AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene054305

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054305.t1 MTR_1g101810 66.667 117 38 1 2 117 43 159 1.14e-48 158
MS.gene054305.t1 MTR_1g101810 66.667 117 38 1 2 117 73 189 3.06e-48 158
MS.gene054305.t1 MTR_8g033070 66.304 92 30 1 22 113 80 170 1.55e-36 127
MS.gene054305.t1 MTR_7g028160 56.044 91 40 0 10 100 38 128 5.20e-30 108
MS.gene054305.t1 MTR_1g038650 64.384 73 26 0 12 84 22 94 3.53e-29 105
MS.gene054305.t1 MTR_1g114380 60.759 79 29 1 6 84 19 95 3.68e-27 100
MS.gene054305.t1 MTR_2g006150 57.143 91 39 0 19 109 127 217 9.00e-27 103
MS.gene054305.t1 MTR_2g006150 57.143 91 39 0 19 109 127 217 1.37e-26 102
MS.gene054305.t1 MTR_1g063870 58.974 78 29 1 10 84 34 111 3.56e-26 97.1
MS.gene054305.t1 MTR_4g108370 65.000 80 22 1 11 84 80 159 8.38e-26 100
MS.gene054305.t1 MTR_5g039600 52.128 94 45 0 10 103 55 148 2.27e-25 98.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene054305.t1 AT2G45680 67.010 97 31 1 22 117 75 171 5.80e-38 131
MS.gene054305.t1 AT5G51910 63.000 100 36 1 1 99 35 134 6.46e-36 124
MS.gene054305.t1 AT5G51910 63.000 100 36 1 1 99 35 134 6.46e-36 124
MS.gene054305.t1 AT5G23280 61.842 76 29 0 9 84 26 101 3.37e-28 103
MS.gene054305.t1 AT1G69690 73.016 63 17 0 22 84 52 114 6.13e-28 104
MS.gene054305.t1 AT1G35560 71.212 66 19 0 19 84 52 117 1.29e-27 103
MS.gene054305.t1 AT1G58100 69.697 66 20 0 19 84 57 122 1.30e-27 104
MS.gene054305.t1 AT3G47620 63.291 79 23 1 12 84 101 179 1.48e-27 105
MS.gene054305.t1 AT3G27010 63.889 72 26 0 12 83 68 139 2.98e-27 102
MS.gene054305.t1 AT3G27010 63.889 72 26 0 12 83 68 139 2.98e-27 102
MS.gene054305.t1 AT5G08330 65.217 69 24 0 16 84 25 93 4.80e-27 100
MS.gene054305.t1 AT1G72010 72.464 69 19 0 16 84 57 125 8.68e-27 102
MS.gene054305.t1 AT5G41030 62.319 69 26 0 19 87 65 133 8.84e-25 94.4
MS.gene054305.t1 AT2G37000 69.492 59 18 0 22 80 43 101 3.41e-23 89.0
MS.gene054305.t1 AT3G45150 52.542 59 28 0 23 81 18 76 2.12e-17 73.6

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:+24712769 None:intergenic
GGCTATGGCCGGAATTATTC+CGG 0.369975 6.1:+24712744 None:intergenic
AGAAACAATAGGGTGGTTAC+TGG 0.376057 6.1:-24712803 MS.gene054305:CDS
CAACTTTCCGCCCTCTGAAA+TGG 0.397867 6.1:+24712723 None:intergenic
CACCGGCACCGGAATAATTC+CGG 0.398178 6.1:-24712752 MS.gene054305:CDS
