATCAACTCAG+TGG + chr8.3:67409863-67409882 None:intergenic 45.0%
GTTGATACCGATGAACACGA+TGG - chr8.3:67409867-67409886 MS.gene84723:intron 45.0%
! GAAAGTGCAGCAGAAAATGG+AGG - chr8.3:67410068-67410087 MS.gene84723:intron 45.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 67409285 67410346 67409285 ID=MS.gene84723
chr8.3 mRNA 67409285 67410346 67409285 ID=MS.gene84723.t1;Parent=MS.gene84723
chr8.3 exon 67410128 67410346 67410128 ID=MS.gene84723.t1.exon1;Parent=MS.gene84723.t1
chr8.3 CDS 67410128 67410346 67410128 ID=cds.MS.gene84723.t1;Parent=MS.gene84723.t1
chr8.3 exon 67409285 67409644 67409285 ID=MS.gene84723.t1.exon2;Parent=MS.gene84723.t1
chr8.3 CDS 67409285 67409644 67409285 ID=cds.MS.gene84723.t1;Parent=MS.gene84723.t1
Gene Sequence

>MS.gene84723

ATGGAATATAGTCAATATAGTTATTCAGCAGAAGCAGGAGAAGAAGAAACATACACAACTAGTAGCACATCTTCCATGAGAAAGAAGAAAAACAAGAATACAAAGAGGTTTAGTGATGAACAAATCAAATCATTGGAAACTATGTTTGAGACTGAGACAAGACTTGAACCAAGAAAGAAGTTGCAATTAGCTAGAGAGCTTGGATTGCAGCCAAGACAAGTTGCTATATGGTTTCAAAACAAAAGAGCTAGATGGAAATCAAAGCAACTTGAAAGAGAATACAACAAACTTCAAAATAGTTACAATAATTTGGCTTCAAAGTTTGAATCTATGAAGAAGGAAAGACAAACATTACTAATACAGGTACTTAGTAGTTGCTAATTAGTAATAATTTTCATATGAATTTTTTTGCTTAGAATGGACTAACATATGTCATATATCCAATTCAATTTTAATGTTTAATCCATTTTGAAATGTTGACAAGATATCGTGCGAAATTATTATTAATAACGGTGGCACTAATAGTTATTTTACAATTGTCACATGTCCACTGAAGATACAAAGTCAATCTCTTACCACTGAGTTGATACCGATGAACACGATGGTCATTAGGGTCACTTAAATTACTAATATATTACATTTTGTATTGATTATTATCATATAGTTAATCATATAGTAATTTGACTGGTTTTCATTCAACAGTTGCAGAAGCTGAATGATCTAATACAAAAGCCAATAGAGCAAAGTCAGAGTAGTTCACAAGTTAAAGAAGCAAACAGCATGGAAAGTGCAGCAGAAAATGGAGGAACAATCAAATGTGAGGCTGAGGTGAAACCAAGTCCTTCAATGGAAAGATCAGAACATGTACTTGATGTTCTATCAGATGATGATACAAGCATAAAAGTTGAATACTTTGGTTTAGAAGATGAAACTGGTCTTATGAATTTTGCTGAACATGCTGATGGTTCTTTAACATCACCAGAAGATTGGAGTGCTTTTGAATCAAATGATTTGTTAGGTCAATCAAGTTGTGATTATCAATGGTGGGACTTTTGGTCTTGA
Protein sequence

>MS.gene84723.t1

MEYSQYSYSAEAGEEETYTTSSTSSMRKKKNKNTKRFSDEQIKSLETMFETETRLEPRKKLQLARELGLQPRQLQKLNDLIQKPIEQSQSSSQVKEANSMESAAENGGTIKCEAEVKPSPSMERSEHVLDVLSDDDTSIKVEYFGLEDETGLMNFAEHADGSLTSPEDWSAFESNDLLGQSSCDYQWWDFWS