AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016934.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016934.01.T01 MTR_3g098520 95.597 159 6 1 1 158 1 159 9.45e-111 311
MsG0380016934.01.T01 MTR_3g098520 94.681 94 4 1 1 93 1 94 2.71e-60 182
MsG0380016934.01.T01 MTR_5g008050 50.000 60 24 2 55 110 181 238 2.83e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016934.01.T01 AT5G51010 60.377 159 55 4 1 157 1 153 9.69e-61 185
MsG0380016934.01.T01 AT5G17170 41.584 101 33 5 55 150 180 259 6.97e-13 64.7

Find 40 sgRNAs with CRISPR-Local

Find 112 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGATTAGGATGAAGTAAA+AGG 0.290725 3:+89599651 None:intergenic
AATCAACTACAAGTTTCTTA+TGG 0.292009 3:-89599635 MsG0380016934.01.T01:exon
TGAGTCTGTAAGGGTGTAAT+TGG 0.306471 3:+89599898 None:intergenic
TAAGAAACTTGTAGTTGATT+AGG 0.306861 3:+89599638 None:intergenic
AAAGATGTCTTGAGAGTAGA+TGG 0.349045 3:+89599692 None:intergenic
TAGGATGAAGTAAAAGGTTA+AGG 0.356489 3:+89599657 None:intergenic
ACGACAGATATAAGCTTGTT+TGG 0.361476 3:+89599583 None:intergenic
TTGTGTGTTGTGGAAAGTTC+TGG 0.402170 3:+89599871 None:intergenic
ATCTTCGAAGATTCTTCCTC+TGG 0.407873 3:+89599811 None:intergenic
AGCTACACGCATGGTAAACC+TGG 0.428236 3:+89599607 None:intergenic
CTTCCTCTGGCTATGAATTG+AGG 0.442929 3:+89599824 None:intergenic
AGATCAAAGAGAAATCAAAA+TGG 0.446891 3:-89599792 MsG0380016934.01.T01:exon
TGTCTTGAGAGTAGATGGAT+TGG 0.449903 3:+89599697 None:intergenic
TTGGAGAGTGGTCGGAGGGT+AGG 0.455499 3:+89599716 None:intergenic
AGGATGAAGTAAAAGGTTAA+GGG 0.468286 3:+89599658 None:intergenic
TTCTGGTGATTGAGTCTGTA+AGG 0.481972 3:+89599888 None:intergenic
GTGATAATCTTGTAGTGTGA+AGG 0.484953 3:+89599750 None:intergenic
TAGATGGATTGGAGAGTGGT+CGG 0.491971 3:+89599708 None:intergenic
TGATAATCTTGTAGTGTGAA+GGG 0.498122 3:+89599751 None:intergenic
CTTATATCTGTCGTGACTGC+GGG 0.498593 3:-89599574 MsG0380016934.01.T01:intron
CAAAATGGCCTTGCAAGTGC+AGG 0.518248 3:-89599777 MsG0380016934.01.T01:exon
TGGATTGGAGAGTGGTCGGA+GGG 0.526512 3:+89599712 None:intergenic
CTATGAATTGAGGAAATGAA+TGG 0.528980 3:+89599834 None:intergenic
AAGTTTCTTATGGACCTCCC+AGG 0.547146 3:-89599625 MsG0380016934.01.T01:exon
GAGTGGTCGGAGGGTAGGAG+TGG 0.553144 3:+89599721 None:intergenic
AAGGGAGGCCTGCACTTGCA+AGG 0.564120 3:+89599769 None:intergenic
GCTTATATCTGTCGTGACTG+CGG 0.577229 3:-89599575 MsG0380016934.01.T01:exon
AAGAGAATAGTTGTGTGTTG+TGG 0.585949 3:+89599861 None:intergenic
CGGAGGGTAGGAGTGGCAGT+AGG 0.598226 3:+89599728 None:intergenic
ATGGATTGGAGAGTGGTCGG+AGG 0.602826 3:+89599711 None:intergenic
TTTCCTCAATTCATAGCCAG+AGG 0.625750 3:-89599827 MsG0380016934.01.T01:exon
TTGTTTGGAAGCTACACGCA+TGG 0.631363 3:+89599598 None:intergenic
AGAGTAGATGGATTGGAGAG+TGG 0.641832 3:+89599704 None:intergenic
