AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049129


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049129.t1 MTR_8g083520 96.000 75 3 0 1 75 1 75 6.03e-45 150
MS.gene049129.t1 MTR_6g086300 82.609 69 12 0 9 77 17 85 1.66e-33 120
MS.gene049129.t1 MTR_6g086300 82.609 69 12 0 9 77 17 85 1.66e-33 120
MS.gene049129.t1 MTR_8g083530 81.818 66 12 0 9 74 18 83 3.56e-33 117
MS.gene049129.t1 MTR_8g083530 81.818 66 12 0 9 74 18 83 1.48e-32 118
MS.gene049129.t1 MTR_6g086340 69.620 79 19 1 2 75 3 81 2.74e-31 114
MS.gene049129.t1 MTR_8g064170 59.155 71 29 0 4 74 51 121 9.67e-24 94.0
MS.gene049129.t1 MTR_8g064170 60.000 70 28 0 4 73 51 120 1.18e-23 93.6
MS.gene049129.t1 MTR_4g107040 61.905 63 24 0 10 72 60 122 8.51e-22 88.2
MS.gene049129.t1 MTR_3g078170 61.290 62 24 0 11 72 59 120 2.98e-21 86.7
MS.gene049129.t1 MTR_3g078170 61.290 62 24 0 11 72 59 120 3.21e-21 86.3
MS.gene049129.t1 MTR_3g078170 61.290 62 24 0 11 72 59 120 3.69e-21 86.3
MS.gene049129.t1 MTR_3g078170 61.290 62 24 0 11 72 59 120 4.43e-21 86.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049129.t1 AT3G24503 67.949 78 20 1 2 74 3 80 5.69e-30 110
MS.gene049129.t1 AT3G48000 61.765 68 26 0 5 72 49 116 2.74e-23 92.4
MS.gene049129.t1 AT1G23800 62.903 62 23 0 11 72 51 112 7.92e-22 87.8
MS.gene049129.t1 AT1G23800 62.903 62 23 0 11 72 51 112 1.53e-21 87.4

