AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75695

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75695.t1 MTR_3g083880 93.689 206 7 1 5 210 1 200 7.99e-139 386
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75695.t1 AT1G55300 61.244 209 72 3 5 210 1 203 1.84e-84 249
MS.gene75695.t1 AT1G55300 71.154 156 44 1 5 160 1 155 8.61e-79 236

Find 52 sgRNAs with CRISPR-Local

Find 70 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTTATGATGATAACTCTT+TGG 0.299738 3.3:+70387888 MS.gene75695:CDS
GTTATCATCATAAGTCTTGT+AGG 0.342174 3.3:-70387881 None:intergenic
GATCTTCTCAAAATCATTGC+TGG 0.365224 3.3:+70388298 MS.gene75695:CDS
CAACCTGATGGAACTAGATA+TGG 0.366221 3.3:+70387663 None:intergenic
GAAGCGGTACGTTTGTGATT+GGG 0.368830 3.3:+70387809 MS.gene75695:CDS
ATGATTATGGTGAGGGAATC+TGG 0.375382 3.3:+70388039 MS.gene75695:CDS
GATTTGCAATTTACCGATGA+TGG 0.382947 3.3:+70387784 MS.gene75695:CDS
TCAATCCGCTCCGCAACATT+AGG 0.383040 3.3:-70387712 None:intergenic
ATCCAATTAACAGATGATTA+TGG 0.395551 3.3:+70388026 MS.gene75695:intron
TCTGCGGAATCTACGCTTAC+GGG 0.407200 3.3:-70388121 None:intergenic
GGAAGGTCCAGCAGAGAAGC+TGG 0.408243 3.3:-70387844 None:intergenic
AGAAGCGGTACGTTTGTGAT+TGG 0.414235 3.3:+70387808 MS.gene75695:CDS
CCAGCATTTGTATGAGTCTC+TGG 0.415981 3.3:-70388717 None:intergenic
TTGGTTAAGACTGCTGATAT+TGG 0.419842 3.3:+70387907 MS.gene75695:CDS
CGCTTACGGGCATCTCTCAT+GGG 0.466049 3.3:-70388108 None:intergenic
CTCTGCGGAATCTACGCTTA+CGG 0.471366 3.3:-70388122 None:intergenic
ACGCTTACGGGCATCTCTCA+TGG 0.476622 3.3:-70388109 None:intergenic
TGTCGACACTCAATTACATC+TGG 0.485186 3.3:-70388072 None:intergenic
CATCTCTCATGGGAGGGGTG+AGG 0.487949 3.3:-70388098 None:intergenic
GCATTACCCAGCTTCTCTGC+TGG 0.493380 3.3:+70387837 MS.gene75695:CDS
TGGAACATCATTCTTTGATG+TGG 0.505743 3.3:-70388697 None:intergenic
AAGCGGTACGTTTGTGATTG+GGG 0.509827 3.3:+70387810 MS.gene75695:CDS
TAAGACTGCTGATATTGGTC+AGG 0.517098 3.3:+70387912 MS.gene75695:CDS
CCAGAGACTCATACAAATGC+TGG 0.519889 3.3:+70388717 MS.gene75695:CDS
TACGGGCATCTCTCATGGGA+GGG 0.526533 3.3:-70388104 None:intergenic
TTTGATGTGGATGTAGCTGC+AGG 0.533860 3.3:-70388684 None:intergenic
TTGTAGGATTCAACGACAGC+AGG 0.536746 3.3:-70387865 None:intergenic
GAATGTATTACATTAAGGTC+AGG 0.543174 3.3:-70388147 None:intergenic