TGAATCCTACGTGGAAAGCG+TGG 0.643104 3:+89599923 None:intergenic
GGATGCCACGCTTTCCACGT+AGG 0.659184 3:-89599928 MsG0380016934.01.T01:exon
TCTGGTGATTGAGTCTGTAA+GGG 0.670133 3:+89599889 None:intergenic
GCTACACGCATGGTAAACCT+GGG 0.677062 3:+89599608 None:intergenic
TAATCTTGTAGTGTGAAGGG+AGG 0.698956 3:+89599754 None:intergenic
ACACGCATGGTAAACCTGGG+AGG 0.732150 3:+89599611 None:intergenic
TAATTGGTTTGAATCCTACG+TGG 0.744336 3:+89599914 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAATATATATCTTATTATT+TGG - Chr3:89598839-89598858 MsG0380016934.01.T01:intron 10.0%
!! TCATTTATAAAAAAAAAAGT+GGG - Chr3:89598375-89598394 MsG0380016934.01.T01:exon 10.0%
!! TTCATTTATAAAAAAAAAAG+TGG - Chr3:89598374-89598393 MsG0380016934.01.T01:exon 10.0%
!! AATATTTATCAAATTCTTGT+TGG - Chr3:89599049-89599068 MsG0380016934.01.T01:intron 15.0%
!! ATGTCAAAAACAAAAATAAT+GGG + Chr3:89599693-89599712 None:intergenic 15.0%
!! CATATCTATTATCTATATAT+AGG - Chr3:89599181-89599200 MsG0380016934.01.T01:intron 15.0%
!! GAATTTGATAAATATTCATA+TGG + Chr3:89599045-89599064 None:intergenic 15.0%
!! TAATATTATACTGATAAGAA+AGG - Chr3:89599414-89599433 MsG0380016934.01.T01:intron 15.0%
!! TATGTCAAAAACAAAAATAA+TGG + Chr3:89599694-89599713 None:intergenic 15.0%
!! AAAAAGTAATGAAATTACCA+GGG + Chr3:89598942-89598961 None:intergenic 20.0%
!! TAAAAAGTAATGAAATTACC+AGG + Chr3:89598943-89598962 None:intergenic 20.0%
!! TTATCTATATATAGGATGTA+TGG - Chr3:89599189-89599208 MsG0380016934.01.T01:intron 20.0%
!! TTTAAGAAGCAAAAGAAATA+CGG - Chr3:89599451-89599470 MsG0380016934.01.T01:CDS 20.0%
!!! TAACAATTTCTATTGACTTA+AGG - Chr3:89599113-89599132 MsG0380016934.01.T01:intron 20.0%
!!! TTCATGTTCTTTTGTTTATT+TGG - Chr3:89599868-89599887 MsG0380016934.01.T01:exon 20.0%
!!! TTTTTCAACCAAGTTTATTA+AGG - Chr3:89599382-89599401 MsG0380016934.01.T01:intron 20.0%
! AAAAGAGAATGATCAAAGAA+AGG + Chr3:89598805-89598824 None:intergenic 25.0%
! AAAGAACATGAATGCATTAA+AGG + Chr3:89599860-89599879 None:intergenic 25.0%
! AAATGAAACAGATGTTAGAA+AGG - Chr3:89599577-89599596 MsG0380016934.01.T01:exon 25.0%
! AATCAACTACAAGTTTCTTA+TGG - Chr3:89598712-89598731 MsG0380016934.01.T01:intron 25.0%
! ACTGATAAGAAAGGAAAAAT+AGG - Chr3:89599423-89599442 MsG0380016934.01.T01:intron 25.0%
! ACTTTAGACCTTAATAAACT+TGG + Chr3:89599393-89599412 None:intergenic 25.0%
! AGATCAAAGAGAAATCAAAA+TGG - Chr3:89598555-89598574 MsG0380016934.01.T01:CDS 25.0%
! TAAGAAACTTGTAGTTGATT+AGG + Chr3:89598712-89598731 None:intergenic 25.0%
! TGATAAATATTCATATGGCA+TGG + Chr3:89599040-89599059 None:intergenic 25.0%
! TTAAGAAGCAAAAGAAATAC+GGG - Chr3:89599452-89599471 MsG0380016934.01.T01:CDS 25.0%
! TTATCAGGCAATTTATCAAA+GGG + Chr3:89598910-89598929 None:intergenic 25.0%