Find 25 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGTGGGTTCGCCATTAAC+TGG 0.183711 4.1:+2644787 None:intergenic
GCTATAACCTCTCCTGTTCT+TGG 0.187395 4.1:+2643986 None:intergenic
AGCAACATCAATGTCTTCTT+TGG 0.289041 4.1:+2643946 None:intergenic
AAGATGAATGGCCCAGTTAA+TGG 0.318772 4.1:-2644799 MS.gene049129:CDS
GGTCCTTGGCCCCGCCTGCC+CGG 0.394609 4.1:-2643893 MS.gene049129:CDS
ATGCATTTGACTTTGGTCCT+TGG 0.433170 4.1:-2643907 MS.gene049129:CDS
GCACCGGGCAGGCGGGGCCA+AGG 0.457014 4.1:+2643890 None:intergenic
AGACATTGATGTTGCTGTAA+AGG 0.460480 4.1:-2643939 MS.gene049129:CDS
GCACGTAATGCATTTGACTT+TGG 0.466490 4.1:-2643914 MS.gene049129:CDS
ACATACAGCACCGGGCAGGC+GGG 0.489116 4.1:+2643883 None:intergenic
GAAACAATAGATCCAAGAAC+AGG 0.490822 4.1:-2643998 MS.gene049129:CDS
AACATACAGCACCGGGCAGG+CGG 0.509641 4.1:+2643882 None:intergenic
ATCTCCATCGATGAAAAGCT+TGG 0.513198 4.1:+2644756 None:intergenic
GAAAAGCTTGGTGAACTTGA+TGG 0.514257 4.1:+2644768 None:intergenic
CATACAGCACCGGGCAGGCG+GGG 0.524560 4.1:+2643884 None:intergenic
CCACCAAACACAAAGATGAA+TGG 0.534881 4.1:-2644811 None:intergenic
TGGTGGGTTCGCCATTAACT+GGG 0.536645 4.1:+2644788 None:intergenic
TCAAAAGAAGCAAATATATG+TGG 0.571588 4.1:+2643495 None:intergenic
AATAACATACAGCACCGGGC+AGG 0.596275 4.1:+2643879 None:intergenic
GTTATAGCAAGGATTAGCGA+AGG 0.605769 4.1:-2643971 MS.gene049129:CDS
AGCTTGGTGAACTTGATGGT+GGG 0.613775 4.1:+2644772 None:intergenic
CCTCCTCATAGTCTAGAGGA+AGG 0.634098 4.1:+2643454 None:intergenic
AAGCTTGGTGAACTTGATGG+TGG 0.643041 4.1:+2644771 None:intergenic
GAACAGGAGAGGTTATAGCA+AGG 0.648276 4.1:-2643982 MS.gene049129:CDS
AATAGATCCAAGAACAGGAG+AGG 0.651958 4.1:-2643993 MS.gene049129:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAAATAATAATAACATGA+TGG + chr4.1:2643807-2643826 None:intergenic 10.0%
!! ACAAAAACATAAAACTATAT+TGG - chr4.1:2644508-2644527 MS.gene049129:intron 15.0%
!! ATATCAAAATATAAAAAGAG+AGG + chr4.1:2644416-2644435 None:intergenic 15.0%
!! CAAAAAAGAAAAATTAGATA+TGG - chr4.1:2643880-2643899 MS.gene049129:intron 15.0%
!! TTGTAAAAAAAAAAACATGA+TGG + chr4.1:2643777-2643796 None:intergenic 15.0%
!!! ATAGTTTTATGTTTTTGTTT+TGG + chr4.1:2644506-2644525 None:intergenic 15.0%
!!! TATGTCAATTTTTAATTTCT+TGG - chr4.1:2643923-2643942 MS.gene049129:CDS 15.0%
!! AAAATAATTCAGAATTCAAC+GGG + chr4.1:2644138-2644157 None:intergenic 20.0%
!! CAAAATAATTCAGAATTCAA+CGG + chr4.1:2644139-2644158 None:intergenic 20.0%
!! CTTTCAATGTCAAATATAAA+GGG - chr4.1:2644677-2644696 MS.gene049129:intron 20.0%
!! TCTTTCAATGTCAAATATAA+AGG - chr4.1:2644676-2644695 MS.gene049129:intron 20.0%
!! TTTGACATATTAACAACAAA+AGG - chr4.1:2643983-2644002 MS.gene049129:CDS 20.0%
!!! AAAAGTGTGAACAAAATAAA+TGG + chr4.1:2643574-2643593 None:intergenic 20.0%
!!! ATTATTTTAGACAAGAAAGT+TGG - chr4.1:2644443-2644462 MS.gene049129:intron 20.0%
!!! TATTATTACCATATTTGTTG+AGG + chr4.1:2643728-2643747 None:intergenic 20.0%
!!! TTTTAATTTCTTGGTATTTG+CGG - chr4.1:2643932-2643951 MS.gene049129:CDS 20.0%
! ACATTGAAAGATTTGTATAG+AGG + chr4.1:2644667-2644686 None:intergenic 25.0%
! CAAAATATAAAAAGAGAGGA+AGG + chr4.1:2644412-2644431 None:intergenic 25.0%
! GAAAATTACAGAAAAAGAGA+AGG + chr4.1:2643629-2643648 None:intergenic 25.0%
! GAAAGATGTGATTAAGTTTA+AGG + chr4.1:2644729-2644748 None:intergenic 25.0%
! TCAAAAGAAGCAAATATATG+TGG + chr4.1:2644770-2644789 None:intergenic 25.0%
! TGCATAATATATGTAAAGTC+CGG - chr4.1:2644582-2644601 MS.gene049129:intron 25.0%
! TTAATCACATCTTTCTTTAC+AGG - chr4.1:2644734-2644753 MS.gene049129:intron 25.0%
!! TTTAATTTCTTGGTATTTGC+GGG - chr4.1:2643933-2643952 MS.gene049129:CDS 25.0%
!!! TCGTGATTTTTTTCTTTTTG+TGG + chr4.1:2644625-2644644 None:intergenic 25.0%
!!! TGATTTTTTTCTTTTTGTGG+TGG + chr4.1:2644622-2644641 None:intergenic 25.0%
AATAGTTGCCTCAACAAATA+TGG - chr4.1:2643717-2643736 MS.gene049129:intron 30.0%
CATAATATATGTAAAGTCCG+GGG - chr4.1:2644584-2644603 MS.gene049129:intron 30.0%
GCATAATATATGTAAAGTCC+GGG - chr4.1:2644583-2644602 MS.gene049129:intron 30.0%
TCATAATGAGAATCTTAAGC+AGG - chr4.1:2644471-2644490 MS.gene049129:intron 30.0%