GACCAAGATCTCTCGTCAAC+TGG 0.398427 6.1:+24712839 None:intergenic
AAGTCTGATGGAGAAACAAT+AGG 0.400346 6.1:-24712814 MS.gene054305:CDS
TTCCAGTTGACGAGAGATCT+TGG 0.406107 6.1:-24712841 MS.gene054305:CDS
GGTCTAGCTGCCGATGTTGT+TGG 0.412258 6.1:+24712694 None:intergenic
CTGCCGTTTGTGGTTCCAGC+GGG 0.433871 6.1:+24712959 None:intergenic
ATCATTAAAGCCACCGGCAC+CGG 0.435963 6.1:-24712763 MS.gene054305:CDS
TCGGCCGACACTGCCGTTTG+TGG 0.460483 6.1:+24712949 None:intergenic
TGTCAACAACATGTGCATAT+AGG 0.464583 6.1:-24712867 MS.gene054305:CDS
TTCAGAGGGCGGAAAGTTGA+AGG 0.466569 6.1:-24712719 MS.gene054305:CDS
ATCCACAAATTAACCAATTG+AGG 0.488844 6.1:+24712633 None:intergenic
TTCGTGTGACGGTCTTCTGA+TGG 0.489473 6.1:+24712919 None:intergenic
AGCTAGACCAGACGGCCAAA+AGG 0.501805 6.1:-24712680 MS.gene054305:CDS
CCCTCTGAAATGGCTATGGC+CGG 0.502325 6.1:+24712733 None:intergenic
AAAAGCAAGAGAGCCTCAAT+TGG 0.505951 6.1:-24712646 MS.gene054305:CDS
GGCCGGAATTATTCCGGTGC+CGG 0.511782 6.1:+24712750 None:intergenic
AGTCTGATGGAGAAACAATA+GGG 0.517180 6.1:-24712813 MS.gene054305:CDS
GAACCCGCTGGAACCACAAA+CGG 0.518184 6.1:-24712962 MS.gene054305:CDS
TCCGCCCTCTGAAATGGCTA+TGG 0.528278 6.1:+24712729 None:intergenic
CGGAATTATTCCGGTGCCGG+TGG 0.529649 6.1:+24712753 None:intergenic
TTGTTGACAGTGTGACTCTT+CGG 0.532366 6.1:+24712881 None:intergenic
AAAACAGACGTTGAACCCGC+TGG 0.542316 6.1:-24712974 MS.gene054305:CDS
GTCCCTCCACCTTCGTGTGA+CGG 0.543321 6.1:+24712908 None:intergenic
GATCTTGGTCACAAGTCTGA+TGG 0.556205 6.1:-24712826 MS.gene054305:CDS
AGACCGTCACACGAAGGTGG+AGG 0.561466 6.1:-24712911 MS.gene054305:CDS
CAGACGGCCAAAAGGCCCCA+AGG 0.564342 6.1:-24712672 MS.gene054305:CDS
GGAACCACAAACGGCAGTGT+CGG 0.596520 6.1:-24712953 MS.gene054305:CDS
GACCGTCACACGAAGGTGGA+GGG 0.603506 6.1:-24712910 MS.gene054305:CDS
TCCGGCCATAGCCATTTCAG+AGG 0.619818 6.1:-24712734 MS.gene054305:CDS
GCCATAGCCATTTCAGAGGG+CGG 0.621097 6.1:-24712730 MS.gene054305:CDS
AGAAGACCGTCACACGAAGG+TGG 0.622175 6.1:-24712914 MS.gene054305:CDS
CCTGCAATCATTAAAGCCAC+CGG 0.625145 6.1:-24712769 MS.gene054305:CDS
CCGGCCATAGCCATTTCAGA+GGG 0.636688 6.1:-24712733 MS.gene054305:CDS
ACATCGGCAGCTAGACCAGA+CGG 0.655173 6.1:-24712688 MS.gene054305:CDS
GTTGAAGGTTCCAACAACAT+CGG 0.665250 6.1:-24712704 MS.gene054305:CDS
ACTGCCGTTTGTGGTTCCAG+CGG 0.673374 6.1:+24712958 None:intergenic