! TTTATCAGGCAATTTATCAA+AGG + Chr3:89598911-89598930 None:intergenic 25.0%
! TTTATTATGCTAATGTCAAC+AGG - Chr3:89599715-89599734 MsG0380016934.01.T01:exon 25.0%
!!! CAAAAACAAAAATAATGGGT+AGG + Chr3:89599689-89599708 None:intergenic 25.0%
!!! TCTGCTTTAAGTTCTAAATT+TGG + Chr3:89599327-89599346 None:intergenic 25.0%
!!! TTTGTTGATAATAATGTTGC+AGG - Chr3:89598863-89598882 MsG0380016934.01.T01:intron 25.0%
AAGTACAGAGAAAGAAAATC+AGG - Chr3:89599158-89599177 MsG0380016934.01.T01:intron 30.0%
AGGATGAAGTAAAAGGTTAA+GGG + Chr3:89598692-89598711 None:intergenic 30.0%
AGGCAAAAAGAAAATGACTA+TGG + Chr3:89599649-89599668 None:intergenic 30.0%
ATTGAACAGATGGAACTAAA+AGG + Chr3:89599917-89599936 None:intergenic 30.0%
CTATGAATTGAGGAAATGAA+TGG + Chr3:89598516-89598535 None:intergenic 30.0%
GCATTATGATTGTCTCAAAA+TGG - Chr3:89599486-89599505 MsG0380016934.01.T01:intron 30.0%
GTTGATTAGGATGAAGTAAA+AGG + Chr3:89598699-89598718 None:intergenic 30.0%
TAGGATGAAGTAAAAGGTTA+AGG + Chr3:89598693-89598712 None:intergenic 30.0%
TATCAGGCAATTTATCAAAG+GGG + Chr3:89598909-89598928 None:intergenic 30.0%
TGATAATCTTGTAGTGTGAA+GGG + Chr3:89598599-89598618 None:intergenic 30.0%
! TCTAAAATGTGTTGCCTATA+TGG + Chr3:89599281-89599300 None:intergenic 30.0%
!! GCTTTAAGTTCTAAATTTGG+TGG + Chr3:89599324-89599343 None:intergenic 30.0%
AAAAGTGGGAAAAAGTTGTG+TGG - Chr3:89598389-89598408 MsG0380016934.01.T01:exon 35.0%
AAAATGTGTTGCCTATATGG+CGG + Chr3:89599278-89599297 None:intergenic 35.0%
AAAGATGTCTTGAGAGTAGA+TGG + Chr3:89598658-89598677 None:intergenic 35.0%
AAAGTGGGAAAAAGTTGTGT+GGG - Chr3:89598390-89598409 MsG0380016934.01.T01:exon 35.0%
AACATTCTTGTGCAAGCTAT+TGG + Chr3:89599942-89599961 None:intergenic 35.0%
AAGAGAATAGTTGTGTGTTG+TGG + Chr3:89598489-89598508 None:intergenic 35.0%
AGGAGTGAACATATTAAGCA+AGG + Chr3:89599669-89599688 None:intergenic 35.0%
ATCAGGCAATTTATCAAAGG+GGG + Chr3:89598908-89598927 None:intergenic 35.0%
GCAGGTATATTTACAATGAG+AGG - Chr3:89598881-89598900 MsG0380016934.01.T01:intron 35.0%
GCTATTGGAAATTGAACAGA+TGG + Chr3:89599927-89599946 None:intergenic 35.0%
GTGATAATCTTGTAGTGTGA+AGG + Chr3:89598600-89598619 None:intergenic 35.0%
GTTAGGTTCAGTGAATTTGA+CGG - Chr3:89599225-89599244 MsG0380016934.01.T01:intron 35.0%
TCCAAAGAGATGAAGCAATT+GGG - Chr3:89599615-89599634 MsG0380016934.01.T01:exon 35.0%
TGTCCACTATTACTCATAGA+TGG - Chr3:89598972-89598991 MsG0380016934.01.T01:intron 35.0%
TTGTTGACATCTGTTGCATA+GGG + Chr3:89599551-89599570 None:intergenic 35.0%
TTTGTTGACATCTGTTGCAT+AGG + Chr3:89599552-89599571 None:intergenic 35.0%
! ACGACAGATATAAGCTTGTT+TGG + Chr3:89598767-89598786 None:intergenic 35.0%
!! TAATTGGTTTGAATCCTACG+TGG + Chr3:89598436-89598455 None:intergenic 35.0%
AAAAAGTTGTGTGGGGAGTA+TGG - Chr3:89598398-89598417 MsG0380016934.01.T01:exon 40.0%
