AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene061261


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061261.t1 MTR_4g122260 93.865 163 10 0 1 163 1 163 4.71e-111 313
MS.gene061261.t1 MTR_1g076650 29.252 147 96 3 10 154 6 146 4.62e-14 65.9
MS.gene061261.t1 MTR_1g071150 28.378 148 101 2 10 157 6 148 7.67e-14 65.5
MS.gene061261.t1 MTR_5g017550 28.477 151 103 3 4 154 36 181 3.17e-13 64.7
MS.gene061261.t1 MTR_8g066630 28.148 135 94 2 15 148 16 148 3.34e-12 61.2
MS.gene061261.t1 MTR_1g041285 28.105 153 96 4 7 154 3 146 5.28e-11 57.8
MS.gene061261.t1 MTR_7g115040 28.777 139 95 2 16 154 12 146 6.18e-11 57.8
MS.gene061261.t1 MTR_5g017510 25.828 151 108 2 4 154 36 182 9.34e-11 58.2
MS.gene061261.t1 MTR_5g017560 25.828 151 108 2 4 154 36 182 9.34e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene061261.t1 AT5G49480 57.669 163 55 3 1 154 1 158 1.96e-56 174
MS.gene061261.t1 AT3G22930 29.333 150 98 3 10 157 29 172 2.90e-14 67.0
MS.gene061261.t1 AT4G14640 28.873 142 93 3 15 154 12 147 1.29e-12 62.4
MS.gene061261.t1 AT4G37010 26.115 157 104 3 6 154 13 165 2.67e-12 62.0
MS.gene061261.t1 AT4G37010 26.115 157 104 3 6 154 9 161 2.70e-12 61.6
MS.gene061261.t1 AT1G18530 27.397 146 101 2 17 159 8 151 1.74e-11 59.3
MS.gene061261.t1 AT3G43810 24.324 148 100 3 15 158 11 150 8.93e-11 58.5

