AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054297

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054297.t1 MTR_1g101810 66.667 117 38 1 2 117 43 159 5.81e-49 159
MS.gene054297.t1 MTR_1g101810 66.667 117 38 1 2 117 73 189 1.32e-48 159
MS.gene054297.t1 MTR_8g033070 66.304 92 30 1 22 113 80 170 6.26e-37 128
MS.gene054297.t1 MTR_7g028160 56.044 91 40 0 10 100 38 128 2.75e-30 109
MS.gene054297.t1 MTR_1g038650 64.384 73 26 0 12 84 22 94 1.51e-29 106
MS.gene054297.t1 MTR_1g114380 60.759 79 29 1 6 84 19 95 1.62e-27 102
MS.gene054297.t1 MTR_2g006150 57.143 91 39 0 19 109 127 217 7.08e-27 103
MS.gene054297.t1 MTR_1g063870 58.974 78 29 1 10 84 34 111 1.24e-26 98.2
MS.gene054297.t1 MTR_2g006150 57.143 91 39 0 19 109 127 217 1.37e-26 102
MS.gene054297.t1 MTR_4g108370 65.000 80 22 1 11 84 80 159 7.89e-26 100
MS.gene054297.t1 MTR_5g039600 52.128 94 45 0 10 103 55 148 2.12e-25 99.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054297.t1 AT2G45680 67.010 97 31 1 22 117 75 171 2.21e-38 132
MS.gene054297.t1 AT5G51910 63.000 100 36 1 1 99 35 134 2.26e-36 125
MS.gene054297.t1 AT5G51910 63.000 100 36 1 1 99 35 134 2.26e-36 125
MS.gene054297.t1 AT1G72010 72.464 69 19 0 16 84 57 125 1.60e-30 112
MS.gene054297.t1 AT5G23280 61.842 76 29 0 9 84 26 101 1.53e-28 104
MS.gene054297.t1 AT1G69690 73.016 63 17 0 22 84 52 114 1.77e-28 105
MS.gene054297.t1 AT1G35560 71.212 66 19 0 19 84 52 117 5.35e-28 104
MS.gene054297.t1 AT1G58100 69.697 66 20 0 19 84 57 122 5.65e-28 105
MS.gene054297.t1 AT3G47620 63.291 79 23 1 12 84 101 179 6.55e-28 106
MS.gene054297.t1 AT3G27010 63.889 72 26 0 12 83 68 139 1.27e-27 103
MS.gene054297.t1 AT3G27010 63.889 72 26 0 12 83 68 139 1.27e-27 103
MS.gene054297.t1 AT5G08330 65.217 69 24 0 16 84 25 93 2.06e-27 101
MS.gene054297.t1 AT5G41030 62.319 69 26 0 19 87 65 133 2.52e-25 95.9
MS.gene054297.t1 AT2G37000 69.492 59 18 0 22 80 43 101 9.28e-24 90.5
MS.gene054297.t1 AT3G45150 52.542 59 28 0 23 81 18 76 8.15e-18 74.7

Find 42 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGGTGGCTTTAATGATTGC+AGG 0.337913 6.1:+24848520 None:intergenic
GGCTATGGCCGGAATTATTC+CGG 0.369975 6.1:+24848495 None:intergenic
AGAAACAATAGGGTGGTTAC+TGG 0.376057 6.1:-24848554 MS.gene054297:CDS
CAACTTTCCGCCCTCTGAAA+TGG 0.397867 6.1:+24848474 None:intergenic
