AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680032333.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032333.01.T01 MTR_8g009980 60.345 116 1 1 38 108 77 192 9.10e-35 122
MsG0680032333.01.T01 MTR_8g010030 53.913 115 8 1 39 108 78 192 2.52e-27 102
MsG0680032333.01.T01 MTR_8g007325 51.304 115 11 1 39 108 77 191 3.67e-27 99.8
MsG0680032333.01.T01 MTR_8g010020 52.174 115 10 1 39 108 46 160 3.89e-27 101
MsG0680032333.01.T01 MTR_8g009820 50.435 115 12 1 39 108 136 250 2.06e-25 98.2
MsG0680032333.01.T01 MTR_8g009830 49.123 114 14 1 39 108 77 190 2.40e-25 97.4
MsG0680032333.01.T01 MTR_8g009840 49.123 114 14 1 39 108 77 190 1.89e-24 96.7
MsG0680032333.01.T01 MTR_4g082970 47.826 115 15 2 39 108 84 198 2.30e-23 92.4
MsG0680032333.01.T01 MTR_7g406860 42.500 120 23 1 37 110 77 196 1.42e-19 82.0
MsG0680032333.01.T01 MTR_3g014090 92.105 38 3 0 1 38 789 826 2.76e-18 79.0
MsG0680032333.01.T01 MTR_3g014090 92.105 38 3 0 1 38 791 828 3.29e-18 79.0
MsG0680032333.01.T01 MTR_0011s0280 76.087 46 10 1 65 110 152 196 1.38e-15 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680032333.01.T01 AT1G26320 50.847 118 12 1 39 110 84 201 5.31e-27 102
MsG0680032333.01.T01 AT5G16990 49.138 116 13 1 39 108 76 191 3.95e-26 99.8
MsG0680032333.01.T01 AT3G03080 49.573 117 14 1 37 108 82 198 1.00e-25 98.6
MsG0680032333.01.T01 AT5G17000 47.414 116 15 1 39 108 78 193 2.05e-25 95.9
MsG0680032333.01.T01 AT5G16960 50.427 117 10 2 39 108 79 194 2.17e-25 97.8
MsG0680032333.01.T01 AT5G16960 50.427 117 10 2 39 108 79 194 2.17e-25 97.8
MsG0680032333.01.T01 AT1G26320 50.435 115 11 1 39 107 84 198 2.21e-25 97.8
MsG0680032333.01.T01 AT5G16970 45.833 120 19 1 37 110 76 195 5.12e-25 96.7
MsG0680032333.01.T01 AT5G17000 47.414 116 15 1 39 108 78 193 1.49e-24 95.5
MsG0680032333.01.T01 AT5G37940 47.899 119 14 2 39 110 86 203 2.69e-24 94.7
MsG0680032333.01.T01 AT5G38000 53.608 97 18 2 39 108 86 182 3.99e-24 94.0
MsG0680032333.01.T01 AT5G38000 47.009 117 14 2 39 108 86 201 9.84e-24 93.2
MsG0680032333.01.T01 AT5G38000 47.009 117 14 2 39 108 86 201 1.05e-23 93.2
MsG0680032333.01.T01 AT5G37980 47.009 117 14 2 39 108 86 201 4.61e-23 91.7
MsG0680032333.01.T01 AT3G59845 44.348 115 19 1 39 108 82 196 1.77e-21 87.0
MsG0680032333.01.T01 AT5G16980 92.683 41 3 0 68 108 47 87 9.14e-19 78.6
MsG0680032333.01.T01 AT5G16980 92.683 41 3 0 68 108 47 87 9.14e-19 78.6
MsG0680032333.01.T01 AT5G16980 92.683 41 3 0 68 108 113 153 1.66e-18 78.6
MsG0680032333.01.T01 AT3G59845 92.683 41 3 0 68 108 54 94 2.06e-18 77.4
MsG0680032333.01.T01 AT1G65560 39.669 121 25 1 36 108 1 121 4.90e-18 77.0
MsG0680032333.01.T01 AT1G65560 39.370 127 29 1 30 108 71 197 1.19e-17 76.6
