AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480019592.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019592.01.T01 AT1G72030 47.638 254 110 6 30 276 19 256 1.48e-62 198

Find 46 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGTTATATGTTCAAATTTA+AGG 0.112410 4:+22870796 MsG0480019592.01.T01:CDS
AATTAATATTCTACTTAATT+AGG 0.161235 4:-22872734 None:intergenic
CAAGAGTACCTTTACATTTC+AGG 0.191164 4:+22872011 MsG0480019592.01.T01:CDS
ATCCACCTTGGACAAGTAAT+TGG 0.193874 4:+22872663 MsG0480019592.01.T01:CDS
TAGCTGTCTCCAATGCTTTC+AGG 0.230533 4:+22872036 MsG0480019592.01.T01:CDS
TAACATGCTTATGAGAAATA+TGG 0.235332 4:-22870779 None:intergenic
TTCAGACAAAATATTATAAA+TGG 0.236901 4:+22872762 MsG0480019592.01.T01:three_prime_UTR
CTTGTTCTTTCAATTCTTTA+AGG 0.238150 4:+22871130 MsG0480019592.01.T01:CDS
AAATAGGCTGAAGTGCTTTC+AGG 0.264997 4:+22871654 MsG0480019592.01.T01:intron
TATATATAGGTATGCTTGTT+TGG 0.294474 4:+22871887 MsG0480019592.01.T01:intron
AAACTCATTACCCCACAAAT+TGG 0.313360 4:-22872561 None:intergenic
AAGAGCTTATGAGGAAGATT+TGG 0.353429 4:+22872592 MsG0480019592.01.T01:CDS
AATCTTCCTCATAAGCTCTT+AGG 0.354008 4:-22872589 None:intergenic
TGAAAATATGAAGCAAAAGT+TGG 0.383459 4:+22870986 MsG0480019592.01.T01:CDS
GTTAACTCAGTTTCTACAAT+TGG 0.383586 4:-22870672 None:intergenic
GTGACATAATTTCCAATTTG+TGG 0.387153 4:+22872549 MsG0480019592.01.T01:CDS
AACATGCTTATGAGAAATAT+GGG 0.394470 4:-22870778 None:intergenic
TAACAACAAATGTACCTATC+AGG 0.398497 4:-22871705 None:intergenic
TGACATAATTTCCAATTTGT+GGG 0.426965 4:+22872550 MsG0480019592.01.T01:CDS
TCCACCTTGGACAAGTAATT+GGG 0.439037 4:+22872664 MsG0480019592.01.T01:CDS
AATAGGCTGAAGTGCTTTCA+GGG 0.441159 4:+22871655 MsG0480019592.01.T01:intron
TCTTGTCCTAAGAGCTTATG+AGG 0.441956 4:+22872583 MsG0480019592.01.T01:CDS
GTGAATATGGATGGAGGATA+AGG 0.442867 4:+22871021 MsG0480019592.01.T01:CDS
ATAACACCTACAAGTTCCTT+TGG 0.452679 4:-22871933 None:intergenic
AGGTACTCTTGTGCATCAGC+AGG 0.454568 4:-22871999 None:intergenic
TTAAATACTCACCTCCTGAT+AGG 0.463612 4:+22871691 MsG0480019592.01.T01:CDS
AGTTAACATTAACAAACTAT+AGG 0.469382 4:+22870688 MsG0480019592.01.T01:five_prime_UTR
GATTCACCAAAGGAACTTGT+AGG 0.478737 4:+22871927 MsG0480019592.01.T01:CDS
AAGTCATTGAAAAGAGCTAC+AGG 0.503117 4:-22871110 None:intergenic
TGCTGATCAGAAAGTGATGT+TGG 0.505427 4:+22870947 MsG0480019592.01.T01:CDS
CGAACATTGTACACAAATGC+TGG 0.517945 4:+22872620 MsG0480019592.01.T01:CDS
CAGCTATTCCTGAAATGTAA+AGG 0.520945 4:-22872019 None:intergenic
GGAGATGTTCAAGCACATCT+TGG 0.525750 4:-22871977 None:intergenic
ATATAGGTATGCTTGTTTGG+TGG 0.525798 4:+22871890 MsG0480019592.01.T01:intron
CCTTGGACAAGTAATTGGGT+TGG 0.563813 4:+22872668 MsG0480019592.01.T01:CDS