TCAACACGGGAGACAAGCTC+AGG 0.549986 3.3:-70388271 None:intergenic
TTACGGGCATCTCTCATGGG+AGG 0.551219 3.3:-70388105 None:intergenic
ACGGGCATCTCTCATGGGAG+GGG 0.554455 3.3:-70388103 None:intergenic
CAAAATCATTGCTGGAGGAA+CGG 0.557535 3.3:+70388306 MS.gene75695:CDS
ATCCGCTCCGCAACATTAGG+TGG 0.567255 3.3:-70387709 None:intergenic
GAGAAGATCTTTCTCAACAC+GGG 0.572853 3.3:-70388284 None:intergenic
TTAACAGATGATTATGGTGA+GGG 0.581913 3.3:+70388032 MS.gene75695:intron
CTTGAAACAAACAAGATGAA+AGG 0.591470 3.3:-70388345 None:intergenic
GAAGGTCCAGCAGAGAAGCT+GGG 0.594836 3.3:-70387843 None:intergenic
TAGAGTTCCACCTAATGTTG+CGG 0.600957 3.3:+70387702 MS.gene75695:CDS
ATTAACAGATGATTATGGTG+AGG 0.615154 3.3:+70388031 MS.gene75695:intron
CTTCTCAAAATCATTGCTGG+AGG 0.618086 3.3:+70388301 MS.gene75695:CDS
GATGTAATTGAGTGTCGACA+TGG 0.622447 3.3:+70388075 MS.gene75695:CDS
GTGGAAGTAGCTGAGCAAGA+AGG 0.629194 3.3:+70388630 MS.gene75695:CDS
CCTGATGGAACTAGATATGG+AGG 0.644790 3.3:+70387666 None:intergenic
TGAGAAGATCTTTCTCAACA+CGG 0.645887 3.3:-70388285 None:intergenic
CGTACCGCTTCTTCCATCAT+CGG 0.650430 3.3:-70387797 None:intergenic
TTTACCGATGATGGAAGAAG+CGG 0.653044 3.3:+70387793 MS.gene75695:CDS
AGGATTCAACGACAGCAGGA+AGG 0.676349 3.3:-70387861 None:intergenic
GAAGTAGCTGAGCAAGAAGG+CGG 0.683444 3.3:+70388633 MS.gene75695:CDS
GAAGGCGGTGAGAATGCTCG+AGG 0.701876 3.3:+70388648 MS.gene75695:CDS
TTCCACCTAATGTTGCGGAG+CGG 0.701947 3.3:+70387707 MS.gene75695:CDS
CATTAAGGTCAGGCTCTCTG+CGG 0.708159 3.3:-70388137 None:intergenic
TCTTGACTGAGATTCACATG+TGG 0.720236 3.3:+70388611 MS.gene75695:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAAAAAAAATCTTTGAAA+TGG + chr3.3:70388418-70388437 MS.gene75695:intron 10.0%
!! AAATAGAGAAATGAGTTATA+AGG - chr3.3:70388483-70388502 None:intergenic 20.0%
!! AATAGAGAAATGAGTTATAA+GGG - chr3.3:70388482-70388501 None:intergenic 20.0%
!! TTACTAAACATTCTAAATCT+TGG + chr3.3:70388375-70388394 MS.gene75695:intron 20.0%
!!! AAAAAAAATCTTTGAAATGG+AGG + chr3.3:70388421-70388440 MS.gene75695:intron 20.0%
! AAACGAAGAATGAAAACATA+CGG - chr3.3:70388246-70388265 None:intergenic 25.0%
! ATCCAATTAACAGATGATTA+TGG + chr3.3:70388026-70388045 MS.gene75695:intron 25.0%
! CGAATGAATGTATTACATTA+AGG - chr3.3:70388155-70388174 None:intergenic 25.0%
! GTTAATTGGATTCATTAAGA+AGG - chr3.3:70388017-70388036 None:intergenic 25.0%
