AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059101

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059101.t1 MTR_1g009110 86.321 212 21 1 19 222 91 302 4.43e-135 387
MS.gene059101.t1 MTR_1g022105 50.222 225 54 7 19 233 99 275 2.31e-58 189
MS.gene059101.t1 MTR_1g023400 43.868 212 95 7 38 233 88 291 6.53e-46 158
MS.gene059101.t1 MTR_4g080200 44.344 221 101 8 28 234 73 285 8.67e-44 152
MS.gene059101.t1 MTR_1g022200 42.130 216 97 9 32 227 91 298 9.52e-35 129
MS.gene059101.t1 MTR_1g037540 38.182 220 108 10 28 227 113 324 9.00e-33 124
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 73 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTGGTCACTTGATTCTA+TGG 0.211950 1.2:-10894765 MS.gene059101:CDS
CGAATTTCAAACTTATGTTT+TGG 0.285058 1.2:-10894126 MS.gene059101:CDS
AATGTTACAGTCGTCGTTAA+AGG 0.311664 1.2:+10894654 None:intergenic
AAGGATGGCGATCAAGTCTT+TGG 0.320162 1.2:-10894203 MS.gene059101:CDS
CGAACTGGGATGCGGTTAAA+AGG 0.324187 1.2:+10894514 None:intergenic
GTCCGACCCAGTTGGAAATC+TGG 0.346576 1.2:-10894303 MS.gene059101:CDS
CTGTTTGCATGTTAAACATA+AGG 0.366156 1.2:-10894362 MS.gene059101:CDS
CTTATGTTTAACATGCAAAC+AGG 0.379062 1.2:+10894363 None:intergenic
AAATACGATGATTCCATGTA+TGG 0.380419 1.2:-10894685 MS.gene059101:CDS
AGTGGACTTGTTTAGTTGTT+GGG 0.389103 1.2:+10894740 None:intergenic
TATGATGGATTGTATCGAAC+TGG 0.389997 1.2:+10894499 None:intergenic
AAAGGTGGAGGGTGATGGAC+AGG 0.392292 1.2:+10894532 None:intergenic
TTGTTAACTGCGTTTATCAT+TGG 0.394286 1.2:-10894468 MS.gene059101:CDS
GAGAAGATGATTATTTCTTC+AGG 0.395114 1.2:-10894592 MS.gene059101:CDS
TGATAAACGCAGTTAACAAC+CGG 0.421312 1.2:+10894472 None:intergenic
TGTTTGCATGTTAAACATAA+GGG 0.424384 1.2:-10894361 MS.gene059101:CDS
AAGTGGACTTGTTTAGTTGT+TGG 0.433206 1.2:+10894739 None:intergenic
AAGTCAAAGCAGATGATGTT+TGG 0.437710 1.2:+10894418 None:intergenic
CGGTCTACGGATTGATTAGC+TGG 0.445840 1.2:+10894850 None:intergenic
CAAGTCTTTGGAGGAAAGGT+TGG 0.455199 1.2:-10894191 MS.gene059101:CDS
ATTTCCAACTGGGTCGGACT+AGG 0.460982 1.2:+10894307 None:intergenic
TCGGTCCTCGCCACCGTCGC+AGG 0.468773 1.2:+10894907 None:intergenic
GCAGGAGAGAAGAGTGATGT+AGG 0.469702 1.2:+10894925 None:intergenic
TCATAATCCAGATTTCCAAC+TGG 0.477934 1.2:+10894296 None:intergenic
ATATGATTCGACTCGGTCTA+CGG 0.477983 1.2:+10894837 None:intergenic
ATGCAACAAGTCCACGGAAC+TGG 0.481178 1.2:+10894239 None:intergenic
GGTGGCGAGGACCGAGGAGT+TGG 0.482604 1.2:-10894899 MS.gene059101:CDS
AGGAAAGGTTGGACAACTGC+TGG 0.494743 1.2:-10894180 MS.gene059101:CDS
CGGATTGATTAGCTGGAAAG+AGG 0.525041 1.2:+10894857 None:intergenic
GTAGACCGAGTCGAATCATA+TGG 0.525200 1.2:-10894835 MS.gene059101:CDS
TCTCTCCTGCGACGGTGGCG+AGG 0.528113 1.2:-10894912 MS.gene059101:CDS
