AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063493


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063493.t1 MTR_4g109520 97.076 171 5 0 1 171 60 230 1.84e-123 347
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 43 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGCTGTGATTCTGAAAA+AGG 0.193262 8.4:+18076702 None:intergenic
TTTGGAATTGGTTTGTATAT+TGG 0.217078 8.4:-18076550 MS.gene063493:CDS
GGAATGGAGAAATCAATATT+TGG 0.260276 8.4:-18076568 MS.gene063493:CDS
TCTTGATGATTCTAGTATTT+CGG 0.269601 8.4:+18076762 None:intergenic
TTCTGATCTTTACCATTCTA+AGG 0.302171 8.4:-18076461 MS.gene063493:intron
GAGAAATCAATATTTGGAAT+TGG 0.332954 8.4:-18076562 MS.gene063493:CDS
ATCTAACTCACATGCTTGCC+TGG 0.341569 8.4:-18075927 MS.gene063493:CDS
TTGAAGAACTTATGATAAAA+TGG 0.367734 8.4:-18075873 MS.gene063493:CDS
AAGTGACTGGGTCATCTGTT+GGG 0.436235 8.4:-18075951 MS.gene063493:CDS
TATCATAAGTTCTTCAACAC+TGG 0.457160 8.4:+18075879 None:intergenic
AAGAGGTAATATTCTTCACT+TGG 0.488829 8.4:-18076620 MS.gene063493:CDS
GCTTGGAAAAGCCGAGGGAT+TGG 0.488915 8.4:-18076659 MS.gene063493:CDS
GGTGTATATGCATGCTACTT+CGG 0.503038 8.4:+18075566 None:intergenic
GGATTGGTAAGAATGTGGTT+TGG 0.503248 8.4:-18076643 MS.gene063493:CDS
ATTAGGTTCTACACAAGACT+TGG 0.507328 8.4:-18075991 MS.gene063493:CDS
CAGAATCACAGCAAGGAGCT+TGG 0.509095 8.4:-18076695 MS.gene063493:CDS
GTAAGAATGTGGTTTGGAAG+AGG 0.511446 8.4:-18076637 MS.gene063493:CDS
TCTAACTCACATGCTTGCCT+GGG 0.513916 8.4:-18075926 MS.gene063493:CDS
ACAAAGAGAAACACTTGGAA+TGG 0.525859 8.4:-18076584 MS.gene063493:CDS
GCGAGTACCAACACCTCCCC+AGG 0.528755 8.4:+18075909 None:intergenic
GAAGTGACTGGGTCATCTGT+TGG 0.531078 8.4:-18075952 MS.gene063493:CDS
AAACCTGTGTATGAAGTGAC+TGG 0.536389 8.4:-18075964 MS.gene063493:CDS
ATGCTTGCCTGGGGAGGTGT+TGG 0.541079 8.4:-18075916 MS.gene063493:CDS
ACTCACATGCTTGCCTGGGG+AGG 0.551239 8.4:-18075922 MS.gene063493:CDS
GTCCTAGAGTTTGGAGCTGA+AGG 0.555399 8.4:+18076725 None:intergenic
GAAAGAAGAGGACCTTAGAA+TGG 0.557524 8.4:+18076449 None:intergenic
GGGAGGTGTTGGTACTCGCA+TGG 0.557882 8.4:-18075905 MS.gene063493:CDS
TGATTCTAGTATTTCGGACA+TGG 0.558688 8.4:+18076768 None:intergenic
CCACATTCTTACCAATCCCT+CGG 0.564065 8.4:+18076648 None:intergenic
TTGGTAACAGATAACGAGCT+TGG 0.577020 8.4:-18076676 MS.gene063493:CDS
GACCTTCAGCTCCAAACTCT+AGG 0.585104 8.4:-18076727 MS.gene063493:CDS
TTAGGTTCTACACAAGACTT+GGG 0.594680 8.4:-18075990 MS.gene063493:CDS
CCGAGGGATTGGTAAGAATG+TGG 0.599865 8.4:-18076648 MS.gene063493:CDS
ATTAGACATGGATATGATTG+TGG 0.601421 8.4:-18076517 MS.gene063493:CDS
GGAGCTGTTGCTATTAGACA+TGG 0.604767 8.4:-18076529 MS.gene063493:CDS
GACCCAGTCACTTCATACAC+AGG 0.620153 8.4:+18075961 None:intergenic
TAACGAGCTTGGAAAAGCCG+AGG 0.622512 8.4:-18076665 MS.gene063493:CDS
