AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022781.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022781.01.T01 MTR_4g096660 96.565 262 9 0 1 262 1 262 0.0 529
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022781.01.T01 AT1G29950 41.126 231 115 7 49 261 18 245 9.18e-39 136
MsG0480022781.01.T01 AT1G29950 41.126 231 115 7 49 261 18 245 9.18e-39 136

Find 59 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAAAGACAATGAAATTCTT+AGG 0.183604 4:+76616926 None:intergenic
AATGGACACCGTTACCGTTT+TGG 0.230492 4:-76616471 MsG0480022781.01.T01:CDS
CCTTGATTTCGTGCAGTAAC+TGG 0.271176 4:+76616628 None:intergenic
GCTCCACATGGTTCTGCCTT+TGG 0.304746 4:-76617058 MsG0480022781.01.T01:CDS
GCTCCACATGCTTCTGCTTT+CGG 0.312643 4:-76617094 MsG0480022781.01.T01:CDS
TTAAACTTGTAGGTCGTTGC+AGG 0.347647 4:+76616869 None:intergenic
AAAGGACGTACTGCCTTTCC+CGG 0.382439 4:+76617148 None:intergenic
ATCAAACAGATCAACAAAAC+AGG 0.423904 4:-76616904 MsG0480022781.01.T01:CDS
GAAGGATAAAATTAATCAAA+TGG 0.430828 4:-76616801 MsG0480022781.01.T01:CDS
AAACGGTAACGGTGTCCATT+TGG 0.432703 4:+76616474 None:intergenic
TCCATTTGGTTGCCTCCACC+AGG 0.433945 4:+76616488 None:intergenic
GGGAAAGGCAGTACGTCCTT+TGG 0.456169 4:-76617146 MsG0480022781.01.T01:CDS
TCATCCGCACATAACTCGTC+AGG 0.457509 4:-76616590 MsG0480022781.01.T01:CDS
CAAAGACAATGAAATTCTTA+GGG 0.464787 4:+76616927 None:intergenic
AGAAATATCGTGCCTGGTGG+AGG 0.468154 4:-76616500 MsG0480022781.01.T01:CDS
TGCAAGTTAAACCTTTCAAA+TGG 0.471021 4:+76616965 None:intergenic
CCAGTTACTGCACGAAATCA+AGG 0.478607 4:-76616628 MsG0480022781.01.T01:CDS
GCCGGGACTGTTAAACTTGT+AGG 0.478819 4:+76616859 None:intergenic
TAAAATTAATCAAATGGAAA+CGG 0.485866 4:-76616795 MsG0480022781.01.T01:CDS
ACCTACAAGTTTAACAGTCC+CGG 0.485914 4:-76616860 MsG0480022781.01.T01:CDS
AAGGTTGAAGTCGAGCAATT+CGG 0.492781 4:-76616419 MsG0480022781.01.T01:CDS
GCCTGGTGGAGGCAACCAAA+TGG 0.494134 4:-76616489 MsG0480022781.01.T01:CDS
CTTCTAGTTCATCCGAGTCT+AGG 0.499152 4:+76616720 None:intergenic
ACTCGCACTTGGAGGTAAAA+CGG 0.500512 4:+76616997 None:intergenic
GTCAGATAACACCATTTGAA+AGG 0.508642 4:-76616976 MsG0480022781.01.T01:CDS
GGTGTTATCTGACTCGCACT+TGG 0.524930 4:+76616986 None:intergenic
CAGTGAAAAGAAACAACACT+TGG 0.526852 4:-76616549 MsG0480022781.01.T01:CDS
AGTAGCATGAGTGTTGAAGC+CGG 0.530258 4:+76616841 None:intergenic
CATAACTCGTCAGGGACAAA+GGG 0.532535 4:-76616581 MsG0480022781.01.T01:CDS
GAAGTCGAGCAATTCGGAGT+TGG 0.534683 4:-76616413 MsG0480022781.01.T01:CDS
TGGAGGTAAAACGGCATCAA+AGG 0.535639 4:+76617006 None:intergenic
ACATAACTCGTCAGGGACAA+AGG 0.541406 4:-76616582 MsG0480022781.01.T01:CDS
AACAACACTTGGAGATGAAG+AGG 0.542117 4:-76616538 MsG0480022781.01.T01:CDS
GTTATCTGACTCGCACTTGG+AGG 0.545030 4:+76616989 None:intergenic
TTCTTAGGGCAAACCTCAGA+GGG 0.559386 4:+76616941 None:intergenic