TTAACAACCGGGGTATATGA+TGG 0.531903 1.2:+10894484 None:intergenic
ACTCTTCTCTCCTGCGACGG+TGG 0.534629 1.2:-10894917 MS.gene059101:CDS
CTGGCTTTATATGAAGATCA+AGG 0.535518 1.2:-10894161 MS.gene059101:CDS
CGATCAAGTCTTTGGAGGAA+AGG 0.536754 1.2:-10894195 MS.gene059101:CDS
CATAATCCAGATTTCCAACT+GGG 0.537214 1.2:+10894297 None:intergenic
ACGATCTAAGCACTAAATCA+TGG 0.541598 1.2:-10894558 MS.gene059101:CDS
GGTTAAAAGGTGGAGGGTGA+TGG 0.541875 1.2:+10894527 None:intergenic
GAGTCACAAAATGAGGGTGC+AGG 0.546607 1.2:+10894709 None:intergenic
CAGGAGAGAAGAGTGATGTA+GGG 0.550066 1.2:+10894926 None:intergenic
GCAAACAGGGAGCTTTGAGT+TGG 0.555369 1.2:+10894377 None:intergenic
GTCGATGCGTTCCAACTCCT+CGG 0.558741 1.2:+10894888 None:intergenic
GAGAGAAGAGTGATGTAGGG+AGG 0.559362 1.2:+10894929 None:intergenic
ATCACTCTTCTCTCCTGCGA+CGG 0.566825 1.2:-10894920 MS.gene059101:CDS
GATGGCGATCAAGTCTTTGG+AGG 0.568823 1.2:-10894200 MS.gene059101:CDS
GTATTTAGAGTCACAAAATG+AGG 0.569672 1.2:+10894702 None:intergenic
TCATCCTAGTCCGACCCAGT+TGG 0.573989 1.2:-10894311 MS.gene059101:CDS
GATACTTCAAAACATAAGCA+AGG 0.575880 1.2:+10894335 None:intergenic
GATTGTATCGAACTGGGATG+CGG 0.586322 1.2:+10894506 None:intergenic
GGGATGCGGTTAAAAGGTGG+AGG 0.586358 1.2:+10894520 None:intergenic
GAATCATATGGCAATTGCAA+TGG 0.596106 1.2:-10894823 MS.gene059101:CDS
AGGGTGCAGGAGGTATAAAG+TGG 0.598291 1.2:+10894722 None:intergenic
GGATTGATTAGCTGGAAAGA+GGG 0.601844 1.2:+10894858 None:intergenic
AAGGTGGAGGGTGATGGACA+GGG 0.604225 1.2:+10894533 None:intergenic
ATCCAGATTTCCAACTGGGT+CGG 0.606074 1.2:+10894301 None:intergenic
ACTGGGATGCGGTTAAAAGG+TGG 0.613040 1.2:+10894517 None:intergenic
AGGTGGAGGGTGATGGACAG+GGG 0.617953 1.2:+10894534 None:intergenic
ATACTTCAAAACATAAGCAA+GGG 0.623300 1.2:+10894336 None:intergenic
TGCGACGGTGGCGAGGACCG+AGG 0.624717 1.2:-10894905 MS.gene059101:CDS
TCACAAAATGAGGGTGCAGG+AGG 0.625154 1.2:+10894712 None:intergenic
TCACGTATGCAACAAGTCCA+CGG 0.629328 1.2:+10894233 None:intergenic
TGGAGCAGTATGCAAATCGA+CGG 0.633685 1.2:+10894438 None:intergenic
AATTGCCATATGATTCGACT+CGG 0.634347 1.2:+10894830 None:intergenic
TTATGTTTAACATGCAAACA+GGG 0.637814 1.2:+10894364 None:intergenic
AAAGGCACAGAAACCATACA+TGG 0.639071 1.2:+10894672 None:intergenic
TATTTAGAGTCACAAAATGA+GGG 0.639125 1.2:+10894703 None:intergenic
ACAACATTGGACCAGTTCCG+TGG 0.656417 1.2:-10894250 MS.gene059101:CDS
GATAAACGCAGTTAACAACC+GGG 0.662346 1.2:+10894473 None:intergenic
TGGATTATGATCAAAGCCAG+TGG 0.672827 1.2:-10894283 MS.gene059101:CDS
GGATGCGGTTAAAAGGTGGA+GGG 0.677010 1.2:+10894521 None:intergenic
ATACAATCCATCATATACCC+CGG 0.677642 1.2:-10894491 MS.gene059101:CDS
ATGATGGATTGTATCGAACT+GGG 0.683119 1.2:+10894500 None:intergenic