AAGTGGGAAAAAGTTGTGTG+GGG - Chr3:89598391-89598410 MsG0380016934.01.T01:exon 40.0%
ACCCAATTGCTTCATCTCTT+TGG + Chr3:89599619-89599638 None:intergenic 40.0%
ATAGGGCTTAAACCTTCGTT+TGG + Chr3:89599534-89599553 None:intergenic 40.0%
ATCTTCGAAGATTCTTCCTC+TGG + Chr3:89598539-89598558 None:intergenic 40.0%
ATGGCTTCTAAGTGCATGTT+AGG - Chr3:89599208-89599227 MsG0380016934.01.T01:intron 40.0%
CCACTATTACTCATAGATGG+AGG - Chr3:89598975-89598994 MsG0380016934.01.T01:intron 40.0%
CCTCCATCTATGAGTAATAG+TGG + Chr3:89598978-89598997 None:intergenic 40.0%
CGGTGAATTTGACAGAATCA+CGG - Chr3:89599245-89599264 MsG0380016934.01.T01:intron 40.0%
CTCCAAAGAGATGAAGCAAT+TGG - Chr3:89599614-89599633 MsG0380016934.01.T01:exon 40.0%
TAATCTTGTAGTGTGAAGGG+AGG + Chr3:89598596-89598615 None:intergenic 40.0%
TAGGGCTTAAACCTTCGTTT+GGG + Chr3:89599533-89599552 None:intergenic 40.0%
TCTGGTGATTGAGTCTGTAA+GGG + Chr3:89598461-89598480 None:intergenic 40.0%
TGAATTTGACAGAATCACGG+TGG - Chr3:89599248-89599267 MsG0380016934.01.T01:intron 40.0%
TGTCTTGAGAGTAGATGGAT+TGG + Chr3:89598653-89598672 None:intergenic 40.0%
TTCTGGTGATTGAGTCTGTA+AGG + Chr3:89598462-89598481 None:intergenic 40.0%
TTGTGTGTTGTGGAAAGTTC+TGG + Chr3:89598479-89598498 None:intergenic 40.0%
TTTCCTCAATTCATAGCCAG+AGG - Chr3:89598520-89598539 MsG0380016934.01.T01:exon 40.0%
! AAATGGCGTTTTGCAGTTTG+TGG - Chr3:89599503-89599522 MsG0380016934.01.T01:intron 40.0%
! TGAGTCTGTAAGGGTGTAAT+TGG + Chr3:89598452-89598471 None:intergenic 40.0%
AAGTTTCTTATGGACCTCCC+AGG - Chr3:89598722-89598741 MsG0380016934.01.T01:intron 45.0%
ATGAGACCAGTCTTTGTGAG+TGG + Chr3:89599359-89599378 None:intergenic 45.0%
CCTGATAAATACTTCTGCCC+TGG - Chr3:89598922-89598941 MsG0380016934.01.T01:intron 45.0%
CTTATATCTGTCGTGACTGC+GGG - Chr3:89598773-89598792 MsG0380016934.01.T01:CDS 45.0%
CTTCCTCTGGCTATGAATTG+AGG + Chr3:89598526-89598545 None:intergenic 45.0%
GCTTATATCTGTCGTGACTG+CGG - Chr3:89598772-89598791 MsG0380016934.01.T01:CDS 45.0%
TGCAAGAACTACAACTCCCA+CGG + Chr3:89599763-89599782 None:intergenic 45.0%
TTGTTTGGAAGCTACACGCA+TGG + Chr3:89598752-89598771 None:intergenic 45.0%
!! AGAGTAGATGGATTGGAGAG+TGG + Chr3:89598646-89598665 None:intergenic 45.0%
!! CCAGGGCAGAAGTATTTATC+AGG + Chr3:89598925-89598944 None:intergenic 45.0%
!! TAGATGGATTGGAGAGTGGT+CGG + Chr3:89598642-89598661 None:intergenic 45.0%
ACTTCCTATTGCAGTTGCCG+TGG - Chr3:89599743-89599762 MsG0380016934.01.T01:exon 50.0%
AGCTACACGCATGGTAAACC+TGG + Chr3:89598743-89598762 None:intergenic 50.0%
CTTCCTATTGCAGTTGCCGT+GGG - Chr3:89599744-89599763 MsG0380016934.01.T01:exon 50.0%
GCTACACGCATGGTAAACCT+GGG + Chr3:89598742-89598761 None:intergenic 50.0%
GTGGGAGTTGTAGTTCTTGC+AGG - Chr3:89599762-89599781 MsG0380016934.01.T01:exon 50.0%
