AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55563

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55563.t1 MTR_6g026850 85.256 156 21 1 1 154 126 281 2.46e-79 236
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 21 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTTCTTATAAGAGATAT+TGG 0.289082 6.2:+18196273 None:intergenic
CGATCATCATCTTCATCATT+TGG 0.296610 6.2:+18196084 None:intergenic
AGAGCTTGAATTTGAGGTTT+TGG 0.316634 6.2:+18196171 None:intergenic
TTTGGTGTCAACTTGTCTTT+TGG 0.332819 6.2:+18196102 None:intergenic
TGTTGGAGAGCTTGAATTTG+AGG 0.390410 6.2:+18196165 None:intergenic
TGTGACTTTGGTGAACTTGT+TGG 0.424686 6.2:+18196012 None:intergenic
TCATCCTTTACATGTGACTT+TGG 0.440206 6.2:+18196000 None:intergenic
GGTCTCTTGGCACTCTATCA+TGG 0.446618 6.2:+18195888 None:intergenic
TGATGATCGTCAAGAAGAAA+AGG 0.472202 6.2:-18196070 MS.gene55563:CDS
TTGTAGTGGTGGTGGTCTCT+TGG 0.483504 6.2:+18195875 None:intergenic
GGTAATGTAGTTGAAGTTGA+GGG 0.487989 6.2:+18196192 None:intergenic
TTCACCAAAGTCACATGTAA+AGG 0.499125 6.2:-18196004 MS.gene55563:CDS
TCTTGGCACTCTATCATGGT+AGG 0.512713 6.2:+18195892 None:intergenic
TGGTAATGTAGTTGAAGTTG+AGG 0.523830 6.2:+18196191 None:intergenic
TCGTCAAGAAGAAAAGGAAG+AGG 0.557740 6.2:-18196064 MS.gene55563:CDS
CAAAACATTTGTAGTGGTGG+TGG 0.575428 6.2:+18195867 None:intergenic
CTCCACACTAGCTACAACGC+TGG 0.589234 6.2:-18195929 MS.gene55563:CDS
TCAAGAAGAAAAGGAAGAGG+AGG 0.594970 6.2:-18196061 MS.gene55563:CDS
TTCCAGCGTTGTAGCTAGTG+TGG 0.601655 6.2:+18195927 None:intergenic
ACACAAAACATTTGTAGTGG+TGG 0.601922 6.2:+18195864 None:intergenic
ATCACACAAAACATTTGTAG+TGG 0.617999 6.2:+18195861 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTATAGTAATTTCATTTTGT+TGG + chr6.2:18196007-18196026 None:intergenic 15.0%
!! TTTCTTCTTATAAGAGATAT+TGG + chr6.2:18195882-18195901 None:intergenic 20.0%
!!! TCTGATCTTTTTGAAATAGA+GGG - chr6.2:18196197-18196216 MS.gene55563:CDS 25.0%
!!! TTCTGATCTTTTTGAAATAG+AGG - chr6.2:18196196-18196215 MS.gene55563:CDS 25.0%
ATCACACAAAACATTTGTAG+TGG + chr6.2:18196294-18196313 None:intergenic 30.0%
ACACAAAACATTTGTAGTGG+TGG + chr6.2:18196291-18196310 None:intergenic 35.0%
CGATCATCATCTTCATCATT+TGG + chr6.2:18196071-18196090 None:intergenic 35.0%
GGTAATGTAGTTGAAGTTGA+GGG + chr6.2:18195963-18195982 None:intergenic 35.0%
TCATCCTTTACATGTGACTT+TGG + chr6.2:18196155-18196174 None:intergenic 35.0%
TGATGATCGTCAAGAAGAAA+AGG - chr6.2:18196082-18196101 MS.gene55563:CDS 35.0%
TTCACCAAAGTCACATGTAA+AGG - chr6.2:18196148-18196167 MS.gene55563:CDS 35.0%
! TGGTAATGTAGTTGAAGTTG+AGG + chr6.2:18195964-18195983 None:intergenic 35.0%
! TGTTGGTTGAAAAACTTGCA+AGG + chr6.2:18196126-18196145 None:intergenic 35.0%
!! AGAGCTTGAATTTGAGGTTT+TGG + chr6.2:18195984-18196003 None:intergenic 35.0%
!! TCTATCATGGTAGGTTTTGT+TGG + chr6.2:18196254-18196273 None:intergenic 35.0%
!!! CTATCATGGTAGGTTTTGTT+GGG + chr6.2:18196253-18196272 None:intergenic 35.0%
!!! TTTGGTGTCAACTTGTCTTT+TGG + chr6.2:18196053-18196072 None:intergenic 35.0%
CAAAACATTTGTAGTGGTGG+TGG + chr6.2:18196288-18196307 None:intergenic 40.0%
TCAAGAAGAAAAGGAAGAGG+AGG - chr6.2:18196091-18196110 MS.gene55563:CDS 40.0%
TCGTCAAGAAGAAAAGGAAG+AGG - chr6.2:18196088-18196107 MS.gene55563:CDS 40.0%
TGTGACTTTGGTGAACTTGT+TGG + chr6.2:18196143-18196162 None:intergenic 40.0%
TGTTGGAGAGCTTGAATTTG+AGG + chr6.2:18195990-18196009 None:intergenic 40.0%
TCTTGGCACTCTATCATGGT+AGG + chr6.2:18196263-18196282 None:intergenic 45.0%
GGTCTCTTGGCACTCTATCA+TGG + chr6.2:18196267-18196286 None:intergenic 50.0%
TTCCAGCGTTGTAGCTAGTG+TGG + chr6.2:18196228-18196247 None:intergenic 50.0%
!! TTGTAGTGGTGGTGGTCTCT+TGG + chr6.2:18196280-18196299 None:intergenic 50.0%
CTCCACACTAGCTACAACGC+TGG - chr6.2:18196223-18196242 MS.gene55563:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 18195855 18196319 18195855 ID=MS.gene55563
chr6.2 mRNA 18195855 18196319 18195855 ID=MS.gene55563.t1;Parent=MS.gene55563
chr6.2 exon 18195855 18196319 18195855 ID=MS.gene55563.t1.exon1;Parent=MS.gene55563.t1
chr6.2 CDS 18195855 18196319 18195855 ID=cds.MS.gene55563.t1;Parent=MS.gene55563.t1
Gene Sequence