ATAAACGCAGTTAACAACCG+GGG 0.757950 1.2:+10894474 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GATTATTTTAGATGTTTATG+GGG - chr1.2:10894917-10894936 MS.gene059101:CDS 20.0%
!!! GGATTATTTTAGATGTTTAT+GGG - chr1.2:10894916-10894935 MS.gene059101:CDS 20.0%
!!! TCTTCTTAAAAGCTTTTTAT+AGG - chr1.2:10894226-10894245 MS.gene059101:CDS 20.0%
!!! TGGATTATTTTAGATGTTTA+TGG - chr1.2:10894915-10894934 MS.gene059101:CDS 20.0%
! ATACTTCAAAACATAAGCAA+GGG + chr1.2:10894688-10894707 None:intergenic 25.0%
! TGTTTGCATGTTAAACATAA+GGG - chr1.2:10894660-10894679 MS.gene059101:CDS 25.0%
! TTATGTTTAACATGCAAACA+GGG + chr1.2:10894660-10894679 None:intergenic 25.0%
!! CGAATTTCAAACTTATGTTT+TGG - chr1.2:10894895-10894914 MS.gene059101:CDS 25.0%
!! TATTTAGAGTCACAAAATGA+GGG + chr1.2:10894321-10894340 None:intergenic 25.0%
!! TTTTATAGGAATTCAACTCT+TGG - chr1.2:10894240-10894259 MS.gene059101:CDS 25.0%
AAATACGATGATTCCATGTA+TGG - chr1.2:10894336-10894355 MS.gene059101:CDS 30.0%
CTGTTTGCATGTTAAACATA+AGG - chr1.2:10894659-10894678 MS.gene059101:CDS 30.0%
CTTATGTTTAACATGCAAAC+AGG + chr1.2:10894661-10894680 None:intergenic 30.0%
GATACTTCAAAACATAAGCA+AGG + chr1.2:10894689-10894708 None:intergenic 30.0%
TTGTTAACTGCGTTTATCAT+TGG - chr1.2:10894553-10894572 MS.gene059101:CDS 30.0%
! GAGAAGATGATTATTTCTTC+AGG - chr1.2:10894429-10894448 MS.gene059101:CDS 30.0%
! GTATTTAGAGTCACAAAATG+AGG + chr1.2:10894322-10894341 None:intergenic 30.0%
AAGTCAAAGCAGATGATGTT+TGG + chr1.2:10894606-10894625 None:intergenic 35.0%
AATGTTACAGTCGTCGTTAA+AGG + chr1.2:10894370-10894389 None:intergenic 35.0%
AATTGCCATATGATTCGACT+CGG + chr1.2:10894194-10894213 None:intergenic 35.0%
ACGATCTAAGCACTAAATCA+TGG - chr1.2:10894463-10894482 MS.gene059101:CDS 35.0%
ATACAATCCATCATATACCC+CGG - chr1.2:10894530-10894549 MS.gene059101:CDS 35.0%
CATAATCCAGATTTCCAACT+GGG + chr1.2:10894727-10894746 None:intergenic 35.0%
GAATCATATGGCAATTGCAA+TGG - chr1.2:10894198-10894217 MS.gene059101:CDS 35.0%
TCATAATCCAGATTTCCAAC+TGG + chr1.2:10894728-10894747 None:intergenic 35.0%
TGATAAACGCAGTTAACAAC+CGG + chr1.2:10894552-10894571 None:intergenic 35.0%
! AAGTGGACTTGTTTAGTTGT+TGG + chr1.2:10894285-10894304 None:intergenic 35.0%
! AGTGGACTTGTTTAGTTGTT+GGG + chr1.2:10894284-10894303 None:intergenic 35.0%
! CTTGTTGCATACGTGATTTT+TGG - chr1.2:10894795-10894814 MS.gene059101:CDS 35.0%
! TGGACCAAAAAGTACAACAT+TGG - chr1.2:10894758-10894777 MS.gene059101:CDS 35.0%
! TGGTCCAATGTTGTACTTTT+TGG + chr1.2:10894765-10894784 None:intergenic 35.0%
!! ATACGTGATTTTTGGAAGGA+TGG - chr1.2:10894803-10894822 MS.gene059101:CDS 35.0%
!! ATGATGGATTGTATCGAACT+GGG + chr1.2:10894524-10894543 None:intergenic 35.0%
!! CTGGCTTTATATGAAGATCA+AGG - chr1.2:10894860-10894879 MS.gene059101:CDS 35.0%