MsG0680032333.01.T01 AT5G13530 51.471 68 31 1 1 66 788 855 1.04e-13 66.2
MsG0680032333.01.T01 AT5G13530 51.471 68 31 1 1 66 789 856 1.06e-13 66.2

Find 23 sgRNAs with CRISPR-Local

Find 102 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAAGGAAGGTGATTTAGTT+TGG 0.258281 6:+38744597 MsG0680032333.01.T01:CDS
AAAACAGTCTCTCCTTTCTT+AGG 0.292283 6:-38745523 None:intergenic
TGACAGGTAATAGCAGGTTT+TGG 0.297036 6:+38744539 MsG0680032333.01.T01:intron
TTGTTGTTTCAGCTGCTATA+TGG 0.322473 6:-38743842 None:intergenic
TAAGGAAGGTGATTTAGTTT+GGG 0.330541 6:+38744598 MsG0680032333.01.T01:CDS
ATCAGGACATCCTGATTATA+AGG 0.342738 6:+38744580 MsG0680032333.01.T01:CDS
AAATCACCTTCCTTATAATC+AGG 0.409142 6:-38744590 None:intergenic
TTGACTTCAATATCAGCATC+AGG 0.428134 6:-38743912 None:intergenic
GGTGCAGTCGGTCAACTTGT+TGG 0.439651 6:+38745562 MsG0680032333.01.T01:CDS
TAGTTTGGGGATTCTGCAAA+TGG 0.441207 6:+38744612 MsG0680032333.01.T01:CDS
GTGTCTAAAGTCCTTGAATC+AGG 0.445040 6:+38744563 MsG0680032333.01.T01:CDS
CTGACAGGATGTTATGTTGT+AGG 0.455877 6:+38745598 MsG0680032333.01.T01:CDS
TGTTATGTTGTAGGAAGTGC+TGG 0.456488 6:+38745607 MsG0680032333.01.T01:CDS
AATCAGGATGTCCTGATTCA+AGG 0.467897 6:-38744574 None:intergenic
CAGTAATGACAGGTAATAGC+AGG 0.469426 6:+38744533 MsG0680032333.01.T01:intron
GGTCAATTCGCTAAACTGAC+AGG 0.527324 6:+38745583 MsG0680032333.01.T01:CDS
TCAGCTGCCTCTGGTGCAGT+CGG 0.551705 6:+38745550 MsG0680032333.01.T01:CDS
AAGGAAGGTGATTTAGTTTG+GGG 0.554385 6:+38744599 MsG0680032333.01.T01:CDS
AAGTGCTGGAAGTAAAGAGA+AGG 0.561804 6:+38745621 MsG0680032333.01.T01:CDS
GAACTAGGCAGTCCTAAGAA+AGG 0.566199 6:+38745511 MsG0680032333.01.T01:intron
GGACATCCTGATTATAAGGA+AGG 0.575310 6:+38744584 MsG0680032333.01.T01:CDS
TGATACGTGAAAATCTGGAC+TGG 0.641275 6:+38743868 MsG0680032333.01.T01:CDS
AAGTTGACCGACTGCACCAG+AGG 0.660264 6:-38745557 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTCAATTTATATTGATTTA+TGG + Chr6:38744738-38744757 MsG0680032333.01.T01:intron 10.0%
!! AAATTTGACATATACTCAAA+AGG - Chr6:38744272-38744291 None:intergenic 20.0%
!! AATGAGAACATTAAAAACTT+AGG - Chr6:38745344-38745363 None:intergenic 20.0%
!! AATTTGACATATACTCAAAA+GGG - Chr6:38744271-38744290 None:intergenic 20.0%
!! AGATAAGAAAAGATACTTTA+AGG - Chr6:38744298-38744317 None:intergenic 20.0%
!! CAATTATGAAAAGAAGAAAA+TGG - Chr6:38745246-38745265 None:intergenic 20.0%
!! GATTTAAGAATAAAACTGAA+AGG - Chr6:38744433-38744452 None:intergenic 20.0%
!! TATCACTATCATTAAACAAT+AGG + Chr6:38745124-38745143 MsG0680032333.01.T01:intron 20.0%
!!! AATTGAAGGTTATTTAGAAT+TGG + Chr6:38745261-38745280 MsG0680032333.01.T01:intron 20.0%
!!! AGAAAATTTTTGACTGAAAT+TGG - Chr6:38744002-38744021 None:intergenic 20.0%
