AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08459

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08459.t1 MTR_7g117590 71.605 162 31 2 2 149 12 172 2.37e-78 230
MS.gene08459.t1 MTR_1g054470 52.778 144 42 4 2 145 23 140 1.74e-43 140
MS.gene08459.t1 MTR_2g012700 37.273 110 68 1 40 148 10 119 1.43e-28 102
MS.gene08459.t1 MTR_2g062330 39.655 116 65 3 34 148 27 138 6.23e-27 98.6
MS.gene08459.t1 MTR_5g071400 67.925 53 15 2 3 55 9 59 1.87e-17 72.8
MS.gene08459.t1 MTR_0010s0310 35.556 90 55 1 53 139 151 240 1.41e-15 71.6
MS.gene08459.t1 MTR_6g477950 37.255 102 60 3 48 148 46 144 2.02e-14 68.9
MS.gene08459.t1 MTR_5g078270 33.708 89 56 1 54 139 210 298 2.09e-13 66.2
MS.gene08459.t1 MTR_7g117585 36.905 84 50 2 68 149 64 146 5.89e-12 60.1
MS.gene08459.t1 MTR_6g087720 34.940 83 53 1 55 136 216 298 1.02e-11 61.6
MS.gene08459.t1 MTR_3g008190 29.167 96 67 1 54 148 6 101 1.09e-11 58.2
MS.gene08459.t1 MTR_5g071400 73.684 38 8 2 18 55 1 36 3.54e-11 55.8
MS.gene08459.t1 MTR_0010s0290 31.373 102 63 3 54 149 223 323 3.65e-11 60.1
MS.gene08459.t1 MTR_0010s0320 32.609 92 55 3 54 139 192 282 7.94e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCATCAACTATTCGAATTT+TGG 0.090848 8.2:-72508992 None:intergenic
TACAGGTAATGGGTGAAAAT+TGG 0.209416 8.2:-72508704 None:intergenic
CCATCGACTTCTTCTTCATT+TGG 0.245009 8.2:-72508736 None:intergenic
GTGGATGGTTTGAGTTTGTT+AGG 0.256057 8.2:+72509082 MS.gene08459:CDS
TACTTTGAATTGCAATCTTC+CGG 0.260223 8.2:-72508954 None:intergenic
GGCTGTTGGACGGAGTGTTC+TGG 0.356206 8.2:+72508834 MS.gene08459:CDS
CGAATAGTTGATGATGAAAC+TGG 0.373610 8.2:+72509000 MS.gene08459:CDS
GAATGTGAAGTTCGTGATAA+AGG 0.381874 8.2:+72509033 MS.gene08459:CDS
ACTTTGAATTGCAATCTTCC+GGG 0.386700 8.2:-72508953 None:intergenic
AAGTTCGTGATAAAGGAAAT+TGG 0.388847 8.2:+72509040 MS.gene08459:CDS
ACAGGTAATGGGTGAAAATT+GGG 0.407202 8.2:-72508703 None:intergenic
ATTAGTTCTGCTACGGCTGT+TGG 0.467637 8.2:+72508820 MS.gene08459:CDS
TGGATGGTTTGAGTTTGTTA+GGG 0.477462 8.2:+72509083 MS.gene08459:CDS
AAATGTCTTCTTCTAGTAGC+AGG 0.479507 8.2:+72508573 None:intergenic
CTGCAGCCATGTAATTGATC+CGG 0.509939 8.2:+72508663 MS.gene08459:intron
TTTGAAATTGTGCAGATACT+GGG 0.510532 8.2:-72508759 None:intergenic
ATGGAGAAATACGTTGGTAG+TGG 0.538951 8.2:+72509063 MS.gene08459:CDS
CCATGTAATTGATCCGGAGT+TGG 0.545499 8.2:+72508669 MS.gene08459:CDS
GGCATCAATTCGTCCAACTC+CGG 0.549037 8.2:-72508682 None:intergenic
CCAACTCCGGATCAATTACA+TGG 0.550497 8.2:-72508669 None:intergenic
AGAAATACGTTGGTAGTGGA+TGG 0.551017 8.2:+72509067 MS.gene08459:CDS
TCGTGATAAAGGAAATTGGA+TGG 0.565929 8.2:+72509044 MS.gene08459:CDS
TGAATGTGTAGCATATTCCC+CGG 0.571619 8.2:+72508935 MS.gene08459:intron
GCATAGTATTAGTTCTGCTA+CGG 0.580120 8.2:+72508813 MS.gene08459:CDS
AGGGCAAAAGAACTCAAAGA+AGG 0.584629 8.2:+72509102 MS.gene08459:CDS
GATACAAATAATTTGTGTGG+AGG 0.593345 8.2:-72509153 None:intergenic
GTTCTGCTACGGCTGTTGGA+CGG 0.598239 8.2:+72508824 MS.gene08459:CDS
CTTTGAATTGCAATCTTCCG+GGG 0.600541 8.2:-72508952 None:intergenic
AATTGGATGGAGAAATACGT+TGG 0.604235 8.2:+72509057 MS.gene08459:CDS
ACTGATACAAATAATTTGTG+TGG 0.607437 8.2:-72509156 None:intergenic
CCAAATGAAGAAGAAGTCGA+TGG 0.658231 8.2:+72508736 MS.gene08459:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAATTTCAAAAATTTCAAAA+CGG + chr8.2:72508772-72508791 MS.gene08459:CDS 15.0%
!!! AGTTTTAATTTTATTTTTGC+TGG + chr8.2:72508859-72508878 MS.gene08459:intron 15.0%
!!! TTTTTGTTTTTTTAATCTTC+TGG + chr8.2:72508617-72508636 MS.gene08459:intron 15.0%
!! ACTGATACAAATAATTTGTG+TGG - chr8.2:72509159-72509178 None:intergenic 25.0%
!! ATCATCAACTATTCGAATTT+TGG - chr8.2:72508995-72509014 None:intergenic 25.0%
