AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene87262

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87262.t1 MTR_2g082510 94.697 132 7 0 1 132 1 132 6.50e-86 246
MS.gene87262.t1 MTR_2g082220 94.697 132 6 1 1 132 1 131 6.88e-85 244
MS.gene87262.t1 MTR_7g108320 85.600 125 14 1 3 127 13 133 3.66e-70 207
MS.gene87262.t1 MTR_7g114060 85.600 125 14 1 3 127 10 130 4.00e-70 207
MS.gene87262.t1 MTR_7g114040 85.600 125 14 1 3 127 10 130 4.00e-70 207
MS.gene87262.t1 MTR_7g093910 79.200 125 22 1 3 127 13 133 1.38e-67 201
MS.gene87262.t1 MTR_2g096610 78.704 108 23 0 14 121 20 127 2.07e-58 177
MS.gene87262.t1 MTR_7g113160 78.378 111 24 0 11 121 21 131 2.15e-58 177
MS.gene87262.t1 MTR_4g063280 77.982 109 24 0 14 122 16 124 3.83e-57 174
MS.gene87262.t1 MTR_4g064005 78.302 106 23 0 16 121 24 129 2.86e-56 172
MS.gene87262.t1 MTR_7g114050 80.508 118 10 3 13 130 18 122 3.80e-56 171
MS.gene87262.t1 MTR_4g071150 77.570 107 24 0 16 122 24 130 4.32e-56 172
MS.gene87262.t1 MTR_4g064967 78.302 106 23 0 16 121 24 129 4.84e-56 172
MS.gene87262.t1 MTR_8g086640 77.570 107 24 0 16 122 24 130 5.16e-56 172
MS.gene87262.t1 MTR_2g096570 77.570 107 24 0 16 122 23 129 5.61e-56 172
MS.gene87262.t1 MTR_4g063410 77.358 106 24 0 16 121 24 129 1.08e-55 171
MS.gene87262.t1 MTR_6g005150 63.303 109 31 2 16 123 26 126 1.01e-40 132
MS.gene87262.t1 MTR_1g011750 64.545 110 37 2 14 122 24 132 2.00e-40 132
MS.gene87262.t1 MTR_1g011850 64.545 110 37 2 14 122 24 132 2.00e-40 132
MS.gene87262.t1 MTR_1g114050 58.462 130 45 4 1 122 1 129 3.53e-39 128
MS.gene87262.t1 MTR_1g071040 64.486 107 36 2 17 122 27 132 1.31e-38 127
MS.gene87262.t1 MTR_4g063300 78.378 74 16 0 37 110 10 83 6.44e-35 117
MS.gene87262.t1 MTR_4g005910 89.091 55 6 0 78 132 3 57 2.00e-29 101
MS.gene87262.t1 MTR_7g010440 90.566 53 5 0 70 122 122 174 6.08e-26 99.0
MS.gene87262.t1 MTR_1g069770 50.685 73 36 0 59 131 32 104 3.20e-20 79.7
MS.gene87262.t1 MTR_4g048490 45.714 105 28 2 16 120 26 101 1.99e-19 77.8
MS.gene87262.t1 MTR_7g027610 44.545 110 35 2 14 122 12 96 3.03e-17 72.0
MS.gene87262.t1 MTR_0653s0030 54.717 53 24 0 47 99 43 95 1.42e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87262.t1 AT1G51060 93.939 132 8 0 1 132 1 132 4.79e-86 247
MS.gene87262.t1 AT4G27230 95.420 131 6 0 1 131 1 131 8.47e-86 246
MS.gene87262.t1 AT4G27230 95.420 131 6 0 1 131 1 131 8.47e-86 246
MS.gene87262.t1 AT5G54640 98.413 126 2 0 1 126 1 126 7.28e-85 244