AGCTTCGTCCAAAACGGTAA+CGG 0.571988 4:+76616463 None:intergenic
ATATTGAGAAATATCGTGCC+TGG 0.572011 4:-76616506 MsG0480022781.01.T01:CDS
AAAATACCTCAAGTCTCTCA+AGG 0.572321 4:-76616438 MsG0480022781.01.T01:CDS
GTAGCATGAGTGTTGAAGCC+GGG 0.574493 4:+76616842 None:intergenic
TGCATTGTTGAGCCTAGACT+CGG 0.583179 4:-76616732 MsG0480022781.01.T01:CDS
CCTTTGGCAGATGAAGCCAT+TGG 0.588109 4:-76617130 MsG0480022781.01.T01:CDS
AAGGACGTACTGCCTTTCCC+GGG 0.597633 4:+76617149 None:intergenic
AGCATTCATATAAGTACCAA+AGG 0.603461 4:+76617042 None:intergenic
AGCATTCATATAAGTGCCAA+TGG 0.605224 4:+76617114 None:intergenic
ACTTGTAGGTCGTTGCAGGA+TGG 0.612223 4:+76616873 None:intergenic
GTACCGAAAGCAGAAGCATG+TGG 0.618840 4:+76617091 None:intergenic
GCACGAAATCAAGGAAGAAG+AGG 0.621640 4:-76616619 MsG0480022781.01.T01:CDS
CTTCAACCTTGAGAGACTTG+AGG 0.621750 4:+76616432 None:intergenic
GTTTAACTTGCAGCCCTCTG+AGG 0.624822 4:-76616954 MsG0480022781.01.T01:CDS
GCATCAAAGGCAGAAGCATG+TGG 0.627838 4:+76617019 None:intergenic
ATTCTTAGGGCAAACCTCAG+AGG 0.643235 4:+76616940 None:intergenic
AAGAAGAAGTCAGCACTGCA+AGG 0.644914 4:-76616688 MsG0480022781.01.T01:CDS
CCAATGGCTTCATCTGCCAA+AGG 0.645058 4:+76617130 None:intergenic
TTGAGAAATATCGTGCCTGG+TGG 0.655055 4:-76616503 MsG0480022781.01.T01:CDS
ACACTTGGAGATGAAGAGGA+TGG 0.657366 4:-76616534 MsG0480022781.01.T01:CDS
CATCCGCACATAACTCGTCA+GGG 0.664019 4:-76616589 MsG0480022781.01.T01:CDS
ACTTACATGAATGCTCCACA+TGG 0.683680 4:-76617070 MsG0480022781.01.T01:CDS
TGTCCCTGACGAGTTATGTG+CGG 0.691893 4:+76616586 None:intergenic
GTACCAAAGGCAGAACCATG+TGG 0.694870 4:+76617055 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAATTAATCAAATGGAAA+CGG - Chr4:76616783-76616802 MsG0480022781.01.T01:CDS 15.0%
!! GAAGGATAAAATTAATCAAA+TGG - Chr4:76616777-76616796 MsG0480022781.01.T01:CDS 20.0%
! CAAAGACAATGAAATTCTTA+GGG + Chr4:76616654-76616673 None:intergenic 25.0%
! TCAAAGACAATGAAATTCTT+AGG + Chr4:76616655-76616674 None:intergenic 25.0%
AGCATTCATATAAGTACCAA+AGG + Chr4:76616539-76616558 None:intergenic 30.0%
ATCAAACAGATCAACAAAAC+AGG - Chr4:76616674-76616693 MsG0480022781.01.T01:CDS 30.0%
TGCAAGTTAAACCTTTCAAA+TGG + Chr4:76616616-76616635 None:intergenic 30.0%
! ATTGTCATCTTCTTTTGTAG+AGG - Chr4:76616807-76616826 MsG0480022781.01.T01:CDS 30.0%
AAAATACCTCAAGTCTCTCA+AGG - Chr4:76617140-76617159 MsG0480022781.01.T01:CDS 35.0%
AGCATTCATATAAGTGCCAA+TGG + Chr4:76616467-76616486 None:intergenic 35.0%
ATATTGAGAAATATCGTGCC+TGG - Chr4:76617072-76617091 MsG0480022781.01.T01:CDS 35.0%
CAGTGAAAAGAAACAACACT+TGG - Chr4:76617029-76617048 MsG0480022781.01.T01:CDS 35.0%
GTCAGATAACACCATTTGAA+AGG - Chr4:76616602-76616621 MsG0480022781.01.T01:CDS 35.0%
! TTCTTTTGTAGAGGACTCTA+AGG - Chr4:76616816-76616835 MsG0480022781.01.T01:CDS 35.0%
! TTTTACAGCTTCGTCCAAAA+CGG + Chr4:76617124-76617143 None:intergenic 35.0%
