AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041495.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041495.01.T01 MTR_7g112360 96.809 94 3 0 11 104 71 164 1.80e-63 190
MsG0780041495.01.T01 MTR_4g085070 59.677 62 23 1 11 70 67 128 2.04e-16 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041495.01.T01 AT1G56300 65.169 89 31 0 11 99 68 156 6.12e-30 104
MsG0780041495.01.T01 AT1G56300 76.190 42 10 0 11 52 68 109 4.64e-11 55.5

Find 26 sgRNAs with CRISPR-Local

Find 74 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCCCAGCCGTCTGATCT+TGG 0.344100 7:-91642589 None:intergenic
GCGGCAATGATTGCTGCGCT+TGG 0.404589 7:-91642645 None:intergenic
CCTTCCTGCCCATAAAATAA+AGG 0.414355 7:+91642806 MsG0780041495.01.T01:three_prime_UTR
TGCATTAAGAAATGAAGAAA+AGG 0.434039 7:-91642711 None:intergenic
GTTGAGATGGTAGGTGGAGA+TGG 0.451612 7:+91642548 MsG0780041495.01.T01:CDS
ATATGAGATTGATTATTGAT+TGG 0.460066 7:+91641817 None:intergenic
TTGCCGCTAGCGTGGTGTAC+TGG 0.463060 7:+91642661 MsG0780041495.01.T01:exon
ACAAAGGATGTTTGTTGAGA+TGG 0.470153 7:+91642535 MsG0780041495.01.T01:CDS
TTGAACCAAGATCAGACGGC+TGG 0.499992 7:+91642584 MsG0780041495.01.T01:CDS
AAAAGATCAATGTACGATGC+TGG 0.500396 7:+91641880 MsG0780041495.01.T01:CDS
GATCAGACGGCTGGGAAGAG+AGG 0.537894 7:+91642593 MsG0780041495.01.T01:CDS
GAAAAGGTTTACAAATACAT+AGG 0.549549 7:-91642695 None:intergenic
ACTTGGTCTTCTTCTTCAAG+AGG 0.556126 7:-91641913 None:intergenic
GGTTTACAAATACATAGGAT+AGG 0.565359 7:-91642690 None:intergenic
GGGAAGAGAGGACGCTCAAG+TGG 0.569154 7:+91642605 MsG0780041495.01.T01:CDS
AGCAATCATTGCCGCTAGCG+TGG 0.577623 7:+91642653 MsG0780041495.01.T01:exon
TGATTTGAACCAAGATCAGA+CGG 0.588129 7:+91642580 MsG0780041495.01.T01:CDS
ATTGAAGTGAAATTCTACAC+AGG 0.598105 7:+91642747 MsG0780041495.01.T01:three_prime_UTR
GATGAATAATGTCAAAGATG+AGG 0.606591 7:+91642363 MsG0780041495.01.T01:CDS
TGAACCAAGATCAGACGGCT+GGG 0.607458 7:+91642585 MsG0780041495.01.T01:CDS
GGACGCTCAAGTGGATCAAG+AGG 0.624597 7:+91642614 MsG0780041495.01.T01:CDS
ATGTTTGTTGAGATGGTAGG+TGG 0.628226 7:+91642542 MsG0780041495.01.T01:CDS
AGGATGTTTGTTGAGATGGT+AGG 0.652987 7:+91642539 MsG0780041495.01.T01:CDS
TTGAAGTGAAATTCTACACA+GGG 0.673644 7:+91642748 MsG0780041495.01.T01:three_prime_UTR
ACAGTTTGGAGGATCTACAA+AGG 0.691000 7:+91642519 MsG0780041495.01.T01:CDS
CATCCAGTACACCACGCTAG+CGG 0.706919 7:-91642664 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAAAATAAAAATTAAAAA+AGG - Chr7:91642098-91642117 None:intergenic 0.0%