GTGGATCTTTAGACACAAGT+TGG 0.581504 4:-22872646 None:intergenic
GACATAATTTCCAATTTGTG+GGG 0.585425 4:+22872551 MsG0480019592.01.T01:CDS
CCAACCCAATTACTTGTCCA+AGG 0.588564 4:-22872668 None:intergenic
TGGTGTGTGAATATGGATGG+AGG 0.600815 4:+22871015 MsG0480019592.01.T01:CDS
GGTACTCTTGTGCATCAGCA+GGG 0.603876 4:-22871998 None:intergenic
ACATGCTTATGAGAAATATG+GGG 0.619066 4:-22870777 None:intergenic
ACCCAATTACTTGTCCAAGG+TGG 0.663599 4:-22872665 None:intergenic
TTGTGTCTAAAGATCCACCT+TGG 0.669585 4:+22872651 MsG0480019592.01.T01:CDS
CAACAAATGTACCTATCAGG+AGG 0.675327 4:-22871702 None:intergenic
CATGCTTATGAGAAATATGG+GGG 0.677909 4:-22870776 None:intergenic
GAATGATCAAGATTCACCAA+AGG 0.679618 4:+22871917 MsG0480019592.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAAAAATAATAATTATTTT+AGG - Chr4:22871781-22871800 None:intergenic 0.0%
!! AATTAATATTCTACTTAATT+AGG - Chr4:22872737-22872756 None:intergenic 10.0%
!! TATATTATGCTATTATATAT+AGG + Chr4:22871874-22871893 MsG0480019592.01.T01:intron 10.0%
!!! ATATTCAAGTATTTTTAAAT+AGG + Chr4:22872094-22872113 MsG0480019592.01.T01:intron 10.0%
!!! GTCAAAATTTATTATTTTAA+AGG - Chr4:22871568-22871587 None:intergenic 10.0%
!! ATCATTTATCAATATGAAAT+TGG + Chr4:22871752-22871771 MsG0480019592.01.T01:intron 15.0%
!! ATGTTATATGTTCAAATTTA+AGG + Chr4:22870796-22870815 MsG0480019592.01.T01:CDS 15.0%
!! TTCAGACAAAATATTATAAA+TGG + Chr4:22872762-22872781 MsG0480019592.01.T01:three_prime_UTR 15.0%
!!! CTTCAAATGAAAAATTATTT+TGG - Chr4:22872384-22872403 None:intergenic 15.0%
!!! TACAATTGGTATTTAATTTT+AGG - Chr4:22870661-22870680 None:intergenic 15.0%
!!! TCTTTTTTTTTTTGTGTTTA+GGG - Chr4:22872149-22872168 None:intergenic 15.0%
!!! TTCTTTTTTTTTTTGTGTTT+AGG - Chr4:22872150-22872169 None:intergenic 15.0%
!! AAACATTAAACAACAACTAA+AGG - Chr4:22871618-22871637 None:intergenic 20.0%
!! ACTAAAAAAATGGTAACTTT+AGG - Chr4:22870727-22870746 None:intergenic 20.0%
!! AGTTAACATTAACAAACTAT+AGG + Chr4:22870688-22870707 MsG0480019592.01.T01:five_prime_UTR 20.0%
!! CCATTCATAAACTAAAAAAA+TGG - Chr4:22870737-22870756 None:intergenic 20.0%
!! TAAGAAGAAAAAGAAAAACT+TGG + Chr4:22870862-22870881 MsG0480019592.01.T01:CDS 20.0%
!! TGTATTATATATGTGAAAGT+CGG - Chr4:22871418-22871437 None:intergenic 20.0%
!!! ATTCTATAACATGCATTTTT+TGG - Chr4:22870843-22870862 None:intergenic 20.0%
!!! CCATTTTTTTAGTTTATGAA+TGG + Chr4:22870734-22870753 MsG0480019592.01.T01:exon 20.0%
!!! TGAAAAATTATTTTGGTGTT+TGG - Chr4:22872377-22872396 None:intergenic 20.0%
! AACATGCTTATGAGAAATAT+GGG - Chr4:22870781-22870800 None:intergenic 25.0%
! AACTAAAGGCAAATAAAATG+TGG - Chr4:22871604-22871623 None:intergenic 25.0%
! ATGTTAATGAGACTAATTGA+TGG + Chr4:22872486-22872505 MsG0480019592.01.T01:intron 25.0%
