AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene026131

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026131.t1 MTR_1g040435 95.312 192 9 0 1 192 66 257 9.51e-128 360
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026131.t1 AT5G43650 41.622 185 97 4 3 181 63 242 5.53e-37 129
MS.gene026131.t1 AT5G43650 39.490 157 85 3 3 153 63 215 3.05e-28 105

Find 28 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATATTCTATTATTTGCTTAT+TGG 0.110049 1.2:-24958155 None:intergenic
ATAATAGAATATGAAGAGTT+TGG 0.309360 1.2:+24958166 MS.gene026131:CDS
CTCAAATTGTTGAAAGACTA+TGG 0.337935 1.2:+24957804 MS.gene026131:CDS
ATTTGCTTATTGGAACCTTC+CGG 0.340256 1.2:-24958145 None:intergenic
ACAAGGATGCAAAGAGGAAT+TGG 0.356536 1.2:+24957668 MS.gene026131:CDS
TTTGCTTATTGGAACCTTCC+GGG 0.360847 1.2:-24958144 None:intergenic
TTGGTTTGGTGAAAGATTGC+AGG 0.432664 1.2:+24958055 MS.gene026131:intron
AGAGTCCCATGTCCTACATC+TGG 0.437447 1.2:+24957759 MS.gene026131:CDS
TGCAGGAACTGATGTGGAAA+AGG 0.474929 1.2:+24958072 MS.gene026131:CDS
TGTAGTTCAAACAGCAGCTA+AGG 0.512752 1.2:+24957632 MS.gene026131:CDS
GCTACTTTATTTCTCTCTAG+AGG 0.516182 1.2:-24957247 None:intergenic
GAAGCTTCATTCTCATGTCC+CGG 0.537099 1.2:+24958126 MS.gene026131:CDS
ATAGAATCAATTCCAGATGT+AGG 0.538154 1.2:-24957771 None:intergenic
AAGGAAATTCAAAGGCTACA+AGG 0.552769 1.2:+24957651 MS.gene026131:CDS
TTACATGCAGTGTTACCTCA+TGG 0.556166 1.2:+24957352 MS.gene026131:CDS
ATTCAAATAACATGAACAAG+AGG 0.578747 1.2:+24957197 None:intergenic
AGTCTTGGAGATAGAATCTG+AGG 0.586101 1.2:+24957878 MS.gene026131:CDS
ACATGATTAGTGAAAGAATG+AGG 0.598991 1.2:+24957299 MS.gene026131:CDS
TCAATTCCAGATGTAGGACA+TGG 0.602329 1.2:-24957765 None:intergenic
CTTCATTCTCATGTCCCGGA+AGG 0.607283 1.2:+24958130 MS.gene026131:CDS
GAGCACTTGATGAACTTGAG+TGG 0.616373 1.2:+24958104 MS.gene026131:CDS
CAGCAGCTAAGGAAATTCAA+AGG 0.623684 1.2:+24957643 MS.gene026131:CDS
GATGCAAAGAGGAATTGGAA+AGG 0.633307 1.2:+24957673 MS.gene026131:CDS
ATATATACTTTGGTTCCATG+AGG 0.634426 1.2:-24957367 None:intergenic
CAATTCCAGATGTAGGACAT+GGG 0.675336 1.2:-24957764 None:intergenic
AAAGATTGCAGGAACTGATG+TGG 0.688766 1.2:+24958066 MS.gene026131:intron
AAGGCTACAAGGATGCAAAG+AGG 0.691456 1.2:+24957662 MS.gene026131:CDS
GCAGAATGTGAAAGAGAACG+TGG 0.731605 1.2:+24957268 MS.gene026131:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATATATATTTTTTTAAAA+AGG - chr1.2:24957916-24957935 None:intergenic 0.0%
!! ATATTCTATTATTTGCTTAT+TGG - chr1.2:24958158-24958177 None:intergenic 15.0%
!!! AAAAAAGTGCTTATTTTAAA+AGG - chr1.2:24957541-24957560 None:intergenic 15.0%
!!! GAATGTTTTTATATATACTT+TGG - chr1.2:24957380-24957399 None:intergenic 15.0%
!!! TAATTTTGTAAAACTATACA+AGG + chr1.2:24957939-24957958 MS.gene026131:intron 15.0%
!! AATTAAGATTTCTTGTGTAT+TGG + chr1.2:24957969-24957988 MS.gene026131:intron 20.0%
!! ATAATAGAATATGAAGAGTT+TGG + chr1.2:24958166-24958185 MS.gene026131:CDS 20.0%
!!! GTAGTTTTAAATTGCATTTT+CGG + chr1.2:24957405-24957424 MS.gene026131:intron 20.0%
! TAATTGTCTTCGTAACATAA+AGG - chr1.2:24957474-24957493 None:intergenic 25.0%
! TGTTTATGCTAAATATCTGT+TGG + chr1.2:24958036-24958055 MS.gene026131:intron 25.0%
! TTATGTTACGAAGACAATTA+TGG + chr1.2:24957474-24957493 MS.gene026131:intron 25.0%