ATCAGAAGACCGTCACACGA+AGG 0.685962 6.1:-24712917 MS.gene054305:CDS
CTGATGGAGAAACAATAGGG+TGG 0.705438 6.1:-24712810 MS.gene054305:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGTCTGATGGAGAAACAAT+AGG - chr6.1:24712807-24712826 MS.gene054305:CDS 35.0%
AGTCTGATGGAGAAACAATA+GGG - chr6.1:24712808-24712827 MS.gene054305:CDS 35.0%
TGTCAACAACATGTGCATAT+AGG - chr6.1:24712754-24712773 MS.gene054305:CDS 35.0%
! GTCTTCTGATGGTTTCTTTT+CGG + chr6.1:24712694-24712713 None:intergenic 35.0%
AAAAGCAAGAGAGCCTCAAT+TGG - chr6.1:24712975-24712994 MS.gene054305:CDS 40.0%
AGAAACAATAGGGTGGTTAC+TGG - chr6.1:24712818-24712837 MS.gene054305:CDS 40.0%
GTTGAAGGTTCCAACAACAT+CGG - chr6.1:24712917-24712936 MS.gene054305:CDS 40.0%
TTGTTGACAGTGTGACTCTT+CGG + chr6.1:24712743-24712762 None:intergenic 40.0%
!! CTCTCTTGCTTTTCTTCCTT+GGG + chr6.1:24712968-24712987 None:intergenic 40.0%
!! TCTCTTGCTTTTCTTCCTTG+GGG + chr6.1:24712967-24712986 None:intergenic 40.0%
CCTGCAATCATTAAAGCCAC+CGG - chr6.1:24712852-24712871 MS.gene054305:CDS 45.0%
CTGATGGAGAAACAATAGGG+TGG - chr6.1:24712811-24712830 MS.gene054305:CDS 45.0%
GATCTTGGTCACAAGTCTGA+TGG - chr6.1:24712795-24712814 MS.gene054305:CDS 45.0%
TTCCAGTTGACGAGAGATCT+TGG - chr6.1:24712780-24712799 MS.gene054305:CDS 45.0%
! TTTTCTTCCTTGGGGCCTTT+TGG + chr6.1:24712959-24712978 None:intergenic 45.0%
!! GCTCTCTTGCTTTTCTTCCT+TGG + chr6.1:24712969-24712988 None:intergenic 45.0%
AAAACAGACGTTGAACCCGC+TGG - chr6.1:24712647-24712666 MS.gene054305:CDS 50.0%
ATCAGAAGACCGTCACACGA+AGG - chr6.1:24712704-24712723 MS.gene054305:CDS 50.0%
ATCATTAAAGCCACCGGCAC+CGG - chr6.1:24712858-24712877 MS.gene054305:CDS 50.0%
GACCAAGATCTCTCGTCAAC+TGG + chr6.1:24712785-24712804 None:intergenic 50.0%
GGCTATGGCCGGAATTATTC+CGG + chr6.1:24712880-24712899 None:intergenic 50.0%
TTCAGAGGGCGGAAAGTTGA+AGG - chr6.1:24712902-24712921 MS.gene054305:CDS 50.0%
TTCGTGTGACGGTCTTCTGA+TGG + chr6.1:24712705-24712724 None:intergenic 50.0%
! CAACTTTCCGCCCTCTGAAA+TGG + chr6.1:24712901-24712920 None:intergenic 50.0%
!! CCGGTGGCTTTAATGATTGC+AGG + chr6.1:24712855-24712874 None:intergenic 50.0%
ACATCGGCAGCTAGACCAGA+CGG - chr6.1:24712933-24712952 MS.gene054305:CDS 55.0%
AGAAGACCGTCACACGAAGG+TGG - chr6.1:24712707-24712726 MS.gene054305:CDS 55.0%
AGCTAGACCAGACGGCCAAA+AGG - chr6.1:24712941-24712960 MS.gene054305:CDS 55.0%
