AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054484


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054484.t1 MTR_4g060433 60.000 115 46 0 15 129 1 115 3.89e-45 146
MS.gene054484.t1 MTR_8g104590 63.366 101 34 1 32 132 7 104 1.74e-44 144
MS.gene054484.t1 MTR_1g105785 53.125 128 60 0 4 131 246 373 1.89e-43 150
MS.gene054484.t1 MTR_4g032565 49.573 117 59 0 15 131 1 117 1.58e-38 132
MS.gene054484.t1 MTR_7g051400 47.656 128 67 0 4 131 224 351 8.41e-38 134
MS.gene054484.t1 MTR_4g032585 48.718 117 60 0 15 131 1 117 9.52e-38 130
MS.gene054484.t1 MTR_7g110100 45.312 128 70 0 4 131 246 373 2.31e-36 130
MS.gene054484.t1 MTR_3g068135 54.455 101 37 1 1 101 39 130 3.78e-32 113
MS.gene054484.t1 MTR_0048s0080 41.221 131 65 2 1 131 109 227 5.48e-26 100
MS.gene054484.t1 MTR_1g492690 42.742 124 61 1 12 135 57 170 2.41e-24 96.3
MS.gene054484.t1 MTR_3g046650 40.000 100 60 0 1 100 78 177 1.76e-21 86.7
MS.gene054484.t1 MTR_1g115520 48.837 86 14 1 45 130 5 60 3.34e-19 78.6
MS.gene054484.t1 MTR_5g030110 93.182 44 3 0 1 44 243 286 6.48e-19 81.3
MS.gene054484.t1 MTR_2g007410 93.182 44 3 0 1 44 243 286 6.48e-19 81.3
MS.gene054484.t1 MTR_7g024060 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_6g087820 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_5g081190 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_5g091480 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_5g056290 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_3g031190 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_2g005490 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_2g010570 93.182 44 3 0 1 44 243 286 6.62e-19 81.3
MS.gene054484.t1 MTR_8g446640 93.182 44 3 0 1 44 224 267 6.72e-19 80.9
MS.gene054484.t1 MTR_1g011490 93.182 44 3 0 1 44 234 277 6.80e-19 80.9
MS.gene054484.t1 MTR_2g010270 93.182 44 3 0 1 44 233 276 7.16e-19 80.9
MS.gene054484.t1 MTR_8g005940 90.909 44 4 0 1 44 210 253 2.61e-18 79.0
MS.gene054484.t1 MTR_4g058660 88.636 44 5 0 1 44 243 286 1.95e-17 77.0
MS.gene054484.t1 MTR_3g036220 88.636 44 5 0 1 44 167 210 2.50e-17 75.9
MS.gene054484.t1 MTR_7g451880 88.636 44 5 0 1 44 244 287 2.55e-17 76.6
MS.gene054484.t1 MTR_3g452170 37.234 94 59 0 4 97 246 339 6.13e-17 76.3
MS.gene054484.t1 MTR_7g074180 79.545 44 9 0 1 44 243 286 1.87e-14 68.9
MS.gene054484.t1 MTR_2g048560 30.709 127 86 2 9 133 250 376 6.22e-13 65.1
MS.gene054484.t1 MTR_4g011200 79.412 34 7 0 43 76 49 82 6.75e-13 62.0
MS.gene054484.t1 MTR_5g057125 37.398 123 63 2 1 123 40 148 6.81e-13 64.3
MS.gene054484.t1 MTR_4g036240 32.500 120 77 3 22 138 263 381 1.89e-12 63.5