!!! ATTAAAGTCTAATTTTGTAT+CGG + Chr7:91642851-91642870 MsG0780041495.01.T01:three_prime_UTR 15.0%
!!! TTCATTTTTTTTACCAAAAA+AGG - Chr7:91642413-91642432 None:intergenic 15.0%
!!! TTTTTTGGTAAAAAAAATGA+AGG + Chr7:91642412-91642431 MsG0780041495.01.T01:intron 15.0%
!!! AACATTTGACCTTTATTTTA+TGG - Chr7:91642818-91642837 None:intergenic 20.0%
!!! ACATTTGACCTTTATTTTAT+GGG - Chr7:91642817-91642836 None:intergenic 20.0%
!!! TGGATTCTAATTCTAATTTT+AGG + Chr7:91642281-91642300 MsG0780041495.01.T01:intron 20.0%
! AAAAATATCTTGTGCATGTT+TGG + Chr7:91642130-91642149 MsG0780041495.01.T01:intron 25.0%
! ATTAAAAAAGGCAAAGCAAA+TGG - Chr7:91642086-91642105 None:intergenic 25.0%
! CAAAATTTGTGTTATAATGC+AGG + Chr7:91642306-91642325 MsG0780041495.01.T01:intron 25.0%
! GAAAAGGTTTACAAATACAT+AGG - Chr7:91642698-91642717 None:intergenic 25.0%
! TGCATTAAGAAATGAAGAAA+AGG - Chr7:91642714-91642733 None:intergenic 25.0%
! TTAAAAAAGGCAAAGCAAAT+GGG - Chr7:91642085-91642104 None:intergenic 25.0%
!!! GTTCTAATTGTTTCCTTTTT+TGG + Chr7:91642397-91642416 MsG0780041495.01.T01:intron 25.0%
!!! TGGTATTTTCTGGTTATTTA+GGG + Chr7:91642494-91642513 MsG0780041495.01.T01:intron 25.0%
!!! TTAACAAGCACTTTTTAACA+AGG - Chr7:91642963-91642982 None:intergenic 25.0%
!!! TTGATTGGTTTTAATGTTGT+TGG + Chr7:91641832-91641851 MsG0780041495.01.T01:CDS 25.0%
!!! TTGGTATTTTCTGGTTATTT+AGG + Chr7:91642493-91642512 MsG0780041495.01.T01:intron 25.0%
AAGAAGAAATGTTACGAACT+TGG - Chr7:91641933-91641952 None:intergenic 30.0%
ACAAGACGAGAAAAACAATA+GGG - Chr7:91642044-91642063 None:intergenic 30.0%
AGTTAGGTGCATTTGAATAT+TGG + Chr7:91642261-91642280 MsG0780041495.01.T01:intron 30.0%
ATTGAAGTGAAATTCTACAC+AGG + Chr7:91642747-91642766 MsG0780041495.01.T01:three_prime_UTR 30.0%
CAAAGATGAGGTATACTATT+GGG + Chr7:91642375-91642394 MsG0780041495.01.T01:intron 30.0%
GATGAATAATGTCAAAGATG+AGG + Chr7:91642363-91642382 MsG0780041495.01.T01:CDS 30.0%
GGTTTACAAATACATAGGAT+AGG - Chr7:91642693-91642712 None:intergenic 30.0%
TCAAAGATGAGGTATACTAT+TGG + Chr7:91642374-91642393 MsG0780041495.01.T01:intron 30.0%
TTGAAGTGAAATTCTACACA+GGG + Chr7:91642748-91642767 MsG0780041495.01.T01:three_prime_UTR 30.0%
! AAACACGTGATTTTGTTGAA+AGG + Chr7:91642162-91642181 MsG0780041495.01.T01:intron 30.0%
! AGTCTAATTTTGTATCGGAT+TGG + Chr7:91642856-91642875 MsG0780041495.01.T01:three_prime_UTR 30.0%
! GTCTAATTTTGTATCGGATT+GGG + Chr7:91642857-91642876 MsG0780041495.01.T01:three_prime_UTR 30.0%
!! ATGTATTGTTGATGATGTGA+TGG + Chr7:91642464-91642483 MsG0780041495.01.T01:intron 30.0%