Find 60 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTACTGATGAAGAGATTA+AGG 0.345504 8.3:-6393584 MS.gene061261:CDS
TGGAGATTTGAAGAATTATA+TGG 0.346456 8.3:-6393623 MS.gene061261:CDS
AAGTCGGTTGTGCTAGGTTG+TGG 0.373923 8.3:+6393928 None:intergenic
TTTGAAGAATTATATGGCTT+GGG 0.391177 8.3:-6393617 MS.gene061261:CDS
AACATCATCATGTGTCCATC+TGG 0.418396 8.3:-6393964 None:intergenic
ACAGTCACAGGTGGCGTGAA+TGG 0.423179 8.3:-6393829 MS.gene061261:CDS
AACGGTGGCGTTAGCTTCGA+TGG 0.425296 8.3:-6393532 MS.gene061261:CDS
ATTTGAAGAATTATATGGCT+TGG 0.438657 8.3:-6393618 MS.gene061261:CDS
AATTAATTGAATCAATTAGC+TGG 0.438984 8.3:+6393475 None:intergenic
TAGGTTGTGGGCGGAGGCTA+CGG 0.443861 8.3:+6393941 None:intergenic
GAAAAGAGACCGTTGGGATG+TGG 0.454346 8.3:-6393703 MS.gene061261:CDS
GGTCGGAAGTCGGTTGTGCT+AGG 0.461824 8.3:+6393922 None:intergenic
AGTCGGTTGTGCTAGGTTGT+GGG 0.462510 8.3:+6393929 None:intergenic
ATTCACGCCACCTGTGACTG+TGG 0.465058 8.3:+6393831 None:intergenic
TTGTGCTAGGTTGTGGGCGG+AGG 0.474583 8.3:+6393935 None:intergenic
AAGAATTATATGGCTTGGGC+TGG 0.482717 8.3:-6393613 MS.gene061261:CDS
CTCCACGAATCCATCCTTGT+TGG 0.484249 8.3:+6393765 None:intergenic
ATTAAGGCTATGATTAAGCT+TGG 0.501005 8.3:-6393568 MS.gene061261:CDS
AATGGAGAAAAGAGACCGTT+GGG 0.504276 8.3:-6393709 MS.gene061261:CDS
CGGTGCCATGATGTCGGTGG+CGG 0.526043 8.3:-6393791 MS.gene061261:CDS
ACCGTTGGGATGTGGGGCCA+TGG 0.531531 8.3:-6393695 MS.gene061261:CDS
AAAAGAGACCGTTGGGATGT+GGG 0.534041 8.3:-6393702 MS.gene061261:CDS
GGCCATGGAAGATGTGTTCA+AGG 0.543484 8.3:-6393680 MS.gene061261:CDS
GGAAGATGTGTTCAAGGTGA+TGG 0.543516 8.3:-6393674 MS.gene061261:CDS
CACCTTGAACACATCTTCCA+TGG 0.544540 8.3:+6393678 None:intergenic
TCATTCTACGCCACAGTCAC+AGG 0.546712 8.3:-6393841 MS.gene061261:CDS
CAATGGAGAAAAGAGACCGT+TGG 0.550950 8.3:-6393710 MS.gene061261:CDS
GGTGTCCGCCACCGACATCA+TGG 0.552161 8.3:+6393786 None:intergenic
GGGCGGAGGCTACGGCCAGA+TGG 0.563386 8.3:+6393949 None:intergenic
CACCAACAAGGATGGATTCG+TGG 0.565557 8.3:-6393767 MS.gene061261:CDS
AAGGCTATGATTAAGCTTGG+TGG 0.567678 8.3:-6393565 MS.gene061261:CDS
GAATTCGAGCGGGTGGTTAG+CGG 0.572181 8.3:-6393736 MS.gene061261:CDS
TGTGATGGTAAGCTTAGTCA+TGG 0.573041 8.3:-6393643 MS.gene061261:CDS
AGAATGAACGGAGGTCATCA+CGG 0.579774 8.3:+6393857 None:intergenic
GTCGAATGCCGGTCGGAAGT+CGG 0.582232 8.3:+6393912 None:intergenic
GTGGCGGACACCAACAAGGA+TGG 0.583986 8.3:-6393775 MS.gene061261:CDS
AATGGAGGAGACGATGCAAT+CGG 0.588136 8.3:-6393811 MS.gene061261:CDS
ATTCTTGACACCGATTGCGA+CGG 0.591172 8.3:-6393889 MS.gene061261:CDS
AAAGAGACCGTTGGGATGTG+GGG 0.600532 8.3:-6393701 MS.gene061261:CDS
CGGGTGGTTAGCGGAAACAA+TGG 0.602363 8.3:-6393727 MS.gene061261:CDS
GTGTCAAGAATGTCGAATGC+CGG 0.603408 8.3:+6393901 None:intergenic
GTCACAGGTGGCGTGAATGG+AGG 0.607930 8.3:-6393826 MS.gene061261:CDS
GGAGTACGAGGAATTCGAGC+GGG 0.609161 8.3:-6393746 MS.gene061261:CDS
TAGCACAACCGACTTCCGAC+CGG 0.613292 8.3:-6393920 MS.gene061261:CDS
CAAGAATGTCGAATGCCGGT+CGG 0.616779 8.3:+6393905 None:intergenic
CTTGGTGGTGGTGATCAAAA+CGG 0.629557 8.3:-6393550 MS.gene061261:CDS
GGATGGATTCGTGGAGTACG+AGG 0.629636 8.3:-6393758 MS.gene061261:CDS
GTCGGTGGCGGACACCAACA+AGG 0.635758 8.3:-6393779 MS.gene061261:CDS
TCCATGGCCCCACATCCCAA+CGG 0.637931 8.3:+6393694 None:intergenic
TGCAATCGGTGCCATGATGT+CGG 0.643160 8.3:-6393797 MS.gene061261:CDS
GTACGAGGAATTCGAGCGGG+TGG 0.644464 8.3:-6393743 MS.gene061261:CDS
CGGTTGTGCTAGGTTGTGGG+CGG 0.647620 8.3:+6393932 None:intergenic
TGACTGTGGCGTAGAATGAA+CGG 0.660507 8.3:+6393845 None:intergenic
GCTATGATTAAGCTTGGTGG+TGG 0.672010 8.3:-6393562 MS.gene061261:CDS
TTCTACGCCACAGTCACAGG+TGG 0.673372 8.3:-6393838 MS.gene061261:CDS
AATCGGTGCCATGATGTCGG+TGG 0.708734 8.3:-6393794 MS.gene061261:CDS
GGTGGTGGTGATCAAAACGG+TGG 0.729393 8.3:-6393547 MS.gene061261:CDS
TGGAGTACGAGGAATTCGAG+CGG 0.729660 8.3:-6393747 MS.gene061261:CDS
GTGATGGATAGAGATTGTGA+TGG 0.773795 8.3:-6393658 MS.gene061261:CDS
CTGTGGCGTAGAATGAACGG+AGG 0.784689 8.3:+6393848 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTTGAAGAATTATATGGCT+TGG - chr8.3:6393823-6393842 MS.gene061261:CDS 25.0%
! TGGAGATTTGAAGAATTATA+TGG - chr8.3:6393818-6393837 MS.gene061261:CDS 25.0%
! TTTGAAGAATTATATGGCTT+GGG - chr8.3:6393824-6393843 MS.gene061261:CDS 25.0%
ATTAAGGCTATGATTAAGCT+TGG - chr8.3:6393873-6393892 MS.gene061261:CDS 30.0%
TGCTACTGATGAAGAGATTA+AGG - chr8.3:6393857-6393876 MS.gene061261:CDS 35.0%