CACCGGCACCGGAATAATTC+CGG 0.398178 6.1:-24848503 MS.gene054297:CDS
GACCAAGATCTCTCGTCAAC+TGG 0.398427 6.1:+24848590 None:intergenic
AAGTCTGATGGAGAAACAAT+AGG 0.400346 6.1:-24848565 MS.gene054297:CDS
TTCCAGTTGACGAGAGATCT+TGG 0.406107 6.1:-24848592 MS.gene054297:CDS
GGTCTAGCTGCCGATGTTGT+TGG 0.412258 6.1:+24848445 None:intergenic
ATCATTAAAGCCACCGGCAC+CGG 0.435963 6.1:-24848514 MS.gene054297:CDS
TCGGCCGACACTGCCGTTTG+TGG 0.460483 6.1:+24848700 None:intergenic
TTCAGAGGGCGGAAAGTTGA+AGG 0.466569 6.1:-24848470 MS.gene054297:CDS
TGTCAACAACATGTGCATCT+AGG 0.482329 6.1:-24848618 MS.gene054297:CDS
ATCCACAAATTAACCAATTG+AGG 0.488844 6.1:+24848384 None:intergenic
TTCGTGTGACGGTCTTCTGA+TGG 0.489473 6.1:+24848670 None:intergenic
GAACCCACTGGAACCACAAA+CGG 0.494544 6.1:-24848713 MS.gene054297:CDS
CTGCCGTTTGTGGTTCCAGT+GGG 0.497307 6.1:+24848710 None:intergenic
AGCTAGACCAGACGGCCAAA+AGG 0.501805 6.1:-24848431 MS.gene054297:CDS
CCCTCTGAAATGGCTATGGC+CGG 0.502325 6.1:+24848484 None:intergenic
AAAAGCAAGAGAGCCTCAAT+TGG 0.505951 6.1:-24848397 MS.gene054297:CDS
GGCCGGAATTATTCCGGTGC+CGG 0.511782 6.1:+24848501 None:intergenic
AGTCTGATGGAGAAACAATA+GGG 0.517180 6.1:-24848564 MS.gene054297:CDS
TCCGCCCTCTGAAATGGCTA+TGG 0.528278 6.1:+24848480 None:intergenic
CGGAATTATTCCGGTGCCGG+TGG 0.529649 6.1:+24848504 None:intergenic
TTGTTGACAGTGTGACTCTT+CGG 0.532366 6.1:+24848632 None:intergenic
AAAACAGACGTTGAACCCAC+TGG 0.536961 6.1:-24848725 MS.gene054297:CDS
GTCCCTCCACCTTCGTGTGA+CGG 0.543321 6.1:+24848659 None:intergenic
GATCTTGGTCACAAGTCTGA+TGG 0.556205 6.1:-24848577 MS.gene054297:CDS
AGACCGTCACACGAAGGTGG+AGG 0.561466 6.1:-24848662 MS.gene054297:CDS
CAGACGGCCAAAAGGCCCCA+AGG 0.564342 6.1:-24848423 MS.gene054297:CDS
GGAACCACAAACGGCAGTGT+CGG 0.586550 6.1:-24848704 MS.gene054297:CDS
ACTGCCGTTTGTGGTTCCAG+TGG 0.590779 6.1:+24848709 None:intergenic
GACCGTCACACGAAGGTGGA+GGG 0.603506 6.1:-24848661 MS.gene054297:CDS
TCCGGCCATAGCCATTTCAG+AGG 0.619818 6.1:-24848485 MS.gene054297:CDS
GCCATAGCCATTTCAGAGGG+CGG 0.621097 6.1:-24848481 MS.gene054297:CDS
AGAAGACCGTCACACGAAGG+TGG 0.622175 6.1:-24848665 MS.gene054297:CDS
CCTGCAATCATTAAAGCCAC+CGG 0.625145 6.1:-24848520 MS.gene054297:CDS
CCGGCCATAGCCATTTCAGA+GGG 0.636688 6.1:-24848484 MS.gene054297:CDS
ACATCGGCAGCTAGACCAGA+CGG 0.655173 6.1:-24848439 MS.gene054297:CDS
GTTGAAGGTTCCAACAACAT+CGG 0.665250 6.1:-24848455 MS.gene054297:CDS