MS.gene87262.t1 AT3G20670 91.667 132 11 0 1 132 1 132 2.21e-83 240
MS.gene87262.t1 AT1G54690 84.496 129 17 1 2 127 5 133 8.35e-71 209
MS.gene87262.t1 AT1G08880 83.721 129 18 1 2 127 5 133 1.80e-70 208
MS.gene87262.t1 AT5G59870 76.852 108 25 0 15 122 23 130 1.06e-57 176
MS.gene87262.t1 AT5G27670 73.333 120 32 0 11 130 20 139 6.18e-57 174
MS.gene87262.t1 AT5G02560 77.064 109 25 0 14 122 22 130 8.85e-57 174
MS.gene87262.t1 AT5G02560 63.158 133 25 1 14 122 22 154 2.66e-51 160
MS.gene87262.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene87262.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene87262.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene87262.t1 AT2G38810 62.963 108 38 2 14 120 26 132 5.24e-38 125
MS.gene87262.t1 AT1G52740 63.208 106 37 2 18 122 28 132 7.00e-38 125
MS.gene87262.t1 AT3G54560 62.500 104 37 2 18 120 30 132 2.75e-36 121
MS.gene87262.t1 AT3G54560 62.500 104 37 2 18 120 30 132 2.75e-36 121
MS.gene87262.t1 AT4G13570 44.037 109 59 2 7 114 17 124 2.17e-22 85.9
MS.gene87262.t1 AT4G13570 50.000 92 44 2 24 114 28 118 5.18e-22 84.7

Find 41 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGCAACAAGTTGTGAATAT+TGG 0.259002 2.2:+14480550 None:intergenic
TTGGAAGGACCAGCTTTCTT+TGG 0.296401 2.2:+14480527 None:intergenic
GAAGAATTGAGCAAGCTTCT+TGG 0.338262 2.2:-14480605 MS.gene87262:CDS
AGCAACAAGTTGTGAATATT+GGG 0.378901 2.2:+14480551 None:intergenic
AGTACGGCGGCGAGGTAAAC+AGG 0.402491 2.2:+14480939 None:intergenic
GGTGATGTTACCATTGCTAA+TGG 0.441296 2.2:-14480584 MS.gene87262:CDS
TGTGCCAAGGCACATTCAAT+TGG 0.445049 2.2:-14480642 MS.gene87262:CDS
TTCATCTTCAGCAGCACCCT+TGG 0.446246 2.2:+14480508 None:intergenic
ACCTCAAGAAGCAGCAAAGC+TGG 0.455395 2.2:-14481038 MS.gene87262:CDS
AGCTTTGCTGCTTCTTGAGG+TGG 0.455549 2.2:+14481040 None:intergenic
ACCAGCTTTGCTGCTTCTTG+AGG 0.463693 2.2:+14481037 None:intergenic
TCTTAGCAGCACCGGAACCT+AGG 0.493838 2.2:+14481066 None:intergenic
TTGTTGCTTCCAAAGAAAGC+TGG 0.506478 2.2:-14480536 MS.gene87262:CDS
TCAATCTCTTCATCAATGGC+TGG 0.508829 2.2:-14481101 None:intergenic
CTTAGCAGCACCGGAACCTA+GGG 0.516978 2.2:+14481067 None:intergenic
AAAGAAAGCTGGTCCTTCCA+AGG 0.525187 2.2:-14480525 MS.gene87262:CDS
AGAGGCAAAACCCTAGGTTC+CGG 0.534311 2.2:-14481077 MS.gene87262:CDS
ATCGCAAGATTCCTCAAGGC+CGG 0.538535 2.2:-14480993 MS.gene87262:CDS
TCTTCATCAATGGCTGGTAG+AGG 0.543571 2.2:-14481095 None:intergenic