TCACTGCCACTCACAAAGAC+TGG - Chr3:89599350-89599369 MsG0380016934.01.T01:intron 50.0%
TGAATCCTACGTGGAAAGCG+TGG + Chr3:89598427-89598446 None:intergenic 50.0%
TTTGTGGTGCTCCCAAACGA+AGG - Chr3:89599519-89599538 MsG0380016934.01.T01:intron 50.0%
! CAAAATGGCCTTGCAAGTGC+AGG - Chr3:89598570-89598589 MsG0380016934.01.T01:CDS 50.0%
!! ACGGTGGATTACCGCCATAT+AGG - Chr3:89599264-89599283 MsG0380016934.01.T01:intron 50.0%
ACACGCATGGTAAACCTGGG+AGG + Chr3:89598739-89598758 None:intergenic 55.0%
ACTCCCACGGCAACTGCAAT+AGG + Chr3:89599750-89599769 None:intergenic 55.0%
! TGGATTGGAGAGTGGTCGGA+GGG + Chr3:89598638-89598657 None:intergenic 55.0%
!! ATGGATTGGAGAGTGGTCGG+AGG + Chr3:89598639-89598658 None:intergenic 55.0%
AAGGGAGGCCTGCACTTGCA+AGG + Chr3:89598581-89598600 None:intergenic 60.0%
GGATGCCACGCTTTCCACGT+AGG - Chr3:89598419-89598438 MsG0380016934.01.T01:exon 60.0%
TTGGAGAGTGGTCGGAGGGT+AGG + Chr3:89598634-89598653 None:intergenic 60.0%
CGGAGGGTAGGAGTGGCAGT+AGG + Chr3:89598622-89598641 None:intergenic 65.0%
GAGTGGTCGGAGGGTAGGAG+TGG + Chr3:89598629-89598648 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 89598359 89600010 89598359 ID=MsG0380016934.01;
Chr3 mRNA 89598359 89600010 89598359 ID=MsG0380016934.01.T01;Parent=MsG0380016934.01
Chr3 exon 89598359 89598632 89598359 ID=MsG0380016934.01.T01.exon;Parent=MsG0380016934.01.T01
Chr3 CDS 89598554 89598632 89598554 ID=MsG0380016934.01.T01.cds;Parent=MsG0380016934.01.T01
Chr3 CDS 89598733 89598850 89598733 ID=MsG0380016934.01.T01.cds;Parent=MsG0380016934.01.T01
Chr3 exon 89598733 89598850 89598733 ID=MsG0380016934.01.T01.exon;Parent=MsG0380016934.01.T01
Chr3 CDS 89599426 89599484 89599426 ID=MsG0380016934.01.T01.cds;Parent=MsG0380016934.01.T01
Chr3 exon 89599426 89599484 89599426 ID=MsG0380016934.01.T01.exon;Parent=MsG0380016934.01.T01
Chr3 CDS 89599575 89599795 89599575 ID=MsG0380016934.01.T01.cds;Parent=MsG0380016934.01.T01
Chr3 exon 89599575 89600010 89599575 ID=MsG0380016934.01.T01.exon;Parent=MsG0380016934.01.T01
Gene Sequence

>MsG0380016934.01.T01

ATGGCCTTGCAAGTGCAGGCCTCCCTTCACACTACAAGATTATCACCTACTGCCACTCCTACCCTCCGACCACTCTCCAATCCATCTACTCTCAAGACATCTTTCTTCTCTCGTTCCCTTAACCTTTTACTTCATCCTAATCAACTACAAGTTTCTTATGGACCTCCCAGGTTTACCATGCGTGTAGCTTCCAAACAAGCTTATATCTGTCGTGACTGCGGGTATATTTACAATGAGAGGACCCCCTTTGATAAATTGCCTGATAAATACTTCTGCCCTGTTTGTGGTGCTCCCAAACGAAGGTTTAAGCCCTATGCAACAGATGTCAACAAAAAAGCAAATGAAACAGATGTTAGAAAGGCAAGAAAAGCTGAACTCCAAAGAGATGAAGCAATTGGGAAAGCACTTCCTATTGCAGTTGCCGTGGGAGTTGTAGTTCTTGCAGGATTATACTTCTATCTCAACAACACATTTTAG

Protein sequence

>MsG0380016934.01.T01

MALQVQASLHTTRLSPTATPTLRPLSNPSTLKTSFFSRSLNLLLHPNQLQVSYGPPRFTMRVASKQAYICRDCGYIYNERTPFDKLPDKYFCPVCGAPKRRFKPYATDVNKKANETDVRKARKAELQRDEAIGKALPIAVAVGVVVLAGLYFYLNNTF*