AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene68268

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene68268.t1 MTR_4g039380 82.906 117 19 1 1 116 1 117 4.91e-60 180
MS.gene68268.t1 MTR_4g039340 74.046 131 19 2 1 116 1 131 1.94e-55 169
MS.gene68268.t1 MTR_4g039640 78.632 117 24 1 1 116 1 117 2.42e-48 150
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 17 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTGGTTCAGGCTGATTATT+TGG 0.174092 4.3:+61443357 None:intergenic
TCTCATTCATCTGGTGTATA+AGG 0.203991 4.3:+61443156 None:intergenic
ACTCGATTCTAATATAAAAT+CGG 0.323743 4.3:+61443395 None:intergenic
CTCATTCATCTGGTGTATAA+GGG 0.375685 4.3:+61443157 None:intergenic
CTCGATTCTAATATAAAATC+GGG 0.421980 4.3:+61443396 None:intergenic
GGAGGTTGGTTCAAGTCAAA+TGG 0.461699 4.3:+61443204 None:intergenic
TTGAGGTCGAAAGCTCGAAC+AGG 0.496472 4.3:+61443183 None:intergenic
TCAGGCTGATTATTTGGTGG+TGG 0.505165 4.3:+61443363 None:intergenic
AAGTCAAATGGTTGCACATG+TGG 0.522527 4.3:+61443216 None:intergenic
AATGGTTGCACATGTGGAGG+TGG 0.555990 4.3:+61443222 None:intergenic
GGTTCAGGCTGATTATTTGG+TGG 0.558373 4.3:+61443360 None:intergenic
CGAAAGCTCGAACAGGAGGT+TGG 0.564077 4.3:+61443190 None:intergenic
ACTGCTAAAGCTTCTCGAGA+TGG 0.596385 4.3:+61443441 None:intergenic
CTGGTGTATAAGGGAGATTG+AGG 0.611261 4.3:+61443166 None:intergenic
ATATTAGAATCGAGTAAACA+AGG 0.624706 4.3:-61443387 MS.gene68268:CDS
AGGTCGAAAGCTCGAACAGG+AGG 0.636300 4.3:+61443186 None:intergenic
TCAAATGGTTGCACATGTGG+AGG 0.671560 4.3:+61443219 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTCGATTCTAATATAAAAT+CGG + chr4.3:61443252-61443271 None:intergenic 20.0%
! ATATTAGAATCGAGTAAACA+AGG - chr4.3:61443257-61443276 MS.gene68268:CDS 25.0%
! CTCGATTCTAATATAAAATC+GGG + chr4.3:61443251-61443270 None:intergenic 25.0%
! TGTTCAACATTTTGTGGTTG+AGG + chr4.3:61443323-61443342 None:intergenic 35.0%
! TGTTGTTCAACATTTTGTGG+TGG + chr4.3:61443368-61443387 None:intergenic 35.0%
!! GGTTGATGTTCAACATTTTG+TGG + chr4.3:61443329-61443348 None:intergenic 35.0%
!! GGTTGTTGTTCAACATTTTG+TGG + chr4.3:61443371-61443390 None:intergenic 35.0%
AAGTCAAATGGTTGCACATG+TGG + chr4.3:61443431-61443450 None:intergenic 40.0%
! TCTGGTTCAGGCTGATTATT+TGG + chr4.3:61443290-61443309 None:intergenic 40.0%
ACTGCTAAAGCTTCTCGAGA+TGG + chr4.3:61443206-61443225 None:intergenic 45.0%
CTGGTGTATAAGGGAGATTG+AGG + chr4.3:61443481-61443500 None:intergenic 45.0%
GGTTCAGGCTGATTATTTGG+TGG + chr4.3:61443287-61443306 None:intergenic 45.0%
TCAAATGGTTGCACATGTGG+AGG + chr4.3:61443428-61443447 None:intergenic 45.0%
! GGAGGTTGGTTCAAGTCAAA+TGG + chr4.3:61443443-61443462 None:intergenic 45.0%
! GGTTGAGGTTGAGCATTTTC+TGG + chr4.3:61443308-61443327 None:intergenic 45.0%
! TCAGGCTGATTATTTGGTGG+TGG + chr4.3:61443284-61443303 None:intergenic 45.0%
!! TCAACATTTTGTGGTGGAGC+TGG + chr4.3:61443362-61443381 None:intergenic 45.0%
!!! GGTTGAGCATTTTCTGGTTC+AGG + chr4.3:61443302-61443321 None:intergenic 45.0%
AATGGTTGCACATGTGGAGG+TGG + chr4.3:61443425-61443444 None:intergenic 50.0%
TTGAGGTCGAAAGCTCGAAC+AGG + chr4.3:61443464-61443483 None:intergenic 50.0%
! TGTGGAGGTGGTGCATTTTG+TGG + chr4.3:61443413-61443432 None:intergenic 50.0%
AGGTCGAAAGCTCGAACAGG+AGG + chr4.3:61443461-61443480 None:intergenic 55.0%
CGAAAGCTCGAACAGGAGGT+TGG + chr4.3:61443457-61443476 None:intergenic 55.0%
! GGAGGTGGTGCATTTTGTGG+TGG + chr4.3:61443410-61443429 None:intergenic 55.0%
! GGTGGAGCTGGTGCATTTTG+TGG + chr4.3:61443350-61443369 None:intergenic 55.0%
!! GGTGCATTTTGTGGTGGAGC+TGG + chr4.3:61443404-61443423 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 61443158 61443508 61443158 ID=MS.gene68268
chr4.3 mRNA 61443158 61443508 61443158 ID=MS.gene68268.t1;Parent=MS.gene68268
chr4.3 exon 61443158 61443508 61443158 ID=MS.gene68268.t1.exon1;Parent=MS.gene68268.t1
chr4.3 CDS 61443158 61443508 61443158 ID=cds.MS.gene68268.t1;Parent=MS.gene68268.t1
Gene Sequence

>MS.gene68268

ATGTCAAAGCTAGAATTCTTATGCAGTGAATGTGACACAATGTTTCCATCTCGAGAAGCTTTAGCAGTGCATGTTATCGAAGAACATCATCCCGATTTTATATTAGAATCGAGTAAACAAGGTCCACCACCAAATAATCAGCCTGAACCAGAAAATGCTCAACCTCAACCACAAAATGTTGAACATCAACCACAAAATGCACCAGCTCCACCACAAAATGTTGAACAACAACCACAAAATGCACCAGCTCCACCACAAAATGCACCACCTCCACATGTGCAACCATTTGACTTGAACCAACCTCCTGTTCGAGCTTTCGACCTCAATCTCCCTTATACACCAGATGAATGA
Protein sequence

>MS.gene68268.t1

MSKLEFLCSECDTMFPSREALAVHVIEEHHPDFILESSKQGPPPNNQPEPENAQPQPQNVEHQPQNAPAPPQNVEQQPQNAPAPPQNAPPPHVQPFDLNQPPVRAFDLNLPYTPDE