!!! TTTCAAGCTATTTCTAATGT+TGG + chr1.2:24957569-24957588 MS.gene026131:intron 25.0%
ACATGATTAGTGAAAGAATG+AGG + chr1.2:24957299-24957318 MS.gene026131:CDS 30.0%
ATAGAATCAATTCCAGATGT+AGG - chr1.2:24957774-24957793 None:intergenic 30.0%
CTCAAATTGTTGAAAGACTA+TGG + chr1.2:24957804-24957823 MS.gene026131:CDS 30.0%
GGCTCATCTAATGTTAATTA+TGG - chr1.2:24957520-24957539 None:intergenic 30.0%
! ATATATACTTTGGTTCCATG+AGG - chr1.2:24957370-24957389 None:intergenic 30.0%
! ATGCTAAATATCTGTTGGTT+TGG + chr1.2:24958041-24958060 MS.gene026131:intron 30.0%
! CATTTTCGGTATAGAAATTG+TGG + chr1.2:24957419-24957438 MS.gene026131:intron 30.0%
AAGGAAATTCAAAGGCTACA+AGG + chr1.2:24957651-24957670 MS.gene026131:CDS 35.0%
ATTTGCTTATTGGAACCTTC+CGG - chr1.2:24958148-24958167 None:intergenic 35.0%
! AGAGGATGATTGCATTTTTG+AGG + chr1.2:24957215-24957234 MS.gene026131:CDS 35.0%
! CAAGTCAAATTTTTCTCAGC+AGG + chr1.2:24957845-24957864 MS.gene026131:CDS 35.0%
! GCTACTTTATTTCTCTCTAG+AGG - chr1.2:24957250-24957269 None:intergenic 35.0%
AAAGATTGCAGGAACTGATG+TGG + chr1.2:24958066-24958085 MS.gene026131:intron 40.0%
ACAAGGATGCAAAGAGGAAT+TGG + chr1.2:24957668-24957687 MS.gene026131:CDS 40.0%
AGTCTTGGAGATAGAATCTG+AGG + chr1.2:24957878-24957897 MS.gene026131:CDS 40.0%
CAATTCCAGATGTAGGACAT+GGG - chr1.2:24957767-24957786 None:intergenic 40.0%
CAGCAGCTAAGGAAATTCAA+AGG + chr1.2:24957643-24957662 MS.gene026131:CDS 40.0%
GATGCAAAGAGGAATTGGAA+AGG + chr1.2:24957673-24957692 MS.gene026131:CDS 40.0%
TCAATTCCAGATGTAGGACA+TGG - chr1.2:24957768-24957787 None:intergenic 40.0%
TGTAGTTCAAACAGCAGCTA+AGG + chr1.2:24957632-24957651 MS.gene026131:CDS 40.0%
TTACATGCAGTGTTACCTCA+TGG + chr1.2:24957352-24957371 MS.gene026131:CDS 40.0%
TTTGCTTATTGGAACCTTCC+GGG - chr1.2:24958147-24958166 None:intergenic 40.0%
!! TTGGTTTGGTGAAAGATTGC+AGG + chr1.2:24958055-24958074 MS.gene026131:intron 40.0%
!!! GCAGGAGTTGTTTTTAGTCT+TGG + chr1.2:24957863-24957882 MS.gene026131:CDS 40.0%
AAGGCTACAAGGATGCAAAG+AGG + chr1.2:24957662-24957681 MS.gene026131:CDS 45.0%
GAAGCTTCATTCTCATGTCC+CGG + chr1.2:24958126-24958145 MS.gene026131:CDS 45.0%
GAGCACTTGATGAACTTGAG+TGG + chr1.2:24958104-24958123 MS.gene026131:CDS 45.0%
GCAGAATGTGAAAGAGAACG+TGG + chr1.2:24957268-24957287 MS.gene026131:CDS 45.0%
TGCAGGAACTGATGTGGAAA+AGG + chr1.2:24958072-24958091 MS.gene026131:CDS 45.0%
!!! AATTTTTTTTTTTTCTTTTA+TGG + chr1.2:24957592-24957611 MS.gene026131:intron 5.0%
AGAGTCCCATGTCCTACATC+TGG + chr1.2:24957759-24957778 MS.gene026131:CDS 50.0%
CTTCATTCTCATGTCCCGGA+AGG + chr1.2:24958130-24958149 MS.gene026131:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 24957208 24958192 24957208 ID=MS.gene026131
chr1.2 mRNA 24957208 24958192 24957208 ID=MS.gene026131.t1;Parent=MS.gene026131
chr1.2 exon 24957208 24957381 24957208 ID=MS.gene026131.t1.exon1;Parent=MS.gene026131.t1
chr1.2 CDS 24957208 24957381 24957208 ID=cds.MS.gene026131.t1;Parent=MS.gene026131.t1
chr1.2 exon 24957618 24957899 24957618 ID=MS.gene026131.t1.exon2;Parent=MS.gene026131.t1
chr1.2 CDS 24957618 24957899 24957618 ID=cds.MS.gene026131.t1;Parent=MS.gene026131.t1
chr1.2 exon 24958070 24958192 24958070 ID=MS.gene026131.t1.exon3;Parent=MS.gene026131.t1
chr1.2 CDS 24958070 24958192 24958070 ID=cds.MS.gene026131.t1;Parent=MS.gene026131.t1
Gene Sequence