!! TGTATTGTTGATGATGTGAT+GGG + Chr7:91642465-91642484 MsG0780041495.01.T01:intron 30.0%
!!! GGTATTTTCTGGTTATTTAG+GGG + Chr7:91642495-91642514 MsG0780041495.01.T01:intron 30.0%
!!! GTATTTTCTGGTTATTTAGG+GGG + Chr7:91642496-91642515 MsG0780041495.01.T01:intron 30.0%
!!! GTTTTACCTCGTTTTGTTTA+CGG - Chr7:91641997-91642016 None:intergenic 30.0%
AAAAGATCAATGTACGATGC+TGG + Chr7:91641880-91641899 MsG0780041495.01.T01:CDS 35.0%
ACAAAATCACGTGTTTACAG+TGG - Chr7:91642158-91642177 None:intergenic 35.0%
ATGGGAATCATGTATGTTAC+CGG - Chr7:91642067-91642086 None:intergenic 35.0%
GACAAGACGAGAAAAACAAT+AGG - Chr7:91642045-91642064 None:intergenic 35.0%
TGATTTGAACCAAGATCAGA+CGG + Chr7:91642580-91642599 MsG0780041495.01.T01:CDS 35.0%
! ACAAAGGATGTTTGTTGAGA+TGG + Chr7:91642535-91642554 MsG0780041495.01.T01:CDS 35.0%
! ATTTTGCCGTAAACAAAACG+AGG + Chr7:91641988-91642007 MsG0780041495.01.T01:intron 35.0%
!! ATTGTTTTTCTCGTCTTGTC+CGG + Chr7:91642045-91642064 MsG0780041495.01.T01:intron 35.0%
!! GTATTGTTGATGATGTGATG+GGG + Chr7:91642466-91642485 MsG0780041495.01.T01:intron 35.0%
!!! CTTTATTTTATGGGCAGGAA+GGG - Chr7:91642808-91642827 None:intergenic 35.0%
!!! TGGGGTATTTTGGTATTTTC+TGG + Chr7:91642484-91642503 MsG0780041495.01.T01:intron 35.0%
!!! TGTATCGGATTGGGTTTTTT+TGG + Chr7:91642866-91642885 MsG0780041495.01.T01:three_prime_UTR 35.0%
!!! TTGACCTTTATTTTATGGGC+AGG - Chr7:91642813-91642832 None:intergenic 35.0%
ACAGTTTGGAGGATCTACAA+AGG + Chr7:91642519-91642538 MsG0780041495.01.T01:CDS 40.0%
AGAAAAACAATAGGGTCGTC+TGG - Chr7:91642036-91642055 None:intergenic 40.0%
CCTTCCTGCCCATAAAATAA+AGG + Chr7:91642806-91642825 MsG0780041495.01.T01:three_prime_UTR 40.0%
! ACTTGGTCTTCTTCTTCAAG+AGG - Chr7:91641916-91641935 None:intergenic 40.0%
! AGGATGTTTGTTGAGATGGT+AGG + Chr7:91642539-91642558 MsG0780041495.01.T01:CDS 40.0%
! ATGTTTGTTGAGATGGTAGG+TGG + Chr7:91642542-91642561 MsG0780041495.01.T01:CDS 40.0%
!! GATGATGTGATGGGGTATTT+TGG + Chr7:91642474-91642493 MsG0780041495.01.T01:intron 40.0%
!!! CCTTTATTTTATGGGCAGGA+AGG - Chr7:91642809-91642828 None:intergenic 40.0%
!!! GAGGTAAAACTGTGTCGTTT+TGG + Chr7:91642007-91642026 MsG0780041495.01.T01:intron 40.0%
CTTGTAGTGCAGCTCAAGTT+AGG + Chr7:91642245-91642264 MsG0780041495.01.T01:intron 45.0%
GGTTATTTAGGGGGACAGTT+TGG + Chr7:91642505-91642524 MsG0780041495.01.T01:intron 45.0%
TATTTAGGGGGACAGTTTGG+AGG + Chr7:91642508-91642527 MsG0780041495.01.T01:intron 45.0%
TCGTTTCAGTTGCAGAGCAT+GGG + Chr7:91641954-91641973 MsG0780041495.01.T01:intron 45.0%