AAGGCTATGATTAAGCTTGG+TGG - chr8.3:6393876-6393895 MS.gene061261:CDS 40.0%
AATGGAGAAAAGAGACCGTT+GGG - chr8.3:6393732-6393751 MS.gene061261:CDS 40.0%
TGTGATGGTAAGCTTAGTCA+TGG - chr8.3:6393798-6393817 MS.gene061261:CDS 40.0%
! AAGAATTATATGGCTTGGGC+TGG - chr8.3:6393828-6393847 MS.gene061261:CDS 40.0%
!! GTGATGGATAGAGATTGTGA+TGG - chr8.3:6393783-6393802 MS.gene061261:CDS 40.0%
AAAAGAGACCGTTGGGATGT+GGG - chr8.3:6393739-6393758 MS.gene061261:CDS 45.0%
AATGGAGGAGACGATGCAAT+CGG - chr8.3:6393630-6393649 MS.gene061261:CDS 45.0%
AGAATGAACGGAGGTCATCA+CGG + chr8.3:6393587-6393606 None:intergenic 45.0%
CAATGGAGAAAAGAGACCGT+TGG - chr8.3:6393731-6393750 MS.gene061261:CDS 45.0%
CACCTTGAACACATCTTCCA+TGG + chr8.3:6393766-6393785 None:intergenic 45.0%
GGAAGATGTGTTCAAGGTGA+TGG - chr8.3:6393767-6393786 MS.gene061261:CDS 45.0%
GTGTCAAGAATGTCGAATGC+CGG + chr8.3:6393543-6393562 None:intergenic 45.0%
TGACTGTGGCGTAGAATGAA+CGG + chr8.3:6393599-6393618 None:intergenic 45.0%
! ATTCTTGACACCGATTGCGA+CGG - chr8.3:6393552-6393571 MS.gene061261:CDS 45.0%
! GCTATGATTAAGCTTGGTGG+TGG - chr8.3:6393879-6393898 MS.gene061261:CDS 45.0%
!! CTTGGTGGTGGTGATCAAAA+CGG - chr8.3:6393891-6393910 MS.gene061261:CDS 45.0%
!!! GCTTATTTTGCCGTCGCAAT+CGG + chr8.3:6393565-6393584 None:intergenic 45.0%
AAAGAGACCGTTGGGATGTG+GGG - chr8.3:6393740-6393759 MS.gene061261:CDS 50.0%
AAGTCGGTTGTGCTAGGTTG+TGG + chr8.3:6393516-6393535 None:intergenic 50.0%
AGTCGGTTGTGCTAGGTTGT+GGG + chr8.3:6393515-6393534 None:intergenic 50.0%
CAAGAATGTCGAATGCCGGT+CGG + chr8.3:6393539-6393558 None:intergenic 50.0%
CTCCACGAATCCATCCTTGT+TGG + chr8.3:6393679-6393698 None:intergenic 50.0%
GAAAAGAGACCGTTGGGATG+TGG - chr8.3:6393738-6393757 MS.gene061261:CDS 50.0%
GGCCATGGAAGATGTGTTCA+AGG - chr8.3:6393761-6393780 MS.gene061261:CDS 50.0%
TCATTCTACGCCACAGTCAC+AGG - chr8.3:6393600-6393619 MS.gene061261:CDS 50.0%
TGGAGTACGAGGAATTCGAG+CGG - chr8.3:6393694-6393713 MS.gene061261:CDS 50.0%
! CACCAACAAGGATGGATTCG+TGG - chr8.3:6393674-6393693 MS.gene061261:CDS 50.0%
!! TGCAATCGGTGCCATGATGT+CGG - chr8.3:6393644-6393663 MS.gene061261:CDS 50.0%
ACAGTCACAGGTGGCGTGAA+TGG - chr8.3:6393612-6393631 MS.gene061261:CDS 55.0%
ATTCACGCCACCTGTGACTG+TGG + chr8.3:6393613-6393632 None:intergenic 55.0%
CGGGTGGTTAGCGGAAACAA+TGG - chr8.3:6393714-6393733 MS.gene061261:CDS 55.0%
CTGTGGCGTAGAATGAACGG+AGG + chr8.3:6393596-6393615 None:intergenic 55.0%
GAATTCGAGCGGGTGGTTAG+CGG - chr8.3:6393705-6393724 MS.gene061261:CDS 55.0%
GGAGTACGAGGAATTCGAGC+GGG - chr8.3:6393695-6393714 MS.gene061261:CDS 55.0%
TTCTACGCCACAGTCACAGG+TGG - chr8.3:6393603-6393622 MS.gene061261:CDS 55.0%
! AACGGTGGCGTTAGCTTCGA+TGG - chr8.3:6393909-6393928 MS.gene061261:CDS 55.0%
! GGATGGATTCGTGGAGTACG+AGG - chr8.3:6393683-6393702 MS.gene061261:CDS 55.0%
! GGTGGTGGTGATCAAAACGG+TGG - chr8.3:6393894-6393913 MS.gene061261:CDS 55.0%
! TAGCACAACCGACTTCCGAC+CGG - chr8.3:6393521-6393540 MS.gene061261:CDS 55.0%
!! AATCGGTGCCATGATGTCGG+TGG - chr8.3:6393647-6393666 MS.gene061261:CDS 55.0%
CGGTTGTGCTAGGTTGTGGG+CGG + chr8.3:6393512-6393531 None:intergenic 60.0%
GGTCGGAAGTCGGTTGTGCT+AGG + chr8.3:6393522-6393541 None:intergenic 60.0%
GTACGAGGAATTCGAGCGGG+TGG - chr8.3:6393698-6393717 MS.gene061261:CDS 60.0%
GTCACAGGTGGCGTGAATGG+AGG - chr8.3:6393615-6393634 MS.gene061261:CDS 60.0%
GTCGAATGCCGGTCGGAAGT+CGG + chr8.3:6393532-6393551 None:intergenic 60.0%
TAGGTTGTGGGCGGAGGCTA+CGG + chr8.3:6393503-6393522 None:intergenic 60.0%
TCCATGGCCCCACATCCCAA+CGG + chr8.3:6393750-6393769 None:intergenic 60.0%
TTGTGCTAGGTTGTGGGCGG+AGG + chr8.3:6393509-6393528 None:intergenic 60.0%
!! GTGGCGGACACCAACAAGGA+TGG - chr8.3:6393666-6393685 MS.gene061261:CDS 60.0%
ACCGTTGGGATGTGGGGCCA+TGG - chr8.3:6393746-6393765 MS.gene061261:CDS 65.0%
GGTGTCCGCCACCGACATCA+TGG + chr8.3:6393658-6393677 None:intergenic 65.0%
!! CGGTGCCATGATGTCGGTGG+CGG - chr8.3:6393650-6393669 MS.gene061261:CDS 65.0%
!! GTCGGTGGCGGACACCAACA+AGG - chr8.3:6393662-6393681 MS.gene061261:CDS 65.0%
GGGCGGAGGCTACGGCCAGA+TGG + chr8.3:6393495-6393514 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 6393486 6393977 6393486 ID=MS.gene061261
chr8.3 mRNA 6393486 6393977 6393486 ID=MS.gene061261.t1;Parent=MS.gene061261
chr8.3 exon 6393486 6393977 6393486 ID=MS.gene061261.t1.exon1;Parent=MS.gene061261.t1
chr8.3 CDS 6393486 6393977 6393486 ID=cds.MS.gene061261.t1;Parent=MS.gene061261.t1
Gene Sequence