! GATGTGATTAAGTTTAAGGT+TGG + chr4.1:2644725-2644744 None:intergenic 30.0%
! GTTACTTTGTTTGAGAAAAC+AGG - chr4.1:2644231-2644250 MS.gene049129:intron 30.0%
!!! TATTTTGACGCTTTTCTCAT+AGG - chr4.1:2644152-2644171 MS.gene049129:intron 30.0%
AGACATTGATGTTGCTGTAA+AGG - chr4.1:2644323-2644342 MS.gene049129:intron 35.0%
AGCAACATCAATGTCTTCTT+TGG + chr4.1:2644319-2644338 None:intergenic 35.0%
ATAATTCAGAATTCAACGGG+AGG + chr4.1:2644135-2644154 None:intergenic 35.0%
GAAAAATAACATACAGCACC+GGG + chr4.1:2644390-2644409 None:intergenic 35.0%
GAAACAATAGATCCAAGAAC+AGG - chr4.1:2644264-2644283 MS.gene049129:intron 35.0%
GGAAAAATAACATACAGCAC+CGG + chr4.1:2644391-2644410 None:intergenic 35.0%
! CTTTTCTCATAGGAGTCAAA+GGG - chr4.1:2644162-2644181 MS.gene049129:intron 35.0%
! TTTCATCGATGGAGATTTTG+TGG - chr4.1:2643513-2643532 MS.gene049129:intron 35.0%
!!! TTTTTTCTTTTTGTGGTGGC+CGG + chr4.1:2644618-2644637 None:intergenic 35.0%
AATAGATCCAAGAACAGGAG+AGG - chr4.1:2644269-2644288 MS.gene049129:intron 40.0%
AATTTCTTGGTATTTGCGGG+AGG - chr4.1:2643936-2643955 MS.gene049129:CDS 40.0%
ATCTCCATCGATGAAAAGCT+TGG + chr4.1:2643509-2643528 None:intergenic 40.0%
! ATAAAGGGTGTGCATGTACT+TGG - chr4.1:2644692-2644711 MS.gene049129:intron 40.0%
! ATGCATTTGACTTTGGTCCT+TGG - chr4.1:2644355-2644374 MS.gene049129:intron 40.0%
! CGATGGAGATTTTGTGGATT+CGG - chr4.1:2643519-2643538 MS.gene049129:intron 40.0%
! GAAAAGCTTGGTGAACTTGA+TGG + chr4.1:2643497-2643516 None:intergenic 40.0%
! GCACGTAATGCATTTGACTT+TGG - chr4.1:2644348-2644367 MS.gene049129:intron 40.0%
! GCTTTTCTCATAGGAGTCAA+AGG - chr4.1:2644161-2644180 MS.gene049129:intron 40.0%
! GTTATAGCAAGGATTAGCGA+AGG - chr4.1:2644291-2644310 MS.gene049129:intron 40.0%
! TTCACCAAGCTTTTCATCGA+TGG - chr4.1:2643502-2643521 MS.gene049129:CDS 40.0%
!! GATTTTGTGGATTCGGTTTC+AGG - chr4.1:2643526-2643545 MS.gene049129:intron 40.0%
AAAGTCCGGGGTTTAAACTC+CGG - chr4.1:2644596-2644615 MS.gene049129:intron 45.0%
GAACAGGAGAGGTTATAGCA+AGG - chr4.1:2644280-2644299 MS.gene049129:intron 45.0%
GCTATAACCTCTCCTGTTCT+TGG + chr4.1:2644279-2644298 None:intergenic 45.0%
! AAGCTTGGTGAACTTGATGG+TGG + chr4.1:2643494-2643513 None:intergenic 45.0%
! AGCTTGGTGAACTTGATGGT+GGG + chr4.1:2643493-2643512 None:intergenic 45.0%
! CGAGCTTAACTCAGTTGGTA+GGG - chr4.1:2644555-2644574 MS.gene049129:intron 45.0%
CCAACTGAGTTAAGCTCGCA+AGG + chr4.1:2644553-2644572 None:intergenic 50.0%
CCTTGCGAGCTTAACTCAGT+TGG - chr4.1:2644550-2644569 MS.gene049129:intron 50.0%
GCGAGCTTAACTCAGTTGGT+AGG - chr4.1:2644554-2644573 MS.gene049129:intron 50.0%
! AATAACATACAGCACCGGGC+AGG + chr4.1:2644386-2644405 None:intergenic 50.0%
!! ATGGTGGGTTCGCCATTAAC+TGG + chr4.1:2643478-2643497 None:intergenic 50.0%
!! TGGTGGGTTCGCCATTAACT+GGG + chr4.1:2643477-2643496 None:intergenic 50.0%
TGCGGGAGGTGAGAAAGCTA+TGG - chr4.1:2643950-2643969 MS.gene049129:CDS 55.0%
GGTGGCCGGAGTTTAAACCC+CGG + chr4.1:2644604-2644623 None:intergenic 60.0%
! AACATACAGCACCGGGCAGG+CGG + chr4.1:2644383-2644402 None:intergenic 60.0%
! ACATACAGCACCGGGCAGGC+GGG + chr4.1:2644382-2644401 None:intergenic 65.0%
! CATACAGCACCGGGCAGGCG+GGG + chr4.1:2644381-2644400 None:intergenic 70.0%
! GGTCCTTGGCCCCGCCTGCC+CGG - chr4.1:2644369-2644388 MS.gene049129:intron 80.0%
! GCACCGGGCAGGCGGGGCCA+AGG + chr4.1:2644375-2644394 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 2643466 2644818 2643466 ID=MS.gene049129
chr4.1 mRNA 2643466 2644818 2643466 ID=MS.gene049129.t1;Parent=MS.gene049129
chr4.1 exon 2644737 2644818 2644737 ID=MS.gene049129.t1.exon1;Parent=MS.gene049129.t1
chr4.1 CDS 2644737 2644818 2644737 ID=cds.MS.gene049129.t1;Parent=MS.gene049129.t1
chr4.1 exon 2643889 2644031 2643889 ID=MS.gene049129.t1.exon2;Parent=MS.gene049129.t1
chr4.1 CDS 2643889 2644031 2643889 ID=cds.MS.gene049129.t1;Parent=MS.gene049129.t1
chr4.1 exon 2643466 2643528 2643466 ID=MS.gene049129.t1.exon3;Parent=MS.gene049129.t1
chr4.1 CDS 2643466 2643528 2643466 ID=cds.MS.gene049129.t1;Parent=MS.gene049129.t1
Gene Sequence