GGAAAATACGCTGAACGTGT+TGG 0.559261 2.2:-14480972 MS.gene87262:CDS
TACGCTGAACGTGTTGGTGC+TGG 0.564093 2.2:-14480966 MS.gene87262:CDS
TCTTCAGCAGCACCCTTGGA+AGG 0.566645 2.2:+14480512 None:intergenic
GAATCTTGCGATTCTTCCGA+CGG 0.571187 2.2:+14481004 None:intergenic
ACAGCCAATTGAATGTGCCT+TGG 0.575552 2.2:+14480638 None:intergenic
AAGAAAGCTGGTCCTTCCAA+GGG 0.587991 2.2:-14480524 MS.gene87262:CDS
GGTGGCTTTCTTAGCAGCAC+CGG 0.590996 2.2:+14481058 None:intergenic
AATCTTGCGATTCTTCCGAC+GGG 0.601933 2.2:+14481005 None:intergenic
GCTGGTAGAGGCAAAACCCT+AGG 0.605630 2.2:-14481083 MS.gene87262:CDS
AAGAATCGCAAGATTCCTCA+AGG 0.619754 2.2:-14480997 MS.gene87262:CDS
GGCACATTCAATTGGCTGTG+AGG 0.627219 2.2:-14480634 MS.gene87262:CDS
GTTGGCTGGAAATGCTGCAA+GGG 0.629600 2.2:-14480684 MS.gene87262:CDS
AGCGGCGAGATATTCGAGTA+CGG 0.641335 2.2:+14480923 None:intergenic
CATAACACCACCATTAGCAA+TGG 0.645676 2.2:+14480574 None:intergenic
ACTCGAATATCTCGCCGCTG+AGG 0.650436 2.2:-14480919 MS.gene87262:intron
GCTGGTCTTCAATTTCCCGT+CGG 0.659854 2.2:-14481020 MS.gene87262:CDS
AGTTGGCTGGAAATGCTGCA+AGG 0.665089 2.2:-14480685 MS.gene87262:CDS
GATGTTACCATTGCTAATGG+TGG 0.667704 2.2:-14480581 MS.gene87262:CDS
AGAAGACAAGAATTGTGCCA+AGG 0.670789 2.2:-14480655 MS.gene87262:CDS
GATATTCGAGTACGGCGGCG+AGG 0.699553 2.2:+14480931 None:intergenic
GGTGATGGAAATTACCTCAG+CGG 0.723800 2.2:+14480905 None:intergenic
GGCGAGATATTCGAGTACGG+CGG 0.753133 2.2:+14480926 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATGAATAATTACTAAAAT+TGG + chr2.2:14480780-14480799 None:intergenic 10.0%
! AATTTGTGATTGTTGTGATT+AGG - chr2.2:14480877-14480896 MS.gene87262:intron 25.0%
! TAGGGTTTCTTAATTCAATT+AGG - chr2.2:14480748-14480767 MS.gene87262:intron 25.0%
!! TGTTGAATTTGAAGTGATTT+GGG - chr2.2:14480834-14480853 MS.gene87262:intron 25.0%
!! TTGTTGAATTTGAAGTGATT+TGG - chr2.2:14480833-14480852 MS.gene87262:intron 25.0%
AAGCAACAAGTTGTGAATAT+TGG + chr2.2:14481044-14481063 None:intergenic 30.0%
AGCAACAAGTTGTGAATATT+GGG + chr2.2:14481043-14481062 None:intergenic 30.0%
! TGATTGTTGTGATTAGGTTT+TGG - chr2.2:14480883-14480902 MS.gene87262:intron 30.0%
ATATTGAAGGTGAAAGAAGG+TGG + chr2.2:14480710-14480729 None:intergenic 35.0%
GAATTAAGAAACCCTAGATC+TGG + chr2.2:14480744-14480763 None:intergenic 35.0%
GGTTATGTGTGTGATATTGA+AGG + chr2.2:14480723-14480742 None:intergenic 35.0%
GTGATATTGAAGGTGAAAGA+AGG + chr2.2:14480713-14480732 None:intergenic 35.0%