>MS.gene061261

ATGTGTCCATCTGGCCGTAGCCTCCGCCCACAACCTAGCACAACCGACTTCCGACCGGCATTCGACATTCTTGACACCGATTGCGACGGCAAAATAAGCCGTGATGACCTCCGTTCATTCTACGCCACAGTCACAGGTGGCGTGAATGGAGGAGACGATGCAATCGGTGCCATGATGTCGGTGGCGGACACCAACAAGGATGGATTCGTGGAGTACGAGGAATTCGAGCGGGTGGTTAGCGGAAACAATGGAGAAAAGAGACCGTTGGGATGTGGGGCCATGGAAGATGTGTTCAAGGTGATGGATAGAGATTGTGATGGTAAGCTTAGTCATGGAGATTTGAAGAATTATATGGCTTGGGCTGGTTTTGATGCTACTGATGAAGAGATTAAGGCTATGATTAAGCTTGGTGGTGGTGATCAAAACGGTGGCGTTAGCTTCGATGGTTTGATTCGTTTATTAGCTCTTGATCATTTTGTACCAGCTAATTGA

Protein sequence

>MS.gene061261.t1

MCPSGRSLRPQPSTTDFRPAFDILDTDCDGKISRDDLRSFYATVTGGVNGGDDAIGAMMSVADTNKDGFVEYEEFERVVSGNNGEKRPLGCGAMEDVFKVMDRDCDGKLSHGDLKNYMAWAGFDATDEEIKAMIKLGGGDQNGGVSFDGLIRLLALDHFVPAN