CCGGCCATAGCCATTTCAGA+GGG - chr6.1:24712888-24712907 MS.gene054305:CDS 55.0%
GAACCCGCTGGAACCACAAA+CGG - chr6.1:24712659-24712678 MS.gene054305:CDS 55.0%
GCCATAGCCATTTCAGAGGG+CGG - chr6.1:24712891-24712910 MS.gene054305:CDS 55.0%
GGAACCACAAACGGCAGTGT+CGG - chr6.1:24712668-24712687 MS.gene054305:CDS 55.0%
GGTCTAGCTGCCGATGTTGT+TGG + chr6.1:24712930-24712949 None:intergenic 55.0%
TCCGGCCATAGCCATTTCAG+AGG - chr6.1:24712887-24712906 MS.gene054305:CDS 55.0%
! ACTGCCGTTTGTGGTTCCAG+CGG + chr6.1:24712666-24712685 None:intergenic 55.0%
! CACCGGCACCGGAATAATTC+CGG - chr6.1:24712869-24712888 MS.gene054305:CDS 55.0%
!! CCCTCTGAAATGGCTATGGC+CGG + chr6.1:24712891-24712910 None:intergenic 55.0%
!! TCCGCCCTCTGAAATGGCTA+TGG + chr6.1:24712895-24712914 None:intergenic 55.0%
AGACCGTCACACGAAGGTGG+AGG - chr6.1:24712710-24712729 MS.gene054305:CDS 60.0%
GACCGTCACACGAAGGTGGA+GGG - chr6.1:24712711-24712730 MS.gene054305:CDS 60.0%
GGCCGGAATTATTCCGGTGC+CGG + chr6.1:24712874-24712893 None:intergenic 60.0%
GTCCCTCCACCTTCGTGTGA+CGG + chr6.1:24712716-24712735 None:intergenic 60.0%
! CGGAATTATTCCGGTGCCGG+TGG + chr6.1:24712871-24712890 None:intergenic 60.0%
! CTGCCGTTTGTGGTTCCAGC+GGG + chr6.1:24712665-24712684 None:intergenic 60.0%
CAGACGGCCAAAAGGCCCCA+AGG - chr6.1:24712949-24712968 MS.gene054305:CDS 65.0%
! CTTGGGGCCTTTTGGCCGTC+TGG + chr6.1:24712951-24712970 None:intergenic 65.0%
! TCGGCCGACACTGCCGTTTG+TGG + chr6.1:24712675-24712694 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 24712642 24713001 24712642 ID=MS.gene054305
chr6.1 mRNA 24712642 24713001 24712642 ID=MS.gene054305.t1;Parent=MS.gene054305
chr6.1 exon 24712642 24713001 24712642 ID=MS.gene054305.t1.exon1;Parent=MS.gene054305.t1
chr6.1 CDS 24712642 24713001 24712642 ID=cds.MS.gene054305.t1;Parent=MS.gene054305.t1
Gene Sequence

>MS.gene054305

ATGGAAAAACAGACGTTGAACCCGCTGGAACCACAAACGGCAGTGTCGGCCGAAAAGAAACCATCAGAAGACCGTCACACGAAGGTGGAGGGACGTGTCCGAAGAGTCACACTGTCAACAACATGTGCATATAGGATCTTCCAGTTGACGAGAGATCTTGGTCACAAGTCTGATGGAGAAACAATAGGGTGGTTACTGGAACAAGCTGAACCTGCAATCATTAAAGCCACCGGCACCGGAATAATTCCGGCCATAGCCATTTCAGAGGGCGGAAAGTTGAAGGTTCCAACAACATCGGCAGCTAGACCAGACGGCCAAAAGGCCCCAAGGAAGAAAAGCAAGAGAGCCTCAATTGGTTAA
Protein sequence

>MS.gene054305.t1

MEKQTLNPLEPQTAVSAEKKPSEDRHTKVEGRVRRVTLSTTCAYRIFQLTRDLGHKSDGETIGWLLEQAEPAIIKATGTGIIPAIAISEGGKLKVPTTSAARPDGQKAPRKKSKRASIG