ATCAGAAGACCGTCACACGA+AGG 0.685962 6.1:-24848668 MS.gene054297:CDS
CTGATGGAGAAACAATAGGG+TGG 0.705438 6.1:-24848561 MS.gene054297:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGTCTGATGGAGAAACAAT+AGG - chr6.1:24848558-24848577 MS.gene054297:CDS 35.0%
AGTCTGATGGAGAAACAATA+GGG - chr6.1:24848559-24848578 MS.gene054297:CDS 35.0%
! GTCTTCTGATGGTTTCTTTT+CGG + chr6.1:24848445-24848464 None:intergenic 35.0%
AAAAGCAAGAGAGCCTCAAT+TGG - chr6.1:24848726-24848745 MS.gene054297:CDS 40.0%
AGAAACAATAGGGTGGTTAC+TGG - chr6.1:24848569-24848588 MS.gene054297:CDS 40.0%
GTTGAAGGTTCCAACAACAT+CGG - chr6.1:24848668-24848687 MS.gene054297:CDS 40.0%
TGTCAACAACATGTGCATCT+AGG - chr6.1:24848505-24848524 MS.gene054297:CDS 40.0%
TTGTTGACAGTGTGACTCTT+CGG + chr6.1:24848494-24848513 None:intergenic 40.0%
!! CTCTCTTGCTTTTCTTCCTT+GGG + chr6.1:24848719-24848738 None:intergenic 40.0%
!! TCTCTTGCTTTTCTTCCTTG+GGG + chr6.1:24848718-24848737 None:intergenic 40.0%
AAAACAGACGTTGAACCCAC+TGG - chr6.1:24848398-24848417 MS.gene054297:CDS 45.0%
CCTGCAATCATTAAAGCCAC+CGG - chr6.1:24848603-24848622 MS.gene054297:CDS 45.0%
CTGATGGAGAAACAATAGGG+TGG - chr6.1:24848562-24848581 MS.gene054297:CDS 45.0%
GATCTTGGTCACAAGTCTGA+TGG - chr6.1:24848546-24848565 MS.gene054297:CDS 45.0%
TTCCAGTTGACGAGAGATCT+TGG - chr6.1:24848531-24848550 MS.gene054297:CDS 45.0%
! TTTTCTTCCTTGGGGCCTTT+TGG + chr6.1:24848710-24848729 None:intergenic 45.0%
!! GCTCTCTTGCTTTTCTTCCT+TGG + chr6.1:24848720-24848739 None:intergenic 45.0%
ATCAGAAGACCGTCACACGA+AGG - chr6.1:24848455-24848474 MS.gene054297:CDS 50.0%
ATCATTAAAGCCACCGGCAC+CGG - chr6.1:24848609-24848628 MS.gene054297:CDS 50.0%
GAACCCACTGGAACCACAAA+CGG - chr6.1:24848410-24848429 MS.gene054297:CDS 50.0%
GACCAAGATCTCTCGTCAAC+TGG + chr6.1:24848536-24848555 None:intergenic 50.0%
GGCTATGGCCGGAATTATTC+CGG + chr6.1:24848631-24848650 None:intergenic 50.0%
TTCAGAGGGCGGAAAGTTGA+AGG - chr6.1:24848653-24848672 MS.gene054297:CDS 50.0%
TTCGTGTGACGGTCTTCTGA+TGG + chr6.1:24848456-24848475 None:intergenic 50.0%
! CAACTTTCCGCCCTCTGAAA+TGG + chr6.1:24848652-24848671 None:intergenic 50.0%
!! CCGGTGGCTTTAATGATTGC+AGG + chr6.1:24848606-24848625 None:intergenic 50.0%
ACATCGGCAGCTAGACCAGA+CGG - chr6.1:24848684-24848703 MS.gene054297:CDS 55.0%
AGAAGACCGTCACACGAAGG+TGG - chr6.1:24848458-24848477 MS.gene054297:CDS 55.0%