! TTATTTAATCATCCGAATCT+AGG - chr3.3:70387987-70388006 None:intergenic 25.0%
ACTCATTTCTCTATTTGAAC+TGG + chr3.3:70388487-70388506 MS.gene75695:intron 30.0%
ATTAACAGATGATTATGGTG+AGG + chr3.3:70388031-70388050 MS.gene75695:intron 30.0%
CACCATAATCATCTGTTAAT+TGG - chr3.3:70388031-70388050 None:intergenic 30.0%
CTCATTTCTCTATTTGAACT+GGG + chr3.3:70388488-70388507 MS.gene75695:intron 30.0%
CTTAATCATACACCTAGATT+CGG + chr3.3:70387972-70387991 MS.gene75695:intron 30.0%
CTTGAAACAAACAAGATGAA+AGG - chr3.3:70388348-70388367 None:intergenic 30.0%
GAATGTATTACATTAAGGTC+AGG - chr3.3:70388150-70388169 None:intergenic 30.0%
GACTTATGATGATAACTCTT+TGG + chr3.3:70387888-70387907 MS.gene75695:CDS 30.0%
TCATTTCTCTATTTGAACTG+GGG + chr3.3:70388489-70388508 MS.gene75695:intron 30.0%
TTAACAGATGATTATGGTGA+GGG + chr3.3:70388032-70388051 MS.gene75695:intron 30.0%
! GTTATCATCATAAGTCTTGT+AGG - chr3.3:70387884-70387903 None:intergenic 30.0%
ACAGATAATAGAGCAGTATC+AGG - chr3.3:70388200-70388219 None:intergenic 35.0%
GATCTTCTCAAAATCATTGC+TGG + chr3.3:70388298-70388317 MS.gene75695:CDS 35.0%
GATTTGCAATTTACCGATGA+TGG + chr3.3:70387784-70387803 MS.gene75695:CDS 35.0%
TCAGTCAAGAAAATAGCCAA+AGG - chr3.3:70388601-70388620 None:intergenic 35.0%
TGAGAAGATCTTTCTCAACA+CGG - chr3.3:70388288-70388307 None:intergenic 35.0%
TGGAACATCATTCTTTGATG+TGG - chr3.3:70388700-70388719 None:intergenic 35.0%
TGTTAAGTGTGAACAACCTT+TGG + chr3.3:70388582-70388601 MS.gene75695:intron 35.0%
TTGGTTAAGACTGCTGATAT+TGG + chr3.3:70387907-70387926 MS.gene75695:CDS 35.0%
ATGATTATGGTGAGGGAATC+TGG + chr3.3:70388039-70388058 MS.gene75695:CDS 40.0%
CAAAATCATTGCTGGAGGAA+CGG + chr3.3:70388306-70388325 MS.gene75695:CDS 40.0%
CTTCTCAAAATCATTGCTGG+AGG + chr3.3:70388301-70388320 MS.gene75695:CDS 40.0%
GAGAAGATCTTTCTCAACAC+GGG - chr3.3:70388287-70388306 None:intergenic 40.0%
TAAGACTGCTGATATTGGTC+AGG + chr3.3:70387912-70387931 MS.gene75695:CDS 40.0%
TAGAGTTCCACCTAATGTTG+CGG + chr3.3:70387702-70387721 MS.gene75695:CDS 40.0%
TCTATTTGAACTGGGGTTCA+TGG + chr3.3:70388496-70388515 MS.gene75695:intron 40.0%
TCTTGACTGAGATTCACATG+TGG + chr3.3:70388611-70388630 MS.gene75695:intron 40.0%
TGTCGACACTCAATTACATC+TGG - chr3.3:70388075-70388094 None:intergenic 40.0%
!! GATGTAATTGAGTGTCGACA+TGG + chr3.3:70388075-70388094 MS.gene75695:CDS 40.0%