!! TATGATGGATTGTATCGAAC+TGG + chr1.2:10894525-10894544 None:intergenic 35.0%
!! TTGCATACGTGATTTTTGGA+AGG - chr1.2:10894799-10894818 MS.gene059101:CDS 35.0%
ATAAACGCAGTTAACAACCG+GGG + chr1.2:10894550-10894569 None:intergenic 40.0%
CTCTTGGTCACTTGATTCTA+TGG - chr1.2:10894256-10894275 MS.gene059101:CDS 40.0%
GATAAACGCAGTTAACAACC+GGG + chr1.2:10894551-10894570 None:intergenic 40.0%
TGGATTATGATCAAAGCCAG+TGG - chr1.2:10894738-10894757 MS.gene059101:CDS 40.0%
TTAACAACCGGGGTATATGA+TGG + chr1.2:10894540-10894559 None:intergenic 40.0%
! AAAGGCACAGAAACCATACA+TGG + chr1.2:10894352-10894371 None:intergenic 40.0%
! GGATTGATTAGCTGGAAAGA+GGG + chr1.2:10894166-10894185 None:intergenic 40.0%
!! ATATGATTCGACTCGGTCTA+CGG + chr1.2:10894187-10894206 None:intergenic 40.0%
!! TGTTGTACTTTTTGGTCCAC+TGG + chr1.2:10894757-10894776 None:intergenic 40.0%
AAGGATGGCGATCAAGTCTT+TGG - chr1.2:10894818-10894837 MS.gene059101:CDS 45.0%
ATCCAGATTTCCAACTGGGT+CGG + chr1.2:10894723-10894742 None:intergenic 45.0%
CAGGAGAGAAGAGTGATGTA+GGG + chr1.2:10894098-10894117 None:intergenic 45.0%
GATTGTATCGAACTGGGATG+CGG + chr1.2:10894518-10894537 None:intergenic 45.0%
GTAGACCGAGTCGAATCATA+TGG - chr1.2:10894186-10894205 MS.gene059101:CDS 45.0%
TCACGTATGCAACAAGTCCA+CGG + chr1.2:10894791-10894810 None:intergenic 45.0%
TGGAGCAGTATGCAAATCGA+CGG + chr1.2:10894586-10894605 None:intergenic 45.0%
! CAAGTCTTTGGAGGAAAGGT+TGG - chr1.2:10894830-10894849 MS.gene059101:CDS 45.0%
! CGATCAAGTCTTTGGAGGAA+AGG - chr1.2:10894826-10894845 MS.gene059101:CDS 45.0%
! CGGATTGATTAGCTGGAAAG+AGG + chr1.2:10894167-10894186 None:intergenic 45.0%
ACAACATTGGACCAGTTCCG+TGG - chr1.2:10894771-10894790 MS.gene059101:CDS 50.0%
ACTGGGATGCGGTTAAAAGG+TGG + chr1.2:10894507-10894526 None:intergenic 50.0%
AGGAAAGGTTGGACAACTGC+TGG - chr1.2:10894841-10894860 MS.gene059101:CDS 50.0%
ATCACTCTTCTCTCCTGCGA+CGG - chr1.2:10894101-10894120 MS.gene059101:CDS 50.0%
ATGCAACAAGTCCACGGAAC+TGG + chr1.2:10894785-10894804 None:intergenic 50.0%
ATTTCCAACTGGGTCGGACT+AGG + chr1.2:10894717-10894736 None:intergenic 50.0%
CGAACTGGGATGCGGTTAAA+AGG + chr1.2:10894510-10894529 None:intergenic 50.0%
GAGAGAAGAGTGATGTAGGG+AGG + chr1.2:10894095-10894114 None:intergenic 50.0%
GATGGCGATCAAGTCTTTGG+AGG - chr1.2:10894821-10894840 MS.gene059101:CDS 50.0%
GCAGGAGAGAAGAGTGATGT+AGG + chr1.2:10894099-10894118 None:intergenic 50.0%
GGATGCGGTTAAAAGGTGGA+GGG + chr1.2:10894503-10894522 None:intergenic 50.0%
GGTTAAAAGGTGGAGGGTGA+TGG + chr1.2:10894497-10894516 None:intergenic 50.0%
! AGGGTGCAGGAGGTATAAAG+TGG + chr1.2:10894302-10894321 None:intergenic 50.0%
! CGGTCTACGGATTGATTAGC+TGG + chr1.2:10894174-10894193 None:intergenic 50.0%
! GAGTCACAAAATGAGGGTGC+AGG + chr1.2:10894315-10894334 None:intergenic 50.0%