AAGTTCGTGATAAAGGAAAT+TGG + chr8.2:72509040-72509059 MS.gene08459:CDS 30.0%
TACTTTGAATTGCAATCTTC+CGG - chr8.2:72508957-72508976 None:intergenic 30.0%
! AAAACGGTGATCATACTTTT+TGG + chr8.2:72508788-72508807 MS.gene08459:CDS 30.0%
! GATACAAATAATTTGTGTGG+AGG - chr8.2:72509156-72509175 None:intergenic 30.0%
! TTTGAAATTGTGCAGATACT+GGG - chr8.2:72508762-72508781 None:intergenic 30.0%
!!! TTTTGAAATTGTGCAGATAC+TGG - chr8.2:72508763-72508782 None:intergenic 30.0%
AATTGGATGGAGAAATACGT+TGG + chr8.2:72509057-72509076 MS.gene08459:CDS 35.0%
ACTTTGAATTGCAATCTTCC+GGG - chr8.2:72508956-72508975 None:intergenic 35.0%
GAATGTGAAGTTCGTGATAA+AGG + chr8.2:72509033-72509052 MS.gene08459:CDS 35.0%
TCGTGATAAAGGAAATTGGA+TGG + chr8.2:72509044-72509063 MS.gene08459:CDS 35.0%
! GATTTTCGTCTACAGGTAAT+GGG - chr8.2:72508717-72508736 None:intergenic 35.0%
! TCATTTGGATTTTCGTCTAC+AGG - chr8.2:72508724-72508743 None:intergenic 35.0%
!! ACAGGTAATGGGTGAAAATT+GGG - chr8.2:72508706-72508725 None:intergenic 35.0%
!! CGAATAGTTGATGATGAAAC+TGG + chr8.2:72509000-72509019 MS.gene08459:CDS 35.0%
!! GCATAGTATTAGTTCTGCTA+CGG + chr8.2:72508813-72508832 MS.gene08459:CDS 35.0%
!! TACAGGTAATGGGTGAAAAT+TGG - chr8.2:72508707-72508726 None:intergenic 35.0%
!! TGGATGGTTTGAGTTTGTTA+GGG + chr8.2:72509083-72509102 MS.gene08459:CDS 35.0%
AGGGCAAAAGAACTCAAAGA+AGG + chr8.2:72509102-72509121 MS.gene08459:CDS 40.0%
CCAAATGAAGAAGAAGTCGA+TGG + chr8.2:72508736-72508755 MS.gene08459:CDS 40.0%
CTTTGAATTGCAATCTTCCG+GGG - chr8.2:72508955-72508974 None:intergenic 40.0%
TGAATGTGTAGCATATTCCC+CGG + chr8.2:72508935-72508954 MS.gene08459:intron 40.0%
TTGCTGGATTATTTGCGCAT+GGG + chr8.2:72508875-72508894 MS.gene08459:intron 40.0%
TTTGCTGGATTATTTGCGCA+TGG + chr8.2:72508874-72508893 MS.gene08459:intron 40.0%
! ATGGAGAAATACGTTGGTAG+TGG + chr8.2:72509063-72509082 MS.gene08459:CDS 40.0%
! GGATTTTCGTCTACAGGTAA+TGG - chr8.2:72508718-72508737 None:intergenic 40.0%
! GTGGATGGTTTGAGTTTGTT+AGG + chr8.2:72509082-72509101 MS.gene08459:CDS 40.0%
!! AGAAATACGTTGGTAGTGGA+TGG + chr8.2:72509067-72509086 MS.gene08459:CDS 40.0%
!! CCATCGACTTCTTCTTCATT+TGG - chr8.2:72508739-72508758 None:intergenic 40.0%
CCAACTCCGGATCAATTACA+TGG - chr8.2:72508672-72508691 None:intergenic 45.0%
CCATGTAATTGATCCGGAGT+TGG + chr8.2:72508669-72508688 MS.gene08459:CDS 45.0%
CTGCAGCCATGTAATTGATC+CGG + chr8.2:72508663-72508682 MS.gene08459:intron 45.0%
!! ATTAGTTCTGCTACGGCTGT+TGG + chr8.2:72508820-72508839 MS.gene08459:CDS 45.0%
CTGGATTATTTGCGCATGGG+TGG + chr8.2:72508878-72508897 MS.gene08459:intron 50.0%
GATTATTTGCGCATGGGTGG+TGG + chr8.2:72508881-72508900 MS.gene08459:intron 50.0%
GGCATCAATTCGTCCAACTC+CGG - chr8.2:72508685-72508704 None:intergenic 50.0%
GTTCTGCTACGGCTGTTGGA+CGG + chr8.2:72508824-72508843 MS.gene08459:CDS 55.0%
! GGCTGTTGGACGGAGTGTTC+TGG + chr8.2:72508834-72508853 MS.gene08459:CDS 60.0%
! GCGCATGGGTGGTGGCTTTG+TGG + chr8.2:72508889-72508908 MS.gene08459:intron 65.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 72508575 72509188 72508575 ID=MS.gene08459
chr8.2 mRNA 72508575 72509188 72508575 ID=MS.gene08459.t1;Parent=MS.gene08459
chr8.2 exon 72508575 72508594 72508575 ID=MS.gene08459.t1.exon1;Parent=MS.gene08459.t1
chr8.2 CDS 72508575 72508594 72508575 ID=cds.MS.gene08459.t1;Parent=MS.gene08459.t1
chr8.2 exon 72508669 72508855 72508669 ID=MS.gene08459.t1.exon2;Parent=MS.gene08459.t1
chr8.2 CDS 72508669 72508855 72508669 ID=cds.MS.gene08459.t1;Parent=MS.gene08459.t1
chr8.2 exon 72508946 72509188 72508946 ID=MS.gene08459.t1.exon3;Parent=MS.gene08459.t1
chr8.2 CDS 72508946 72509188 72508946 ID=cds.MS.gene08459.t1;Parent=MS.gene08459.t1
Gene Sequence