!! TTTACCGATGATGGAAGAAG+CGG + chr3.3:70387793-70387812 MS.gene75695:CDS 40.0%
AAGCGGTACGTTTGTGATTG+GGG + chr3.3:70387810-70387829 MS.gene75695:CDS 45.0%
AGAAGCGGTACGTTTGTGAT+TGG + chr3.3:70387808-70387827 MS.gene75695:CDS 45.0%
CCAGAGACTCATACAAATGC+TGG + chr3.3:70388717-70388736 MS.gene75695:CDS 45.0%
CCAGCATTTGTATGAGTCTC+TGG - chr3.3:70388720-70388739 None:intergenic 45.0%
GAAGCGGTACGTTTGTGATT+GGG + chr3.3:70387809-70387828 MS.gene75695:CDS 45.0%
TTGTAGGATTCAACGACAGC+AGG - chr3.3:70387868-70387887 None:intergenic 45.0%
TTTGATGTGGATGTAGCTGC+AGG - chr3.3:70388687-70388706 None:intergenic 45.0%
AGGATTCAACGACAGCAGGA+AGG - chr3.3:70387864-70387883 None:intergenic 50.0%
CATTAAGGTCAGGCTCTCTG+CGG - chr3.3:70388140-70388159 None:intergenic 50.0%
CGTACCGCTTCTTCCATCAT+CGG - chr3.3:70387800-70387819 None:intergenic 50.0%
CTCTGCGGAATCTACGCTTA+CGG - chr3.3:70388125-70388144 None:intergenic 50.0%
CTGCTGATATTGGTCAGGTC+AGG + chr3.3:70387917-70387936 MS.gene75695:intron 50.0%
GAAGTAGCTGAGCAAGAAGG+CGG + chr3.3:70388633-70388652 MS.gene75695:CDS 50.0%
GTGGAAGTAGCTGAGCAAGA+AGG + chr3.3:70388630-70388649 MS.gene75695:CDS 50.0%
TCAATCCGCTCCGCAACATT+AGG - chr3.3:70387715-70387734 None:intergenic 50.0%
TCTGCGGAATCTACGCTTAC+GGG - chr3.3:70388124-70388143 None:intergenic 50.0%
TTCCACCTAATGTTGCGGAG+CGG + chr3.3:70387707-70387726 MS.gene75695:CDS 50.0%
ACGCTTACGGGCATCTCTCA+TGG - chr3.3:70388112-70388131 None:intergenic 55.0%
ATCCGCTCCGCAACATTAGG+TGG - chr3.3:70387712-70387731 None:intergenic 55.0%
CGCTTACGGGCATCTCTCAT+GGG - chr3.3:70388111-70388130 None:intergenic 55.0%
GAAGGTCCAGCAGAGAAGCT+GGG - chr3.3:70387846-70387865 None:intergenic 55.0%
GCATTACCCAGCTTCTCTGC+TGG + chr3.3:70387837-70387856 MS.gene75695:CDS 55.0%
TACGGGCATCTCTCATGGGA+GGG - chr3.3:70388107-70388126 None:intergenic 55.0%
TCAACACGGGAGACAAGCTC+AGG - chr3.3:70388274-70388293 None:intergenic 55.0%
TTACGGGCATCTCTCATGGG+AGG - chr3.3:70388108-70388127 None:intergenic 55.0%
ACGGGCATCTCTCATGGGAG+GGG - chr3.3:70388106-70388125 None:intergenic 60.0%
CATCTCTCATGGGAGGGGTG+AGG - chr3.3:70388101-70388120 None:intergenic 60.0%
GAAGGCGGTGAGAATGCTCG+AGG + chr3.3:70388648-70388667 MS.gene75695:CDS 60.0%
GGAAGGTCCAGCAGAGAAGC+TGG - chr3.3:70387847-70387866 None:intergenic 60.0%