>MS.gene55563

AAAATCAAAGCTTCATTGTCAAAACCAATATCTCTTATAAGAAGAAAATGTTCTTGTTTTGATAAAAATTCTTTGCAAGTCAAAGAAAACTCTTCAAAATCAAAACCCTCAACTTCAACTACATTACCAAAACCTCAAATTCAAGCTCTCCAACAAAATGAAATTACTATAAATGATGTGAATCACAAAAAAACACCAAAAGACAAGTTGACACCAAATGATGAAGATGATGATCGTCAAGAAGAAAAGGAAGAGGAGGTACGCGATTCCTTGCAAGTTTTTCAACCAACAAGTTCACCAAAGTCACATGTAAAGGATGAAGATGTAGCAAGTGATTCAAGTTCTGATCTTTTTGAAATAGAGGGCTTCTCCACACTAGCTACAACGCTGGAATACCCAACAAAACCTACCATGATAGAGTGCCAAGAGACCACCACCACTACAAATGTTTTGTGTGATACTTAG
Protein sequence

>MS.gene55563.t1

KIKASLSKPISLIRRKCSCFDKNSLQVKENSSKSKPSTSTTLPKPQIQALQQNEITINDVNHKKTPKDKLTPNDEDDDRQEEKEEEVRDSLQVFQPTSSPKSHVKDEDVASDSSSDLFEIEGFSTLATTLEYPTKPTMIECQETTTTTNVLCDT