>MS.gene026131

ATGAACAAGAGGATGATTGCATTTTTGAGGAAAAGTTTGCCTCTAGAGAGAAATAAAGTAGCAGAATGTGAAAGAGAACGTGGTTTCAAGCACATGATTAGTGAAAGAATGAGGAGACAAAGACAAAGACAATGTTGCTTCAATTTACATGCAGTGTTACCTCATGGAACCAAAGTATATATAAAAACATTCACATCGTAGTTTTAAATTGCATTTTCGGTATAGAAATTGTGGCTGTGATATCGTTGTAGATACATCAAAATCCTTTATGTTACGAAGACAATTATGGTCGCAGACTACACTTTAAAACCATAATTAACATTAGATGAGCCTTTTAAAATAAGCACTTTTTTAGTTTTCATTTCAAGCTATTTCTAATGTTGGAATTTTTTTTTTTTCTTTTATGGCAGACAGATAATAATTCTGTAGTTCAAACAGCAGCTAAGGAAATTCAAAGGCTACAAGGATGCAAAGAGGAATTGGAAAGGAAAAACTTTGTGCTTGAAAAAAACGTTGAAGTAATTGAAAGAAGAAAACAAATTCAATATTTGAGAGTCCCATGTCCTACATCTGGAATTGATTCTATAGTTGAGACACTCAAATTGTTGAAAGACTATGGTATTGATACTAAAAGCGTCAAGTCAAATTTTTCTCAGCAGGAGTTGTTTTTAGTCTTGGAGATAGAATCTGAGGTATGTTTGCAAACCTTTTTAAAAAAATATATATTTGTCTAATTTTGTAAAACTATACAAGGTAGAATTAATTAAGATTTCTTGTGTATTGGATTTTCTAGTAGTAAGTTGATGAGAGTTGAAAAAAATTAATATTTGTTTATGCTAAATATCTGTTGGTTTGGTGAAAGATTGCAGGAACTGATGTGGAAAAGGCTATTCAGAGAGCACTTGATGAACTTGAGTGGAAGCTTCATTCTCATGTCCCGGAAGGTTCCAATAAGCAAATAATAGAATATGAAGAGTTTGGATAA
Protein sequence

>MS.gene026131.t1

MNKRMIAFLRKSLPLERNKVAECERERGFKHMISERMRRQRQRQCCFNLHAVLPHGTKTDNNSVVQTAAKEIQRLQGCKEELERKNFVLEKNVEVIERRKQIQYLRVPCPTSGIDSIVETLKLLKDYGIDTKSVKSNFSQQELFLVLEIESEIAGTDVEKAIQRALDELEWKLHSHVPEGSNKQIIEYEEFG