MS.gene054484.t1 MTR_4g036240 32.500 120 77 3 22 138 120 238 1.93e-12 63.5
MS.gene054484.t1 MTR_3g056270 32.231 121 78 3 22 139 422 541 1.98e-12 63.5
MS.gene054484.t1 MTR_4g036240 32.231 121 78 3 22 139 183 302 2.15e-12 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 32 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCCAGATGACCCAGTTTAT+TGG 0.246751 7.4:-56399780 MS.gene054484:CDS
GCACATTACGCCCAATAAAC+TGG 0.284869 7.4:+56399769 None:intergenic
ACTATATGTGAGATCGAAAC+TGG 0.342217 7.4:-56400050 MS.gene054484:CDS
GCCAGATGACCCAGTTTATT+GGG 0.344689 7.4:-56399779 MS.gene054484:CDS
TGAGATCTGGCTGACACTTC+GGG 0.362299 7.4:+56400277 None:intergenic
ATGCACCCAGTGTGCTTCAT+TGG 0.403027 7.4:-56400006 MS.gene054484:CDS
GCCCAATAAACTGGGTCATC+TGG 0.406664 7.4:+56399778 None:intergenic
TTGAGATCTGGCTGACACTT+CGG 0.420436 7.4:+56400276 None:intergenic
TCATGCTTTCAATTGTCATT+CGG 0.442768 7.4:+56400210 None:intergenic
CGGAGACGTTCGTTGAGATC+TGG 0.476551 7.4:+56400264 None:intergenic
TTTACAGATCTGTCAAGGTT+CGG 0.485784 7.4:-56400081 MS.gene054484:intron
GCTTTCAATTGTCATTCGGT+TGG 0.496345 7.4:+56400214 None:intergenic
CACATTACGCCCAATAAACT+GGG 0.508234 7.4:+56399770 None:intergenic
AGATCGAAACTGGGGTTGAT+TGG 0.522728 7.4:-56400040 MS.gene054484:CDS
AGTTTCGATCTCACATATAG+TGG 0.527956 7.4:+56400052 None:intergenic
CGCAAGTGTAAAACTTGCAA+GGG 0.557114 7.4:-56399954 MS.gene054484:CDS
TCGCAAGTGTAAAACTTGCA+AGG 0.564821 7.4:-56399955 MS.gene054484:CDS
CTATATGTGAGATCGAAACT+GGG 0.565040 7.4:-56400049 MS.gene054484:CDS
CGGTGGCCAATGAAGCACAC+TGG 0.591152 7.4:+56400000 None:intergenic
GGTGGCCAATGAAGCACACT+GGG 0.596461 7.4:+56400001 None:intergenic
CTTGCAAGGGTGCAGTCCCA+AGG 0.605354 7.4:-56399941 MS.gene054484:intron
GTCATCGTGATGGACGACAC+AGG 0.607107 7.4:-56399828 MS.gene054484:CDS
CAAGATGCATGTCATCGTGA+TGG 0.610664 7.4:-56399838 MS.gene054484:CDS
AAATATTTACAGATCTGTCA+AGG 0.616151 7.4:-56400086 MS.gene054484:intron
TCATTGGCCACCGTTGACAA+CGG 0.631339 7.4:-56399990 MS.gene054484:CDS
TCATCGTGATGGACGACACA+GGG 0.632753 7.4:-56399827 MS.gene054484:CDS
ACAGAGCACTCCGTTGTCAA+CGG 0.634527 7.4:+56399980 None:intergenic
GAGCACTCCGTTGTCAACGG+TGG 0.654474 7.4:+56399983 None:intergenic
CAAGTCATCTGATAAAGACG+CGG 0.674931 7.4:+56400244 None:intergenic
CTTGATCAATGAATGTGATG+AGG 0.697804 7.4:-56399742 MS.gene054484:CDS
TATATGTGAGATCGAAACTG+GGG 0.729438 7.4:-56400048 MS.gene054484:CDS
AAGCATGATTGAGTCAACTG+AGG 0.787148 7.4:-56400195 MS.gene054484:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATAATTGTATAAATGTG+TGG - chr7.4:56400230-56400249 MS.gene054484:CDS 15.0%