!! GAAGTGATTTGGGTTGATTA+GGG - chr2.2:14480844-14480863 MS.gene87262:intron 35.0%
!! TGAAGTGATTTGGGTTGATT+AGG - chr2.2:14480843-14480862 MS.gene87262:intron 35.0%
!!! TTGTGATTAGGTTTTGGAGT+TGG - chr2.2:14480889-14480908 MS.gene87262:intron 35.0%
AAGAATCGCAAGATTCCTCA+AGG - chr2.2:14480594-14480613 MS.gene87262:CDS 40.0%
AGAAGACAAGAATTGTGCCA+AGG - chr2.2:14480936-14480955 MS.gene87262:CDS 40.0%
CACACACATAACCAGATCTA+GGG - chr2.2:14480730-14480749 MS.gene87262:intron 40.0%
CATAACACCACCATTAGCAA+TGG + chr2.2:14481020-14481039 None:intergenic 40.0%
GAAGAATTGAGCAAGCTTCT+TGG - chr2.2:14480986-14481005 MS.gene87262:CDS 40.0%
GATGTTACCATTGCTAATGG+TGG - chr2.2:14481010-14481029 MS.gene87262:CDS 40.0%
GGTGATGTTACCATTGCTAA+TGG - chr2.2:14481007-14481026 MS.gene87262:CDS 40.0%
TCACACACATAACCAGATCT+AGG - chr2.2:14480729-14480748 MS.gene87262:intron 40.0%
! AACACGTTCAGCGTATTTTC+CGG + chr2.2:14480620-14480639 None:intergenic 40.0%
! TTGTTGCTTCCAAAGAAAGC+TGG - chr2.2:14481055-14481074 MS.gene87262:CDS 40.0%
AAAGAAAGCTGGTCCTTCCA+AGG - chr2.2:14481066-14481085 MS.gene87262:CDS 45.0%
AAGAAAGCTGGTCCTTCCAA+GGG - chr2.2:14481067-14481086 MS.gene87262:CDS 45.0%
AAGGTGAAAGAAGGTGGTGA+TGG + chr2.2:14480704-14480723 None:intergenic 45.0%
AATCTTGCGATTCTTCCGAC+GGG + chr2.2:14480589-14480608 None:intergenic 45.0%
ACAGCCAATTGAATGTGCCT+TGG + chr2.2:14480956-14480975 None:intergenic 45.0%
GAATCTTGCGATTCTTCCGA+CGG + chr2.2:14480590-14480609 None:intergenic 45.0%
GGAAAATACGCTGAACGTGT+TGG - chr2.2:14480619-14480638 MS.gene87262:CDS 45.0%
TGTGCCAAGGCACATTCAAT+TGG - chr2.2:14480949-14480968 MS.gene87262:CDS 45.0%
TTGGAAGGACCAGCTTTCTT+TGG + chr2.2:14481067-14481086 None:intergenic 45.0%
!! GGTGATGGAAATTACCTCAG+CGG + chr2.2:14480689-14480708 None:intergenic 45.0%
!!! GATTAGGTTTTGGAGTTGGC+TGG - chr2.2:14480893-14480912 MS.gene87262:intron 45.0%
ACCTCAAGAAGCAGCAAAGC+TGG - chr2.2:14480553-14480572 MS.gene87262:CDS 50.0%
AGAGGCAAAACCCTAGGTTC+CGG - chr2.2:14480514-14480533 MS.gene87262:CDS 50.0%
AGCGGCGAGATATTCGAGTA+CGG + chr2.2:14480671-14480690 None:intergenic 50.0%
AGTTGGCTGGAAATGCTGCA+AGG - chr2.2:14480906-14480925 MS.gene87262:intron 50.0%
ATCGCAAGATTCCTCAAGGC+CGG - chr2.2:14480598-14480617 MS.gene87262:CDS 50.0%
GGCACATTCAATTGGCTGTG+AGG - chr2.2:14480957-14480976 MS.gene87262:CDS 50.0%
GTTGGCTGGAAATGCTGCAA+GGG - chr2.2:14480907-14480926 MS.gene87262:intron 50.0%
TTCATCTTCAGCAGCACCCT+TGG + chr2.2:14481086-14481105 None:intergenic 50.0%