!! TTGCACTCAAGATTTTGAGA+AGG - Chr4:76616759-76616778 MsG0480022781.01.T01:CDS 35.0%
AACAACACTTGGAGATGAAG+AGG - Chr4:76617040-76617059 MsG0480022781.01.T01:CDS 40.0%
AAGGTTGAAGTCGAGCAATT+CGG - Chr4:76617159-76617178 MsG0480022781.01.T01:CDS 40.0%
ACCTACAAGTTTAACAGTCC+CGG - Chr4:76616718-76616737 MsG0480022781.01.T01:CDS 40.0%
ACTTACATGAATGCTCCACA+TGG - Chr4:76616508-76616527 MsG0480022781.01.T01:CDS 40.0%
TTAAACTTGTAGGTCGTTGC+AGG + Chr4:76616712-76616731 None:intergenic 40.0%
AAGAAGAAGTCAGCACTGCA+AGG - Chr4:76616890-76616909 MsG0480022781.01.T01:CDS 45.0%
ACACTTGGAGATGAAGAGGA+TGG - Chr4:76617044-76617063 MsG0480022781.01.T01:CDS 45.0%
ACATAACTCGTCAGGGACAA+AGG - Chr4:76616996-76617015 MsG0480022781.01.T01:CDS 45.0%
ACTCGCACTTGGAGGTAAAA+CGG + Chr4:76616584-76616603 None:intergenic 45.0%
AGCTTCGTCCAAAACGGTAA+CGG + Chr4:76617118-76617137 None:intergenic 45.0%
ATTCTTAGGGCAAACCTCAG+AGG + Chr4:76616641-76616660 None:intergenic 45.0%
CATAACTCGTCAGGGACAAA+GGG - Chr4:76616997-76617016 MsG0480022781.01.T01:CDS 45.0%
CCAGTTACTGCACGAAATCA+AGG - Chr4:76616950-76616969 MsG0480022781.01.T01:CDS 45.0%
CCTTGATTTCGTGCAGTAAC+TGG + Chr4:76616953-76616972 None:intergenic 45.0%
CTTCAACCTTGAGAGACTTG+AGG + Chr4:76617149-76617168 None:intergenic 45.0%
GCACGAAATCAAGGAAGAAG+AGG - Chr4:76616959-76616978 MsG0480022781.01.T01:CDS 45.0%
TGCATTGTTGAGCCTAGACT+CGG - Chr4:76616846-76616865 MsG0480022781.01.T01:CDS 45.0%
TGGAGGTAAAACGGCATCAA+AGG + Chr4:76616575-76616594 None:intergenic 45.0%
TTCTTAGGGCAAACCTCAGA+GGG + Chr4:76616640-76616659 None:intergenic 45.0%
TTGAGAAATATCGTGCCTGG+TGG - Chr4:76617075-76617094 MsG0480022781.01.T01:CDS 45.0%
! AAACGGTAACGGTGTCCATT+TGG + Chr4:76617107-76617126 None:intergenic 45.0%
! AATGGACACCGTTACCGTTT+TGG - Chr4:76617107-76617126 MsG0480022781.01.T01:CDS 45.0%
! ACTCACGAGTATTTTCTCCC+GGG - Chr4:76616412-76616431 MsG0480022781.01.T01:CDS 45.0%
! GACTCACGAGTATTTTCTCC+CGG - Chr4:76616411-76616430 MsG0480022781.01.T01:CDS 45.0%
!! AGTAGCATGAGTGTTGAAGC+CGG + Chr4:76616740-76616759 None:intergenic 45.0%
!! CTTCTAGTTCATCCGAGTCT+AGG + Chr4:76616861-76616880 None:intergenic 45.0%
AAAGGACGTACTGCCTTTCC+CGG + Chr4:76616433-76616452 None:intergenic 50.0%
ACTTGTAGGTCGTTGCAGGA+TGG + Chr4:76616708-76616727 None:intergenic 50.0%
AGAAATATCGTGCCTGGTGG+AGG - Chr4:76617078-76617097 MsG0480022781.01.T01:CDS 50.0%
CATCCGCACATAACTCGTCA+GGG - Chr4:76616989-76617008 MsG0480022781.01.T01:CDS 50.0%
CCAATGGCTTCATCTGCCAA+AGG + Chr4:76616451-76616470 None:intergenic 50.0%
CCTTTGGCAGATGAAGCCAT+TGG - Chr4:76616448-76616467 MsG0480022781.01.T01:CDS 50.0%
GAAGTCGAGCAATTCGGAGT+TGG - Chr4:76617165-76617184 MsG0480022781.01.T01:CDS 50.0%
GCCGGGACTGTTAAACTTGT+AGG + Chr4:76616722-76616741 None:intergenic 50.0%
GCTCCACATGCTTCTGCTTT+CGG - Chr4:76616484-76616503 MsG0480022781.01.T01:CDS 50.0%