!!! GAAATTTTTAGATGTATTTT+TGG - chr7.4:56399782-56399801 MS.gene054484:CDS 15.0%
!! GATATAGTTGATTATTTGAT+AGG - chr7.4:56400075-56400094 MS.gene054484:CDS 20.0%
!!! ACATTTTATTATTTTTGAGC+AGG - chr7.4:56400293-56400312 MS.gene054484:CDS 20.0%
!!! ATTTTTGTTTTTATAATGCG+TGG - chr7.4:56400043-56400062 MS.gene054484:CDS 20.0%
!!! CATTTTATTATTTTTGAGCA+GGG - chr7.4:56400294-56400313 MS.gene054484:CDS 20.0%
!!! GAATAAAATTTGTTTACCTT+GGG + chr7.4:56400016-56400035 None:intergenic 20.0%
!!! GTTCAATATTTTTATGCAAA+AGG - chr7.4:56399824-56399843 MS.gene054484:CDS 20.0%
! AAATATTTACAGATCTGTCA+AGG - chr7.4:56399852-56399871 MS.gene054484:intron 25.0%
! ATCAAAAAGAACAAAAGTAG+TGG + chr7.4:56400138-56400157 None:intergenic 25.0%
!! CGAATAAAATTTGTTTACCT+TGG + chr7.4:56400017-56400036 None:intergenic 25.0%
AAATGTGTGGTCTATATATG+AGG - chr7.4:56400243-56400262 MS.gene054484:CDS 30.0%
TCATGCTTTCAATTGTCATT+CGG + chr7.4:56399731-56399750 None:intergenic 30.0%
ACTATATGTGAGATCGAAAC+TGG - chr7.4:56399888-56399907 MS.gene054484:intron 35.0%
AGTTTCGATCTCACATATAG+TGG + chr7.4:56399889-56399908 None:intergenic 35.0%
CTATATGTGAGATCGAAACT+GGG - chr7.4:56399889-56399908 MS.gene054484:intron 35.0%
CTTGATCAATGAATGTGATG+AGG - chr7.4:56400196-56400215 MS.gene054484:CDS 35.0%
TATATGTGAGATCGAAACTG+GGG - chr7.4:56399890-56399909 MS.gene054484:intron 35.0%
TTTACAGATCTGTCAAGGTT+CGG - chr7.4:56399857-56399876 MS.gene054484:intron 35.0%
AAGCATGATTGAGTCAACTG+AGG - chr7.4:56399743-56399762 MS.gene054484:CDS 40.0%
CAAGTCATCTGATAAAGACG+CGG + chr7.4:56399697-56399716 None:intergenic 40.0%
CACATTACGCCCAATAAACT+GGG + chr7.4:56400171-56400190 None:intergenic 40.0%
CGCAAGTGTAAAACTTGCAA+GGG - chr7.4:56399984-56400003 MS.gene054484:CDS 40.0%
GCTTTCAATTGTCATTCGGT+TGG + chr7.4:56399727-56399746 None:intergenic 40.0%
TCGCAAGTGTAAAACTTGCA+AGG - chr7.4:56399983-56400002 MS.gene054484:CDS 40.0%
CAAGATGCATGTCATCGTGA+TGG - chr7.4:56400100-56400119 MS.gene054484:intron 45.0%
GCACATTACGCCCAATAAAC+TGG + chr7.4:56400172-56400191 None:intergenic 45.0%
GCCAGATGACCCAGTTTATT+GGG - chr7.4:56400159-56400178 MS.gene054484:intron 45.0%
TTGAGATCTGGCTGACACTT+CGG + chr7.4:56399665-56399684 None:intergenic 45.0%
! AGATCGAAACTGGGGTTGAT+TGG - chr7.4:56399898-56399917 MS.gene054484:intron 45.0%
ATGCACCCAGTGTGCTTCAT+TGG - chr7.4:56399932-56399951 MS.gene054484:intron 50.0%
CGCCAGATGACCCAGTTTAT+TGG - chr7.4:56400158-56400177 MS.gene054484:intron 50.0%
GCCCAATAAACTGGGTCATC+TGG + chr7.4:56400163-56400182 None:intergenic 50.0%