CACGGGAGACAAGCTCAGGC+TGG - chr3.3:70388270-70388289 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 70387670 70388785 70387670 ID=MS.gene75695
chr3.3 mRNA 70387670 70388785 70387670 ID=MS.gene75695.t1;Parent=MS.gene75695
chr3.3 exon 70387670 70387933 70387670 ID=MS.gene75695.t1.exon1;Parent=MS.gene75695.t1
chr3.3 CDS 70387670 70387933 70387670 ID=cds.MS.gene75695.t1;Parent=MS.gene75695.t1
chr3.3 exon 70388039 70388158 70388039 ID=MS.gene75695.t1.exon2;Parent=MS.gene75695.t1
chr3.3 CDS 70388039 70388158 70388039 ID=cds.MS.gene75695.t1;Parent=MS.gene75695.t1
chr3.3 exon 70388271 70388355 70388271 ID=MS.gene75695.t1.exon3;Parent=MS.gene75695.t1
chr3.3 CDS 70388271 70388355 70388271 ID=cds.MS.gene75695.t1;Parent=MS.gene75695.t1
chr3.3 exon 70388622 70388785 70388622 ID=MS.gene75695.t1.exon4;Parent=MS.gene75695.t1
chr3.3 CDS 70388622 70388785 70388622 ID=cds.MS.gene75695.t1;Parent=MS.gene75695.t1
Gene Sequence

>MS.gene75695

ATGGAACTAGATATGGAGGAGCAATTCATACTTAGAGTTCCACCTAATGTTGCGGAGCGGATTGAGCGTCTTTTGAATGAAAACAATGCTTCTTCATCTGAAGACAAGTCGCTAGATTTGCAATTTACCGATGATGGAAGAAGCGGTACGTTTGTGATTGGGGATGAGCATTACCCAGCTTCTCTGCTGGACCTTCCTGCTGTCGTTGAATCCTACAAGACTTATGATGATAACTCTTTGGTTAAGACTGCTGATATTGGTCAGGTCAGGTATCTATCGTTAATTCATATTATTTGTTTATTCTTAATCATACACCTAGATTCGGATGATTAAATAACTGATTGCCTTCTTAATGAATCCAATTAACAGATGATTATGGTGAGGGAATCTGGTGATGCTGCTCCAGATGTAATTGAGTGTCGACATGGCCTCACCCCTCCCATGAGAGATGCCCGTAAGCGTAGATTCCGCAGAGAGCCTGACCTTAATGTAATACATTCATTCGTGCATTATATTATCTAAGCATACCTGATACTGCTCTATTATCTGTGCGTTTGTGTGCTCTCTTACTTACCGTATGTTTTCATTCTTCGTTTTCCAGCCTGAGCTTGTCTCCCGTGTTGAGAAAGATCTTCTCAAAATCATTGCTGGAGGAACGGCTGAAAATATTGATATCCTTTCATCTTGTTTGTTTCAAGCAGTAGTTTACTAAACATTCTAAATCTTGGATACAAATTTATGATTTCACTTTAAAAAAAATCTTTGAAATGGAGGTCTGTTGAGATCTTTTTTGTTGATTACTTTCTTTGCCCTTATAACTCATTTCTCTATTTGAACTGGGGTTCATGGAATAAGTAGCATCTATTTGCATTTGCATCAATGACAAAAGCAAGTTTTTCGCTTTCATTATATTGTTAAGTGTGAACAACCTTTGGCTATTTTCTTGACTGAGATTCACATGTGGAAGTAGCTGAGCAAGAAGGCGGTGAGAATGCTCGAGGTTCTAATAAAAAACCTGCAGCTACATCCACATCAAAGAATGATGTTCCAGAGACTCATACAAATGCTGGTGATGCTGACAGAAGTGACTCTGATGAATCTGATGACTCAGTTTGA
Protein sequence

>MS.gene75695.t1

MELDMEEQFILRVPPNVAERIERLLNENNASSSEDKSLDLQFTDDGRSGTFVIGDEHYPASLLDLPAVVESYKTYDDNSLVKTADIGQMIMVRESGDAAPDVIECRHGLTPPMRDARKRRFRREPDLNPELVSRVEKDLLKIIAGGTAENIDILSSYSHVEVAEQEGGENARGSNKKPAATSTSKNDVPETHTNAGDADRSDSDESDDSV