AGCTAGACCAGACGGCCAAA+AGG - chr6.1:24848692-24848711 MS.gene054297:CDS 55.0%
CCGGCCATAGCCATTTCAGA+GGG - chr6.1:24848639-24848658 MS.gene054297:CDS 55.0%
GCCATAGCCATTTCAGAGGG+CGG - chr6.1:24848642-24848661 MS.gene054297:CDS 55.0%
GGAACCACAAACGGCAGTGT+CGG - chr6.1:24848419-24848438 MS.gene054297:CDS 55.0%
GGTCTAGCTGCCGATGTTGT+TGG + chr6.1:24848681-24848700 None:intergenic 55.0%
TCCGGCCATAGCCATTTCAG+AGG - chr6.1:24848638-24848657 MS.gene054297:CDS 55.0%
! ACTGCCGTTTGTGGTTCCAG+TGG + chr6.1:24848417-24848436 None:intergenic 55.0%
! CACCGGCACCGGAATAATTC+CGG - chr6.1:24848620-24848639 MS.gene054297:CDS 55.0%
! CTGCCGTTTGTGGTTCCAGT+GGG + chr6.1:24848416-24848435 None:intergenic 55.0%
!! CCCTCTGAAATGGCTATGGC+CGG + chr6.1:24848642-24848661 None:intergenic 55.0%
!! TCCGCCCTCTGAAATGGCTA+TGG + chr6.1:24848646-24848665 None:intergenic 55.0%
AGACCGTCACACGAAGGTGG+AGG - chr6.1:24848461-24848480 MS.gene054297:CDS 60.0%
GACCGTCACACGAAGGTGGA+GGG - chr6.1:24848462-24848481 MS.gene054297:CDS 60.0%
GGCCGGAATTATTCCGGTGC+CGG + chr6.1:24848625-24848644 None:intergenic 60.0%
GTCCCTCCACCTTCGTGTGA+CGG + chr6.1:24848467-24848486 None:intergenic 60.0%
! CGGAATTATTCCGGTGCCGG+TGG + chr6.1:24848622-24848641 None:intergenic 60.0%
CAGACGGCCAAAAGGCCCCA+AGG - chr6.1:24848700-24848719 MS.gene054297:CDS 65.0%
! CTTGGGGCCTTTTGGCCGTC+TGG + chr6.1:24848702-24848721 None:intergenic 65.0%
! TCGGCCGACACTGCCGTTTG+TGG + chr6.1:24848426-24848445 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 24848393 24848752 24848393 ID=MS.gene054297
chr6.1 mRNA 24848393 24848752 24848393 ID=MS.gene054297.t1;Parent=MS.gene054297
chr6.1 exon 24848393 24848752 24848393 ID=MS.gene054297.t1.exon1;Parent=MS.gene054297.t1
chr6.1 CDS 24848393 24848752 24848393 ID=cds.MS.gene054297.t1;Parent=MS.gene054297.t1
Gene Sequence

>MS.gene054297

ATGGAAAAACAGACGTTGAACCCACTGGAACCACAAACGGCAGTGTCGGCCGAAAAGAAACCATCAGAAGACCGTCACACGAAGGTGGAGGGACGTGTCCGAAGAGTCACACTGTCAACAACATGTGCATCTAGGATCTTCCAGTTGACGAGAGATCTTGGTCACAAGTCTGATGGAGAAACAATAGGGTGGTTACTGGAACAAGCTGAACCTGCAATCATTAAAGCCACCGGCACCGGAATAATTCCGGCCATAGCCATTTCAGAGGGCGGAAAGTTGAAGGTTCCAACAACATCGGCAGCTAGACCAGACGGCCAAAAGGCCCCAAGGAAGAAAAGCAAGAGAGCCTCAATTGGTTAA
Protein sequence

>MS.gene054297.t1

MEKQTLNPLEPQTAVSAEKKPSEDRHTKVEGRVRRVTLSTTCASRIFQLTRDLGHKSDGETIGWLLEQAEPAIIKATGTGIIPAIAISEGGKLKVPTTSAARPDGQKAPRKKSKRASIG