! CAATTTATTATCTCATGCTA+AGG - Chr4:22871826-22871845 None:intergenic 25.0%
! CTTGTTCTTTCAATTCTTTA+AGG + Chr4:22871130-22871149 MsG0480019592.01.T01:CDS 25.0%
! TAACATGCTTATGAGAAATA+TGG - Chr4:22870782-22870801 None:intergenic 25.0%
! TATATATAGGTATGCTTGTT+TGG + Chr4:22871887-22871906 MsG0480019592.01.T01:intron 25.0%
! TGAAAATATGAAGCAAAAGT+TGG + Chr4:22870986-22871005 MsG0480019592.01.T01:CDS 25.0%
! TGACATAATTTCCAATTTGT+GGG + Chr4:22872550-22872569 MsG0480019592.01.T01:CDS 25.0%
!! AATAGTAACAAGATTTTGAG+TGG + Chr4:22871242-22871261 MsG0480019592.01.T01:intron 25.0%
AAAGGCAAATAAAATGTGGT+AGG - Chr4:22871600-22871619 None:intergenic 30.0%
AAGACAATAAGTAGAGAATC+TGG + Chr4:22871382-22871401 MsG0480019592.01.T01:intron 30.0%
ACATGCTTATGAGAAATATG+GGG - Chr4:22870780-22870799 None:intergenic 30.0%
AGAAAAAGAAAAACTTGGAG+TGG + Chr4:22870867-22870886 MsG0480019592.01.T01:CDS 30.0%
ATAGTCGCTAAATGAGTTAA+CGG - Chr4:22872276-22872295 None:intergenic 30.0%
ATTCTAACCACTACACAATT+TGG - Chr4:22871355-22871374 None:intergenic 30.0%
ATTTCACCATAAAGAGAGTT+TGG - Chr4:22871293-22871312 None:intergenic 30.0%
GAAATTGCTTCTCAAATTGT+AGG + Chr4:22871308-22871327 MsG0480019592.01.T01:intron 30.0%
GAATGCAGATGAGATAAAAA+TGG + Chr4:22871055-22871074 MsG0480019592.01.T01:CDS 30.0%
GACATAATTTCCAATTTGTG+GGG + Chr4:22872551-22872570 MsG0480019592.01.T01:CDS 30.0%
GATTCTCTACTTATTGTCTT+AGG - Chr4:22871382-22871401 None:intergenic 30.0%
GTGACATAATTTCCAATTTG+TGG + Chr4:22872549-22872568 MsG0480019592.01.T01:CDS 30.0%
GTTAACTCAGTTTCTACAAT+TGG - Chr4:22870675-22870694 None:intergenic 30.0%
TAACAACAAATGTACCTATC+AGG - Chr4:22871708-22871727 None:intergenic 30.0%
TATTCATTCTTGACCCAAAT+AGG + Chr4:22871638-22871657 MsG0480019592.01.T01:intron 30.0%
TTCTAACCACTACACAATTT+GGG - Chr4:22871354-22871373 None:intergenic 30.0%
TTTGATCCAAACTCTCTTTA+TGG + Chr4:22871284-22871303 MsG0480019592.01.T01:intron 30.0%
!! TTTTAATCACCTGAAAGCAT+TGG - Chr4:22872048-22872067 None:intergenic 30.0%
!!! GAAGCAAAAGTTGGATTTTT+TGG + Chr4:22870995-22871014 MsG0480019592.01.T01:CDS 30.0%
!!! GATTTTTTGGTGTGTGAATA+TGG + Chr4:22871008-22871027 MsG0480019592.01.T01:CDS 30.0%
AAAATGTGGTAGGTGCTTAA+TGG - Chr4:22871590-22871609 None:intergenic 35.0%
AAACTCATTACCCCACAAAT+TGG - Chr4:22872564-22872583 None:intergenic 35.0%
AAGAGCTTATGAGGAAGATT+TGG + Chr4:22872592-22872611 MsG0480019592.01.T01:CDS 35.0%
AAGTCATTGAAAAGAGCTAC+AGG - Chr4:22871113-22871132 None:intergenic 35.0%
AATCTTCCTCATAAGCTCTT+AGG - Chr4:22872592-22872611 None:intergenic 35.0%
ATAACACCTACAAGTTCCTT+TGG - Chr4:22871936-22871955 None:intergenic 35.0%
ATATAGGTATGCTTGTTTGG+TGG + Chr4:22871890-22871909 MsG0480019592.01.T01:intron 35.0%