TTCGTTTCAGTTGCAGAGCA+TGG + Chr7:91641953-91641972 MsG0780041495.01.T01:intron 45.0%
CGTTTCAGTTGCAGAGCATG+GGG + Chr7:91641955-91641974 MsG0780041495.01.T01:intron 50.0%
GTTGAGATGGTAGGTGGAGA+TGG + Chr7:91642548-91642567 MsG0780041495.01.T01:CDS 50.0%
TGAACCAAGATCAGACGGCT+GGG + Chr7:91642585-91642604 MsG0780041495.01.T01:CDS 50.0%
TTGAACCAAGATCAGACGGC+TGG + Chr7:91642584-91642603 MsG0780041495.01.T01:CDS 50.0%
AGCAATCATTGCCGCTAGCG+TGG + Chr7:91642653-91642672 MsG0780041495.01.T01:exon 55.0%
CATCCAGTACACCACGCTAG+CGG - Chr7:91642667-91642686 None:intergenic 55.0%
GGACGCTCAAGTGGATCAAG+AGG + Chr7:91642614-91642633 MsG0780041495.01.T01:CDS 55.0%
TCTTCCCAGCCGTCTGATCT+TGG - Chr7:91642592-91642611 None:intergenic 55.0%
GATCAGACGGCTGGGAAGAG+AGG + Chr7:91642593-91642612 MsG0780041495.01.T01:CDS 60.0%
GCGGCAATGATTGCTGCGCT+TGG - Chr7:91642648-91642667 None:intergenic 60.0%
GGGAAGAGAGGACGCTCAAG+TGG + Chr7:91642605-91642624 MsG0780041495.01.T01:CDS 60.0%
TTGCCGCTAGCGTGGTGTAC+TGG + Chr7:91642661-91642680 MsG0780041495.01.T01:exon 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 91641832 91642985 91641832 ID=MsG0780041495.01;Name=MsG0780041495.01
Chr7 mRNA 91641832 91642985 91641832 ID=MsG0780041495.01.T01;Parent=MsG0780041495.01;Name=MsG0780041495.01.T01;_AED=0.44;_eAED=0.47;_QI=0|1|0.66|1|0.5|0.66|3|315|104
Chr7 exon 91641832 91641933 91641832 ID=MsG0780041495.01.T01:exon:18785;Parent=MsG0780041495.01.T01
Chr7 exon 91642328 91642384 91642328 ID=MsG0780041495.01.T01:exon:18786;Parent=MsG0780041495.01.T01
Chr7 exon 91642515 91642985 91642515 ID=MsG0780041495.01.T01:exon:18787;Parent=MsG0780041495.01.T01
Chr7 CDS 91641832 91641933 91641832 ID=MsG0780041495.01.T01:cds;Parent=MsG0780041495.01.T01
Chr7 CDS 91642328 91642384 91642328 ID=MsG0780041495.01.T01:cds;Parent=MsG0780041495.01.T01
Chr7 CDS 91642515 91642670 91642515 ID=MsG0780041495.01.T01:cds;Parent=MsG0780041495.01.T01
Chr7 three_prime_UTR 91642671 91642985 91642671 ID=MsG0780041495.01.T01:three_prime_utr;Parent=MsG0780041495.01.T01
Gene Sequence

>MsG0780041495.01.T01

TTGATTGGTTTTAATGTTGTTGGTGAAATAGTTCTCTCTGATGATTCTAAAAGATCAATGTACGATGCTGGACTATACGATCCTCTTGAAGAAGAAGACCAAGAATTTTGTGATTTTATGAGCGAAATGATCTCAATGATGAATAATGTCAAAGATGAGGGGGACAGTTTGGAGGATCTACAAAGGATGTTTGTTGAGATGGTAGGTGGAGATGGTATGAACTTTGATTTGAACCAAGATCAGACGGCTGGGAAGAGAGGACGCTCAAGTGGATCAAGAGGCAACGCAGCCAAGCGCAGCAATCATTGCCGCTAG
Protein sequence

>MsG0780041495.01.T01

LIGFNVVGEIVLSDDSKRSMYDAGLYDPLEEEDQEFCDFMSEMISMMNNVKDEGDSLEDLQRMFVEMVGGDGMNFDLNQDQTAGKRGRSSGSRGNAAKRSNHCR*