TCATTGGCCACCGTTGACAA+CGG - chr7.4:56399948-56399967 MS.gene054484:CDS 50.0%
TGAGATCTGGCTGACACTTC+GGG + chr7.4:56399664-56399683 None:intergenic 50.0%
! ACAGAGCACTCCGTTGTCAA+CGG + chr7.4:56399961-56399980 None:intergenic 50.0%
!! TCATCGTGATGGACGACACA+GGG - chr7.4:56400111-56400130 MS.gene054484:intron 50.0%
CGGAGACGTTCGTTGAGATC+TGG + chr7.4:56399677-56399696 None:intergenic 55.0%
GGTGGCCAATGAAGCACACT+GGG + chr7.4:56399940-56399959 None:intergenic 55.0%
!! GTCATCGTGATGGACGACAC+AGG - chr7.4:56400110-56400129 MS.gene054484:intron 55.0%
CGGTGGCCAATGAAGCACAC+TGG + chr7.4:56399941-56399960 None:intergenic 60.0%
GAGCACTCCGTTGTCAACGG+TGG + chr7.4:56399958-56399977 None:intergenic 60.0%
! CTTGCAAGGGTGCAGTCCCA+AGG - chr7.4:56399997-56400016 MS.gene054484:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 56399636 56400324 56399636 ID=MS.gene054484
chr7.4 mRNA 56399636 56400324 56399636 ID=MS.gene054484.t1;Parent=MS.gene054484
chr7.4 exon 56400196 56400324 56400196 ID=MS.gene054484.t1.exon1;Parent=MS.gene054484.t1
chr7.4 CDS 56400196 56400324 56400196 ID=cds.MS.gene054484.t1;Parent=MS.gene054484.t1
chr7.4 exon 56399942 56400096 56399942 ID=MS.gene054484.t1.exon2;Parent=MS.gene054484.t1
chr7.4 CDS 56399942 56400096 56399942 ID=cds.MS.gene054484.t1;Parent=MS.gene054484.t1
chr7.4 exon 56399735 56399863 56399735 ID=MS.gene054484.t1.exon3;Parent=MS.gene054484.t1
chr7.4 CDS 56399735 56399863 56399735 ID=cds.MS.gene054484.t1;Parent=MS.gene054484.t1
chr7.4 exon 56399636 56399645 56399636 ID=MS.gene054484.t1.exon4;Parent=MS.gene054484.t1
chr7.4 CDS 56399636 56399645 56399636 ID=cds.MS.gene054484.t1;Parent=MS.gene054484.t1
Gene Sequence

>MS.gene054484

ATGAAAAATGCATCAATACAGTTAACCCGAAGTGTCAGCCAGATCTCAACGAACGTCTCCGCGTCTTTATCAGATGACTTGCTCAACACCAACCGAATGACAATTGAAAGCATGATTGAGTCAACTGAGGTGACTATCTGTTTAATGAAATTTTTAGATGTATTTTTGGATTCATCTTTGTTATTTTTGTTCAATATTTTTATGCAAAAGGCTACGAAATATTTACAGATCTGTCAAGGTTCGGTGCTTGCCACTATATGTGAGATCGAAACTGGGGTTGATTGGTACTTTCGATCATGCACCCAGTGTGCTTCATTGGCCACCGTTGACAACGGAGTGCTCTGTTGTCGCAAGTGTAAAACTTGCAAGGGTGCAGTCCCAAGGTAAACAAATTTTATTCGAATATAATTTTTGTTTTTATAATGCGTGGAATTGTATTGATATAGTTGATTATTTGATAGGTTCAAGATGCATGTCATCGTGATGGACGACACAGGGTCCACTACTTTTGTTCTTTTTGATCGCCAGATGACCCAGTTTATTGGGCGTAATGTGCAAGACTTGATCAATGAATGTGATGAGGTAGTCGTGTATTATATAATTGTATAAATGTGTGGTCTATATATGAGGTATATCTATCGACGAAAATTTGTACTAACATTTTATTATTTTTGAGCAGGGAGCAGTAG

Protein sequence

>MS.gene054484.t1

MKNASIQLTRSVSQISTNVSASLSDDLLNTNRMTIESMIESTEICQGSVLATICEIETGVDWYFRSCTQCASLATVDNGVLCCRKCKTCKGAVPRFKMHVIVMDDTGSTTFVLFDRQMTQFIGRNVQDLINECDEVVVEQ