AACGAGCTTGGAAAAGCCGA+GGG 0.631401 8.4:-18076664 MS.gene063493:CDS
GAAATACTAGAATCATCAAG+AGG 0.638232 8.4:-18076760 MS.gene063493:CDS
AGTGACTGGGTCATCTGTTG+GGG 0.640301 8.4:-18075950 MS.gene063493:CDS
AAACTACAAAGAGAAACACT+TGG 0.642328 8.4:-18076589 MS.gene063493:CDS
CTAACTCACATGCTTGCCTG+GGG 0.664605 8.4:-18075925 MS.gene063493:CDS
AACCTGTGTATGAAGTGACT+GGG 0.685751 8.4:-18075963 MS.gene063493:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATCATGATATACATTT+AGG + chr8.4:18076684-18076703 None:intergenic 15.0%
!! GTTAACACAATTTAAATAAA+TGG - chr8.4:18076128-18076147 MS.gene063493:intron 15.0%
!!! TAAAAGATGTAAAATGATTT+TGG - chr8.4:18076064-18076083 MS.gene063493:intron 15.0%
!!! TTCTTATTTATGTTATAAGA+TGG - chr8.4:18076538-18076557 MS.gene063493:CDS 15.0%
!! AATTTCATTAACCATGAATT+TGG - chr8.4:18076189-18076208 MS.gene063493:intron 20.0%
!! CAATATAAAAGTTAAGGATA+AGG + chr8.4:18075926-18075945 None:intergenic 20.0%
!! TTGAAGAACTTATGATAAAA+TGG - chr8.4:18076473-18076492 MS.gene063493:CDS 20.0%
!!! TTTTTGAATAACAGTTGATT+AGG - chr8.4:18076338-18076357 MS.gene063493:intron 20.0%
! AAACATCAAATAACTCTTCT+AGG + chr8.4:18076311-18076330 None:intergenic 25.0%
! ATAAAAGTTAAGGATAAGGT+TGG + chr8.4:18075922-18075941 None:intergenic 25.0%
! TGCAGACAATATAAAAGTTA+AGG + chr8.4:18075932-18075951 None:intergenic 25.0%
!! GAGAAATCAATATTTGGAAT+TGG - chr8.4:18075784-18075803 MS.gene063493:intron 25.0%
!! TCTTGATGATTCTAGTATTT+CGG + chr8.4:18075587-18075606 None:intergenic 25.0%
!!! TTTGGAATTGGTTTGTATAT+TGG - chr8.4:18075796-18075815 MS.gene063493:intron 25.0%
AAACTACAAAGAGAAACACT+TGG - chr8.4:18075757-18075776 MS.gene063493:intron 30.0%
AAGAGGTAATATTCTTCACT+TGG - chr8.4:18075726-18075745 MS.gene063493:intron 30.0%
ATTAACCATGAATTTGGACT+TGG - chr8.4:18076195-18076214 MS.gene063493:intron 30.0%
ATTAGACATGGATATGATTG+TGG - chr8.4:18075829-18075848 MS.gene063493:intron 30.0%
GAAATACTAGAATCATCAAG+AGG - chr8.4:18075586-18075605 MS.gene063493:intron 30.0%
GGAATGGAGAAATCAATATT+TGG - chr8.4:18075778-18075797 MS.gene063493:intron 30.0%
GTTTGAACACTTGCAAATTA+TGG + chr8.4:18076225-18076244 None:intergenic 30.0%
TATCATAAGTTCTTCAACAC+TGG + chr8.4:18076470-18076489 None:intergenic 30.0%
TTCTGATCTTTACCATTCTA+AGG - chr8.4:18075885-18075904 MS.gene063493:CDS 30.0%
TTTGAACACTTACTATGAGA+CGG - chr8.4:18076254-18076273 MS.gene063493:intron 30.0%
! CATCTTTTATACACAGTAAG+TGG + chr8.4:18076053-18076072 None:intergenic 30.0%
! TCATGATATACATTTAGGAC+AGG + chr8.4:18076679-18076698 None:intergenic 30.0%
ACAAAGAGAAACACTTGGAA+TGG - chr8.4:18075762-18075781 MS.gene063493:intron 35.0%
ATTAGGTTCTACACAAGACT+TGG - chr8.4:18076355-18076374 MS.gene063493:intron 35.0%
GGTTAATTGTGTTCAGTAGA+TGG - chr8.4:18076149-18076168 MS.gene063493:intron 35.0%