! TCACAAAATGAGGGTGCAGG+AGG + chr1.2:10894312-10894331 None:intergenic 50.0%
!! GCAAACAGGGAGCTTTGAGT+TGG + chr1.2:10894647-10894666 None:intergenic 50.0%
GGGATGCGGTTAAAAGGTGG+AGG + chr1.2:10894504-10894523 None:intergenic 55.0%
GTCCGACCCAGTTGGAAATC+TGG - chr1.2:10894718-10894737 MS.gene059101:CDS 55.0%
GTCGATGCGTTCCAACTCCT+CGG + chr1.2:10894136-10894155 None:intergenic 55.0%
TCATCCTAGTCCGACCCAGT+TGG - chr1.2:10894710-10894729 MS.gene059101:CDS 55.0%
!! AAAGGTGGAGGGTGATGGAC+AGG + chr1.2:10894492-10894511 None:intergenic 55.0%
!! AAGGTGGAGGGTGATGGACA+GGG + chr1.2:10894491-10894510 None:intergenic 55.0%
ACTCTTCTCTCCTGCGACGG+TGG - chr1.2:10894104-10894123 MS.gene059101:CDS 60.0%
!! AGGTGGAGGGTGATGGACAG+GGG + chr1.2:10894490-10894509 None:intergenic 60.0%
GGTGGCGAGGACCGAGGAGT+TGG - chr1.2:10894122-10894141 MS.gene059101:CDS 70.0%
TCTCTCCTGCGACGGTGGCG+AGG - chr1.2:10894109-10894128 MS.gene059101:CDS 70.0%
TCGGTCCTCGCCACCGTCGC+AGG + chr1.2:10894117-10894136 None:intergenic 75.0%
TGCGACGGTGGCGAGGACCG+AGG - chr1.2:10894116-10894135 MS.gene059101:CDS 75.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 10894081 10894962 10894081 ID=MS.gene059101
chr1.2 mRNA 10894081 10894962 10894081 ID=MS.gene059101.t1;Parent=MS.gene059101
chr1.2 exon 10894081 10894962 10894081 ID=MS.gene059101.t1.exon1;Parent=MS.gene059101.t1
chr1.2 CDS 10894081 10894962 10894081 ID=cds.MS.gene059101.t1;Parent=MS.gene059101.t1
Gene Sequence

>MS.gene059101

ATGGATTCAAACCTCCCTACATCACTCTTCTCTCCTGCGACGGTGGCGAGGACCGAGGAGTTGGAACGCATCGACTTCTGCTCCCTCTTTCCAGCTAATCAATCCGTAGACCGAGTCGAATCATATGGCAATTGCAATGGTGTTTTCTTCTTAAAAGCTTTTTATAGGAATTCAACTCTTGGTCACTTGATTCTATGGAACCCAACAACTAAACAAGTCCACTTTATACCTCCTGCACCCTCATTTTGTGACTCTAAATACGATGATTCCATGTATGGTTTCTGTGCCTTTAACGACGACTGTAACATTAATTTCAAAGTTGTTAGACTTCAACAATGTGCACATGTTGAGAAGATGATTATTTCTTCAGGCGCAGAAGTGTACGATCTAAGCACTAAATCATGGACCCCTGTCCATCACCCTCCACCTTTTAACCGCATCCCAGTTCGATACAATCCATCATATACCCCGGTTGTTAACTGCGTTTATCATTGGATTGTTGCCGTCGATTTGCATACTGCTCCAAACATCATCTGCTTTGACTTTCACAACAATCAGTTTCACCAACTCAAAGCTCCCTGTTTGCATGTTAAACATAAGGGCTCCCTTGCTTATGTTTTGAAGTATCATCATCCTAGTCCGACCCAGTTGGAAATCTGGATTATGATCAAAGCCAGTGGACCAAAAAGTACAACATTGGACCAGTTCCGTGGACTTGTTGCATACGTGATTTTTGGAAGGATGGCGATCAAGTCTTTGGAGGAAAGGTTGGACAACTGCTGGCTTTATATGAAGATCAAGGCAACTCTCTTAGCGAATTTCAAACTTATGTTTTGGATTATTTTAGATGTTTATGGGGTTCTGAGTATTTGCAGACCATAA
Protein sequence

>MS.gene059101.t1

MDSNLPTSLFSPATVARTEELERIDFCSLFPANQSVDRVESYGNCNGVFFLKAFYRNSTLGHLILWNPTTKQVHFIPPAPSFCDSKYDDSMYGFCAFNDDCNINFKVVRLQQCAHVEKMIISSGAEVYDLSTKSWTPVHHPPPFNRIPVRYNPSYTPVVNCVYHWIVAVDLHTAPNIICFDFHNNQFHQLKAPCLHVKHKGSLAYVLKYHHPSPTQLEIWIMIKASGPKSTTLDQFRGLVAYVIFGRMAIKSLEERLDNCWLYMKIKATLLANFKLMFWIILDVYGVLSICRP