CAGCTATTCCTGAAATGTAA+AGG - Chr4:22872022-22872041 None:intergenic 35.0%
CATGCTTATGAGAAATATGG+GGG - Chr4:22870779-22870798 None:intergenic 35.0%
GAATGATCAAGATTCACCAA+AGG + Chr4:22871917-22871936 MsG0480019592.01.T01:CDS 35.0%
TTAAATACTCACCTCCTGAT+AGG + Chr4:22871691-22871710 MsG0480019592.01.T01:CDS 35.0%
TTGCTTCTCAAATTGTAGGA+TGG + Chr4:22871312-22871331 MsG0480019592.01.T01:intron 35.0%
! AATCGCAATGTCGATTGATA+TGG + Chr4:22872331-22872350 MsG0480019592.01.T01:intron 35.0%
! TAAGTAGAGAATCTGGAGTT+CGG + Chr4:22871389-22871408 MsG0480019592.01.T01:intron 35.0%
! TCTTTTCCCAAATTGTGTAG+TGG + Chr4:22871345-22871364 MsG0480019592.01.T01:intron 35.0%
!! CAAGAGTACCTTTACATTTC+AGG + Chr4:22872011-22872030 MsG0480019592.01.T01:CDS 35.0%
!! TTTTGGTGTGTGAATATGGA+TGG + Chr4:22871012-22871031 MsG0480019592.01.T01:CDS 35.0%
ATCCACCTTGGACAAGTAAT+TGG + Chr4:22872663-22872682 MsG0480019592.01.T01:CDS 40.0%
CAACAAATGTACCTATCAGG+AGG - Chr4:22871705-22871724 None:intergenic 40.0%
CGAACATTGTACACAAATGC+TGG + Chr4:22872620-22872639 MsG0480019592.01.T01:CDS 40.0%
GATTCACCAAAGGAACTTGT+AGG + Chr4:22871927-22871946 MsG0480019592.01.T01:CDS 40.0%
GTGAATATGGATGGAGGATA+AGG + Chr4:22871021-22871040 MsG0480019592.01.T01:CDS 40.0%
GTGGATCTTTAGACACAAGT+TGG - Chr4:22872649-22872668 None:intergenic 40.0%
TCCACCTTGGACAAGTAATT+GGG + Chr4:22872664-22872683 MsG0480019592.01.T01:CDS 40.0%
TCGCTAACATTAGCAACTAG+TGG + Chr4:22872215-22872234 MsG0480019592.01.T01:intron 40.0%
TCTTGTCCTAAGAGCTTATG+AGG + Chr4:22872583-22872602 MsG0480019592.01.T01:CDS 40.0%
TGCTGATCAGAAAGTGATGT+TGG + Chr4:22870947-22870966 MsG0480019592.01.T01:CDS 40.0%
TTGTGTCTAAAGATCCACCT+TGG + Chr4:22872651-22872670 MsG0480019592.01.T01:CDS 40.0%
! AAATAGGCTGAAGTGCTTTC+AGG + Chr4:22871654-22871673 MsG0480019592.01.T01:intron 40.0%
! AATAGGCTGAAGTGCTTTCA+GGG + Chr4:22871655-22871674 MsG0480019592.01.T01:intron 40.0%
! ATGAGACTAATTGATGGCAC+AGG + Chr4:22872492-22872511 MsG0480019592.01.T01:intron 40.0%
!! GAAAGCACTTCAGCCTATTT+GGG - Chr4:22871654-22871673 None:intergenic 40.0%
!! TGAAAGCACTTCAGCCTATT+TGG - Chr4:22871655-22871674 None:intergenic 40.0%
ACCCAATTACTTGTCCAAGG+TGG - Chr4:22872668-22872687 None:intergenic 45.0%
CCAACCCAATTACTTGTCCA+AGG - Chr4:22872671-22872690 None:intergenic 45.0%
CCTTGGACAAGTAATTGGGT+TGG + Chr4:22872668-22872687 MsG0480019592.01.T01:CDS 45.0%
GGAGATGTTCAAGCACATCT+TGG - Chr4:22871980-22871999 None:intergenic 45.0%
TAGCTGTCTCCAATGCTTTC+AGG + Chr4:22872036-22872055 MsG0480019592.01.T01:CDS 45.0%
TGGTGTGTGAATATGGATGG+AGG + Chr4:22871015-22871034 MsG0480019592.01.T01:CDS 45.0%
! AGACTAATTGATGGCACAGG+AGG + Chr4:22872495-22872514 MsG0480019592.01.T01:intron 45.0%
AGGTACTCTTGTGCATCAGC+AGG - Chr4:22872002-22872021 None:intergenic 50.0%