GTCAAGATATCTTCTAGCAA+AGG - chr8.4:18076637-18076656 MS.gene063493:CDS 35.0%
GTTAACCAAGTCCAAATTCA+TGG + chr8.4:18076203-18076222 None:intergenic 35.0%
TTAGGTTCTACACAAGACTT+GGG - chr8.4:18076356-18076375 MS.gene063493:intron 35.0%
! CTTGCTGTGATTCTGAAAAA+GGG + chr8.4:18075646-18075665 None:intergenic 35.0%
AAACCTGTGTATGAAGTGAC+TGG - chr8.4:18076382-18076401 MS.gene063493:intron 40.0%
AACACTTACTATGAGACGGA+GGG - chr8.4:18076258-18076277 MS.gene063493:intron 40.0%
AACCTGTGTATGAAGTGACT+GGG - chr8.4:18076383-18076402 MS.gene063493:intron 40.0%
AGGATAAGGTTGGAAAGAAG+AGG + chr8.4:18075912-18075931 None:intergenic 40.0%
GAAAGAAGAGGACCTTAGAA+TGG + chr8.4:18075900-18075919 None:intergenic 40.0%
GGAGTAGTAAGATGGTACAT+GGG - chr8.4:18076279-18076298 MS.gene063493:intron 40.0%
TGAAAAAGGGTCCTAGAGTT+TGG + chr8.4:18075633-18075652 None:intergenic 40.0%
! CCTTGCTGTGATTCTGAAAA+AGG + chr8.4:18075647-18075666 None:intergenic 40.0%
! GGATTGGTAAGAATGTGGTT+TGG - chr8.4:18075703-18075722 MS.gene063493:intron 40.0%
! GTAAGAATGTGGTTTGGAAG+AGG - chr8.4:18075709-18075728 MS.gene063493:intron 40.0%
! TTGGTAACAGATAACGAGCT+TGG - chr8.4:18075670-18075689 MS.gene063493:intron 40.0%
!!! CCTTTTTCAGAATCACAGCA+AGG - chr8.4:18075644-18075663 MS.gene063493:intron 40.0%
AAGTGACTGGGTCATCTGTT+GGG - chr8.4:18076395-18076414 MS.gene063493:intron 45.0%
ATCTAACTCACATGCTTGCC+TGG - chr8.4:18076419-18076438 MS.gene063493:intron 45.0%
CCACATTCTTACCAATCCCT+CGG + chr8.4:18075701-18075720 None:intergenic 45.0%
GAACACTTACTATGAGACGG+AGG - chr8.4:18076257-18076276 MS.gene063493:intron 45.0%
GGGAGTAGTAAGATGGTACA+TGG - chr8.4:18076278-18076297 MS.gene063493:intron 45.0%
TCTAACTCACATGCTTGCCT+GGG - chr8.4:18076420-18076439 MS.gene063493:intron 45.0%
! GGAGCTGTTGCTATTAGACA+TGG - chr8.4:18075817-18075836 MS.gene063493:intron 45.0%
!!! CTTTTATTATAATTTTAAAA+TGG - chr8.4:18076106-18076125 MS.gene063493:intron 5.0%
AAAGTGTGATCTGCTGCCTC+AGG - chr8.4:18076744-18076763 MS.gene063493:CDS 50.0%
AACGAGCTTGGAAAAGCCGA+GGG - chr8.4:18075682-18075701 MS.gene063493:intron 50.0%
AGACGGAGGGAGTAGTAAGA+TGG - chr8.4:18076271-18076290 MS.gene063493:intron 50.0%
AGTGACTGGGTCATCTGTTG+GGG - chr8.4:18076396-18076415 MS.gene063493:intron 50.0%
CAGAATCACAGCAAGGAGCT+TGG - chr8.4:18075651-18075670 MS.gene063493:intron 50.0%
CGGTATTTCACGTACACCTG+AGG + chr8.4:18076763-18076782 None:intergenic 50.0%
CTAACTCACATGCTTGCCTG+GGG - chr8.4:18076421-18076440 MS.gene063493:intron 50.0%
GAAGTGACTGGGTCATCTGT+TGG - chr8.4:18076394-18076413 MS.gene063493:intron 50.0%
GACCCAGTCACTTCATACAC+AGG + chr8.4:18076388-18076407 None:intergenic 50.0%
GACCTTCAGCTCCAAACTCT+AGG - chr8.4:18075619-18075638 MS.gene063493:intron 50.0%
TAACGAGCTTGGAAAAGCCG+AGG - chr8.4:18075681-18075700 MS.gene063493:intron 50.0%