GTACCAAAGGCAGAACCATG+TGG + Chr4:76616526-76616545 None:intergenic 50.0%
TCATCCGCACATAACTCGTC+AGG - Chr4:76616988-76617007 MsG0480022781.01.T01:CDS 50.0%
TGTCCCTGACGAGTTATGTG+CGG + Chr4:76616995-76617014 None:intergenic 50.0%
! CGAGTATTTTCTCCCGGGAA+AGG - Chr4:76616417-76616436 MsG0480022781.01.T01:CDS 50.0%
! GCATCAAAGGCAGAAGCATG+TGG + Chr4:76616562-76616581 None:intergenic 50.0%
! GGTGTTATCTGACTCGCACT+TGG + Chr4:76616595-76616614 None:intergenic 50.0%
! GTACCGAAAGCAGAAGCATG+TGG + Chr4:76616490-76616509 None:intergenic 50.0%
! GTTATCTGACTCGCACTTGG+AGG + Chr4:76616592-76616611 None:intergenic 50.0%
!! GTAGCATGAGTGTTGAAGCC+GGG + Chr4:76616739-76616758 None:intergenic 50.0%
!! GTTTAACTTGCAGCCCTCTG+AGG - Chr4:76616624-76616643 MsG0480022781.01.T01:CDS 50.0%
AAGGACGTACTGCCTTTCCC+GGG + Chr4:76616432-76616451 None:intergenic 55.0%
GGGAAAGGCAGTACGTCCTT+TGG - Chr4:76616432-76616451 MsG0480022781.01.T01:CDS 55.0%
TCCATTTGGTTGCCTCCACC+AGG + Chr4:76617093-76617112 None:intergenic 55.0%
! GCTCCACATGGTTCTGCCTT+TGG - Chr4:76616520-76616539 MsG0480022781.01.T01:CDS 55.0%
GCCTGGTGGAGGCAACCAAA+TGG - Chr4:76617089-76617108 MsG0480022781.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 76616406 76617194 76616406 ID=MsG0480022781.01;Name=MsG0480022781.01
Chr4 mRNA 76616406 76617194 76616406 ID=MsG0480022781.01.T01;Parent=MsG0480022781.01;Name=MsG0480022781.01.T01;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|262
Chr4 exon 76616406 76617194 76616406 ID=MsG0480022781.01.T01:exon:8587;Parent=MsG0480022781.01.T01
Chr4 CDS 76616406 76617194 76616406 ID=MsG0480022781.01.T01:cds;Parent=MsG0480022781.01.T01
Gene Sequence

>MsG0480022781.01.T01

ATGCAGACTCACGAGTATTTTCTCCCGGGAAAGGCAGTACGTCCTTTGGCAGATGAAGCCATTGGCACTTATATGAATGCTCCACATGCTTCTGCTTTCGGTACTTACATGAATGCTCCACATGGTTCTGCCTTTGGTACTTATATGAATGCTCCACATGCTTCTGCCTTTGATGCCGTTTTACCTCCAAGTGCGAGTCAGATAACACCATTTGAAAGGTTTAACTTGCAGCCCTCTGAGGTTTGCCCTAAGAATTTCATTGTCTTTGATCAAACAGATCAACAAAACAGGATTTTGTTCCATCCTGCAACGACCTACAAGTTTAACAGTCCCGGCTTCAACACTCATGCTACTTGCACTCAAGATTTTGAGAAGGATAAAATTAATCAAATGGAAACGGAATTGTCATCTTCTTTTGTAGAGGACTCTAAGGACATTGATGCATTGTTGAGCCTAGACTCGGATGAACTAGAAGACTATGACGAAGAAGAAGTCAGCACTGCAAGGACTCATGAAAAAGATGATAGTACGTCTGATACTTGCTCCAGTTACTGCACGAAATCAAGGAAGAAGAGGTTGTTATCATCCGCACATAACTCGTCAGGGACAAAGGGTTACTGCATCAGTGAAAAGAAACAACACTTGGAGATGAAGAGGATGGTGAAAATATTGAGAAATATCGTGCCTGGTGGAGGCAACCAAATGGACACCGTTACCGTTTTGGACGAAGCTGTAAAATACCTCAAGTCTCTCAAGGTTGAAGTCGAGCAATTCGGAGTTGGACCGTGA

Protein sequence

>MsG0480022781.01.T01

MQTHEYFLPGKAVRPLADEAIGTYMNAPHASAFGTYMNAPHGSAFGTYMNAPHASAFDAVLPPSASQITPFERFNLQPSEVCPKNFIVFDQTDQQNRILFHPATTYKFNSPGFNTHATCTQDFEKDKINQMETELSSSFVEDSKDIDALLSLDSDELEDYDEEEVSTARTHEKDDSTSDTCSSYCTKSRKKRLLSSAHNSSGTKGYCISEKKQHLEMKRMVKILRNIVPGGGNQMDTVTVLDEAVKYLKSLKVEVEQFGVGP*