>MS.gene049129

ATGAATGGCCCAGTTAATGGCGAACCCACCATCAAGTTCACCAAGCTTTTCATCGATGGAGATTTTGTGGATTCGGTTTCAGGTCAATACTATAATAATATATTTCCATTTATTTTGTTCACACTTTTGCTATTTTTTTTTTTTTCTAGCTTTCTCTGCTCCTTCTCTTTTTCTGTAATTTTCTTCACAAATTGACATGATTCTATCTATAAAGAACAAAGTTTTGCGTTTTTATTTAACTTGAATAAATGAATAGTTGCCTCAACAAATATGGTAATAATAACACTGACACATCAGTCATGCTATAACCATCATGTTTTTTTTTTTACAAACTATAACCATCATGTTATTATTATTTTTAAAAAATTACAGCAAAATTAATTTGCTAAATGTTCAATATTTTTTAATCTTTTTCAAAAAAGAAAAATTAGATATGGCAGATTGTTTTTGAACATAGTATGTCAATTTTTAATTTCTTGGTATTTGCGGGAGGTGAGAAAGCTATGGCAGAATTAACTTTGACATATTAACAACAAAAGGTAAGTTTTATTTATTTTACAAAACAAATGATTGAACTTAAGTGTCTAATGAGTTTTATTAAATAACAAATCGTTGAAGAACAGAGTTTGATTTATTGATGAAATAATTTTTCGCTAACTTTATTTACCTCCCGTTGAATTCTGAATTATTTTGACGCTTTTCTCATAGGAGTCAAAGGGTTAAATAAAAATTAAAAAAAAAACTCTTATTTATGTGCTTTTGTTTGTTACTTTGTTTGAGAAAACAGGTAAGACATTTGAAACAATAGATCCAAGAACAGGAGAGGTTATAGCAAGGATTAGCGAAGGAACCAAAGAAGACATTGATGTTGCTGTAAAGGCAGCACGTAATGCATTTGACTTTGGTCCTTGGCCCCGCCTGCCCGGTGCTGTATGTTATTTTTCCTTCCTCTCTTTTTATATTTTGATATTAAATGAATTATTTTAGACAAGAAAGTTGGATAATTCATAATGAGAATCTTAAGCAGGTAATCAACACCAAAACAAAAACATAAAACTATATTGGTAAATCACGACTTCGAAGTCCTTGCGAGCTTAACTCAGTTGGTAGGGACAATGCATAATATATGTAAAGTCCGGGGTTTAAACTCCGGCCACCACAAAAAGAAAAAAATCACGACTTCAAAGCAAAACTTGATCCTCTATACAAATCTTTCAATGTCAAATATAAAGGGTGTGCATGTACTTGGAGCATATCCAACCTTAAACTTAATCACATCTTTCTTTACAGGTACAACTTGACCACATATATTTGCTTCTTTTGATATTCACTCATCGTGCATCCTTCCTCTAG

Protein sequence

>MS.gene049129.t1

MNGPVNGEPTIKFTKLFIDGDFVDSVSGKTFETIDPRTGEVIARISEGTKEDIDVAVKAARNAFDFGPWPRLPGAVQLDHIYLLLLIFTHRASFL