! CCGAGGGATTGGTAAGAATG+TGG - chr8.4:18075698-18075717 MS.gene063493:intron 50.0%
! GTCCTAGAGTTTGGAGCTGA+AGG + chr8.4:18075624-18075643 None:intergenic 50.0%
GCTTGGAAAAGCCGAGGGAT+TGG - chr8.4:18075687-18075706 MS.gene063493:intron 55.0%
ACTCACATGCTTGCCTGGGG+AGG - chr8.4:18076424-18076443 MS.gene063493:intron 60.0%
! ATGCTTGCCTGGGGAGGTGT+TGG - chr8.4:18076430-18076449 MS.gene063493:intron 60.0%
!! GGGAGGTGTTGGTACTCGCA+TGG - chr8.4:18076441-18076460 MS.gene063493:intron 60.0%
GCGAGTACCAACACCTCCCC+AGG + chr8.4:18076440-18076459 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 18075580 18076788 18075580 ID=MS.gene063493
chr8.4 mRNA 18075580 18076788 18075580 ID=MS.gene063493.t1;Parent=MS.gene063493
chr8.4 exon 18076462 18076788 18076462 ID=MS.gene063493.t1.exon1;Parent=MS.gene063493.t1
chr8.4 CDS 18076462 18076788 18076462 ID=cds.MS.gene063493.t1;Parent=MS.gene063493.t1
chr8.4 exon 18075851 18076016 18075851 ID=MS.gene063493.t1.exon2;Parent=MS.gene063493.t1
chr8.4 CDS 18075851 18076016 18075851 ID=cds.MS.gene063493.t1;Parent=MS.gene063493.t1
chr8.4 exon 18075580 18075602 18075580 ID=MS.gene063493.t1.exon3;Parent=MS.gene063493.t1
chr8.4 CDS 18075580 18075602 18075580 ID=cds.MS.gene063493.t1;Parent=MS.gene063493.t1
Gene Sequence

>MS.gene063493

ATGTCCGAAATACTAGAATCATCAAGAGGACAAAAACTCGACCTTCAGCTCCAAACTCTAGGACCCTTTTTCAGAATCACAGCAAGGAGCTTGGTAACAGATAACGAGCTTGGAAAAGCCGAGGGATTGGTAAGAATGTGGTTTGGAAGAGGTAATATTCTTCACTTGGATTCTATCAAACTACAAAGAGAAACACTTGGAATGGAGAAATCAATATTTGGAATTGGTTTGTATATTGGAGCTGTTGCTATTAGACATGGATATGATTGTGGTTGTAAATCAGCTCAGTTACTTGCTATCAATGATTCTGATCTTTACCATTCTAAGGTCCTCTTCTTTCCAACCTTATCCTTAACTTTTATATTGTCTGCAAATATAGACTATGTTTATTTATTTTGCTAAATAATTTAATAATTATGCACTTAATAAACATGTTTTATTTTTAGCATACACATTAGTTCAAGAACAATCCACTTACTGTGTATAAAAGATGTAAAATGATTTTGGTTCAATCAAATTTAGACAACTTTTATTATAATTTTAAAATGGTTAACACAATTTAAATAAATGGTTAATTGTGTTCAGTAGATGGTTAATTGACGTAACATTAATTTCATTAACCATGAATTTGGACTTGGTTAACCATAATTTGCAAGTGTTCAAACACTTGTAGATTTGAACACTTACTATGAGACGGAGGGAGTAGTAAGATGGTACATGGGACTAGTCCTAGAAGAGTTATTTGATGTTTTTTTGTTTTTTTGAATAACAGTTGATTAGGTTCTACACAAGACTTGGGTTTAAACCTGTGTATGAAGTGACTGGGTCATCTGTTGGGGATCTAACTCACATGCTTGCCTGGGGAGGTGTTGGTACTCGCATGGATGCCAGTGTTGAAGAACTTATGATAAAATGGTGTAAAAGATTTAAAAAGACAAGTAAGTGATACTGATATCATTTCTTATTTATGTTATAAGATGGATAATTCATCTGTCTGTAAAACATGTCTATTTCAATGATTATATAGCTATAACATACAAAAGAATACATTATATATGTCAAGATATCTTCTAGCAAAGGATACTCATAATGCTTTCCTGTCCTAAATGTATATCATGATAATTATATATGTAACATTTTATTCATTGTTCATGTTTACATTTAAAAGTGTGATCTGCTGCCTCAGGTGTACGTGAAATACCGAAGTAG

Protein sequence

>MS.gene063493.t1

MSEILESSRGQKLDLQLQTLGPFFRITARSLVTDNELGKAEGLVRMWFGRGNILHLDSIKLQRETLGMEKSIFGIGLYIGAVAIRHGYDCGCKSAQLLAINDSDLYHSKLIRFYTRLGFKPVYEVTGSSVGDLTHMLAWGGVGTRMDASVEELMIKWCKRFKKTSVREIPK