GGTACTCTTGTGCATCAGCA+GGG - Chr4:22872001-22872020 None:intergenic 50.0%
! CTAATTGATGGCACAGGAGG+AGG + Chr4:22872498-22872517 MsG0480019592.01.T01:intron 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 22870654 22872864 22870654 ID=MsG0480019592.01;Name=MsG0480019592.01
Chr4 mRNA 22870654 22872864 22870654 ID=MsG0480019592.01.T01;Parent=MsG0480019592.01;Name=MsG0480019592.01.T01;_AED=0.30;_eAED=0.30;_QI=99|1|1|1|1|1|4|122|280
Chr4 exon 22872514 22872864 22872514 ID=MsG0480019592.01.T01:exon:11318;Parent=MsG0480019592.01.T01
Chr4 exon 22871896 22872057 22871896 ID=MsG0480019592.01.T01:exon:11317;Parent=MsG0480019592.01.T01
Chr4 exon 22871660 22871712 22871660 ID=MsG0480019592.01.T01:exon:11316;Parent=MsG0480019592.01.T01
Chr4 exon 22870654 22871151 22870654 ID=MsG0480019592.01.T01:exon:11315;Parent=MsG0480019592.01.T01
Chr4 five_prime_UTR 22870654 22870752 22870654 ID=MsG0480019592.01.T01:five_prime_utr;Parent=MsG0480019592.01.T01
Chr4 CDS 22870753 22871151 22870753 ID=MsG0480019592.01.T01:cds;Parent=MsG0480019592.01.T01
Chr4 CDS 22871660 22871712 22871660 ID=MsG0480019592.01.T01:cds;Parent=MsG0480019592.01.T01
Chr4 CDS 22871896 22872057 22871896 ID=MsG0480019592.01.T01:cds;Parent=MsG0480019592.01.T01
Chr4 CDS 22872514 22872742 22872514 ID=MsG0480019592.01.T01:cds;Parent=MsG0480019592.01.T01
Chr4 three_prime_UTR 22872743 22872864 22872743 ID=MsG0480019592.01.T01:three_prime_utr;Parent=MsG0480019592.01.T01
Gene Sequence

>MsG0480019592.01.T01

ATGGCACATTTATTTTCAAGCAACCCCCATATTTCTCATAAGCATGTTATATGTTCAAATTTAAGGTATTATGATGTTATAACAACACCAAAAAATGCATGTTATAGAATAAGAAGAAAAAGAAAAACTTGGAGTGGTTCAAAGTTGCAATGCAGTAGAAGCAATAGTACAAGTAGTTCAGAACAATTATATTTTGCTGATCAGAAAGTGATGTTGGAAATTGAGAATGATAGTGAAAATATGAAGCAAAAGTTGGATTTTTTGGTGTGTGAATATGGATGGAGGATAAGGAGATTAATTGAGAATGCAGATGAGATAAAAATGGCTGCTCAAGTTCAAGCTGAAGCTTTTCATGATCCTGTAGCTCTTTTCAATGACTTGTTCTTTCAATTCTTTAAGGCTGAAGTGCTTTCAGGGCTGCTTTACAAGCTTAAATACTCACCTCCTGATAGGTATGCTTGTTTGGTGGCTGAGAATGATCAAGATTCACCAAAGGAACTTGTAGGTGTTATAGATGTTACTGTAATGAGAGACCAAGATGTGCTTGAACATCTCCCTGCTGATGCACAAGAGTACCTTTACATTTCAGGAATAGCTGTCTCCAATGCTTTCAGGAGGAGGAAAATAGCAACTGTTATGTTAAAAGCATGTGACATAATTTCCAATTTGTGGGGTAATGAGTTTCTTGTCCTAAGAGCTTATGAGGAAGATTTGGCTGCTCGAACATTGTACACAAATGCTGGTTACCAACTTGTGTCTAAAGATCCACCTTGGACAAGTAATTGGGTTGGAAGAAAATGTCGTGTTCTTATGATCAAAAGAATTAGTTTATTGCCTAATTAA

Protein sequence

>MsG0480019592.01.T01

MAHLFSSNPHISHKHVICSNLRYYDVITTPKNACYRIRRKRKTWSGSKLQCSRSNSTSSSEQLYFADQKVMLEIENDSENMKQKLDFLVCEYGWRIRRLIENADEIKMAAQVQAEAFHDPVALFNDLFFQFFKAEVLSGLLYKLKYSPPDRYACLVAENDQDSPKELVGVIDVTVMRDQDVLEHLPADAQEYLYISGIAVSNAFRRRKIATVMLKACDIISNLWGNEFLVLRAYEEDLAARTLYTNAGYQLVSKDPPWTSNWVGRKCRVLMIKRISLLPN*