! ACCAGCTTTGCTGCTTCTTG+AGG + chr2.2:14480557-14480576 None:intergenic 50.0%
! AGCTTTGCTGCTTCTTGAGG+TGG + chr2.2:14480554-14480573 None:intergenic 50.0%
!! GCTGGTCTTCAATTTCCCGT+CGG - chr2.2:14480571-14480590 MS.gene87262:CDS 50.0%
ACTCGAATATCTCGCCGCTG+AGG - chr2.2:14480672-14480691 MS.gene87262:CDS 55.0%
GCTGGTAGAGGCAAAACCCT+AGG - chr2.2:14480508-14480527 MS.gene87262:CDS 55.0%
GGCGAGATATTCGAGTACGG+CGG + chr2.2:14480668-14480687 None:intergenic 55.0%
GGTGGCTTTCTTAGCAGCAC+CGG + chr2.2:14480536-14480555 None:intergenic 55.0%
TCTTCAGCAGCACCCTTGGA+AGG + chr2.2:14481082-14481101 None:intergenic 55.0%
! CAGCGTATTTTCCGGCCTTG+AGG + chr2.2:14480612-14480631 None:intergenic 55.0%
! CTTAGCAGCACCGGAACCTA+GGG + chr2.2:14480527-14480546 None:intergenic 55.0%
! TACGCTGAACGTGTTGGTGC+TGG - chr2.2:14480625-14480644 MS.gene87262:CDS 55.0%
! TCTTAGCAGCACCGGAACCT+AGG + chr2.2:14480528-14480547 None:intergenic 55.0%
AGTACGGCGGCGAGGTAAAC+AGG + chr2.2:14480655-14480674 None:intergenic 60.0%
GATATTCGAGTACGGCGGCG+AGG + chr2.2:14480663-14480682 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 14480505 14481108 14480505 ID=MS.gene87262
chr2.2 mRNA 14480505 14481108 14480505 ID=MS.gene87262.t1;Parent=MS.gene87262
chr2.2 exon 14480920 14481108 14480920 ID=MS.gene87262.t1.exon1;Parent=MS.gene87262.t1
chr2.2 CDS 14480920 14481108 14480920 ID=cds.MS.gene87262.t1;Parent=MS.gene87262.t1
chr2.2 exon 14480505 14480714 14480505 ID=MS.gene87262.t1.exon2;Parent=MS.gene87262.t1
chr2.2 CDS 14480505 14480714 14480505 ID=cds.MS.gene87262.t1;Parent=MS.gene87262.t1
Gene Sequence

>MS.gene87262

ATGGCTGGTAGAGGCAAAACCCTAGGTTCCGGTGCTGCTAAGAAAGCCACCTCAAGAAGCAGCAAAGCTGGTCTTCAATTTCCCGTCGGAAGAATCGCAAGATTCCTCAAGGCCGGAAAATACGCTGAACGTGTTGGTGCTGGTGCTCCTGTTTACCTCGCCGCCGTACTCGAATATCTCGCCGCTGAGGTAATTTCCATCACCACCTTCTTTCACCTTCAATATCACACACATAACCAGATCTAGGGTTTCTTAATTCAATTAGGTTTTCTCCAATTTTAGTAATTATTCATAATTTTTGATTAATTTCAACTTAAATTGAATATGTTTGTTGAATTTGAAGTGATTTGGGTTGATTAGGGTTTTAAATTGAATTTGTGATTGTTGTGATTAGGTTTTGGAGTTGGCTGGAAATGCTGCAAGGGACAACAAGAAGACAAGAATTGTGCCAAGGCACATTCAATTGGCTGTGAGGAACGATGAAGAATTGAGCAAGCTTCTTGGTGATGTTACCATTGCTAATGGTGGTGTTATGCCCAATATTCACAACTTGTTGCTTCCAAAGAAAGCTGGTCCTTCCAAGGGTGCTGCTGAAGATGAATGA
Protein sequence

>MS.gene87262.t1

MAGRGKTLGSGAAKKATSRSSKAGLQFPVGRIARFLKAGKYAERVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKTRIVPRHIQLAVRNDEELSKLLGDVTIANGGVMPNIHNLLLPKKAGPSKGAAEDE