>MS.gene08459

ATGTCTTCTTCTAGTAGCAGGTAACTTCAATGTTTGAGTTGTTTTTTGTTTTTTTAATCTTCTGGTTATTTATTAGATTTTGTTGAAACTGCAGCCATGTAATTGATCCGGAGTTGGACGAATTGATGCCCAATTTTCACCCATTACCTGTAGACGAAAATCCAAATGAAGAAGAAGTCGATGGCCCAGTATCTGCACAATTTCAAAAATTTCAAAACGGTGATCATACTTTTTGGATGCATAGTATTAGTTCTGCTACGGCTGTTGGACGGAGTGTTCTGGTTAGTTTTAATTTTATTTTTGCTGGATTATTTGCGCATGGGTGGTGGCTTTGTGGTTGAAAAGTAATATTATTTGTTTTGAATGTGTAGCATATTCCCCGGAAGATTGCAATTCAAAGTATGTATGTGAATCAATCCAAAATTCGAATAGTTGATGATGAAACTGGAGAAGAATATGAATGTGAAGTTCGTGATAAAGGAAATTGGATGGAGAAATACGTTGGTAGTGGATGGTTTGAGTTTGTTAGGGCAAAAGAACTCAAAGAAGGAGATTCGTTGTTCTTCACTATTGATAATCCTCCACACAAATTATTTGTATCAGTGATTAGATAG
Protein sequence

>MS.gene08459.t1

MSSSSSSHVIDPELDELMPNFHPLPVDENPNEEEVDGPVSAQFQKFQNGDHTFWMHSISSATAVGRSVLHIPRKIAIQSMYVNQSKIRIVDDETGEEYECEVRDKGNWMEKYVGSGWFEFVRAKELKEGDSLFFTIDNPPHKLFVSVIR