!!! TATAATTTTTCAGTAATGAC+AGG + Chr6:38744523-38744542 MsG0680032333.01.T01:intron 20.0%
!!! TTTCTTCTTTTCATAATTGA+AGG + Chr6:38745247-38745266 MsG0680032333.01.T01:intron 20.0%
!!! TTTTGTTTAATGAGTAAGTT+AGG + Chr6:38744840-38744859 MsG0680032333.01.T01:intron 20.0%
! AAAAATGATACGTGAAAATC+TGG + Chr6:38743863-38743882 MsG0680032333.01.T01:CDS 25.0%
! CATTAAACAATAGGTATAGT+TGG + Chr6:38745133-38745152 MsG0680032333.01.T01:intron 25.0%
! GAAAAGAAGAAAATGGAAAA+GGG - Chr6:38745239-38745258 None:intergenic 25.0%
! TCTCAGCAAATTAAAGAAAT+TGG + Chr6:38744384-38744403 MsG0680032333.01.T01:intron 25.0%
! TGAAAAGAAGAAAATGGAAA+AGG - Chr6:38745240-38745259 None:intergenic 25.0%
! TTGTATCAATAAAACTTGCA+GGG + Chr6:38745045-38745064 MsG0680032333.01.T01:intron 25.0%
! TTTGTATCAATAAAACTTGC+AGG + Chr6:38745044-38745063 MsG0680032333.01.T01:intron 25.0%
!!! TGAAAAGTATTTGAGATGAA+GGG - Chr6:38744655-38744674 None:intergenic 25.0%
!!! TTGAAAAGTATTTGAGATGA+AGG - Chr6:38744656-38744675 None:intergenic 25.0%
AAATCACCTTCCTTATAATC+AGG - Chr6:38744593-38744612 None:intergenic 30.0%
AACTAAAACAGTACCAAACA+TGG + Chr6:38744037-38744056 MsG0680032333.01.T01:intron 30.0%
ATAAGGAAGGTGATTTAGTT+TGG + Chr6:38744597-38744616 MsG0680032333.01.T01:CDS 30.0%
ATGAATCTTCCATGACAAAA+TGG - Chr6:38745170-38745189 None:intergenic 30.0%
ATGTTCATGTCTGATTCTTT+AGG - Chr6:38744113-38744132 None:intergenic 30.0%
CAAACACTAATAATCAGCTA+CGG - Chr6:38744819-38744838 None:intergenic 30.0%
CAGTATCAATGTAGAGAAAA+TGG - Chr6:38745082-38745101 None:intergenic 30.0%
GTGAGCTTATGACTTAAATA+TGG - Chr6:38743941-38743960 None:intergenic 30.0%
! AAGCTTTAACTTACAGATTG+AGG - Chr6:38744238-38744257 None:intergenic 30.0%
! ACTTTTCAAAATTGAGCACA+CGG + Chr6:38744667-38744686 MsG0680032333.01.T01:intron 30.0%
! AGCTTTAACTTACAGATTGA+GGG - Chr6:38744237-38744256 None:intergenic 30.0%
! GTTAAAAAAGCACAACAGAA+TGG - Chr6:38745429-38745448 None:intergenic 30.0%
! TAAGGAAGGTGATTTAGTTT+GGG + Chr6:38744598-38744617 MsG0680032333.01.T01:CDS 30.0%
! TTGCATTTTTCTTTGAACAC+AGG + Chr6:38745454-38745473 MsG0680032333.01.T01:intron 30.0%
!! AAATGGAAAAGGGTTGATAA+AGG - Chr6:38745229-38745248 None:intergenic 30.0%
!!! ATTTTTTAGCAGAACATCGT+TGG - Chr6:38744174-38744193 None:intergenic 30.0%
AAAACAGTCTCTCCTTTCTT+AGG - Chr6:38745526-38745545 None:intergenic 35.0%
ATCAGGACATCCTGATTATA+AGG + Chr6:38744580-38744599 MsG0680032333.01.T01:CDS 35.0%
ATTACTCTTAACCTTCCACA+AGG + Chr6:38744146-38744165 MsG0680032333.01.T01:intron 35.0%
ATTCCAGTATAGTAGGAAAG+TGG - Chr6:38744698-38744717 None:intergenic 35.0%
CAAAGAAAACCAATACACGA+AGG - Chr6:38745028-38745047 None:intergenic 35.0%
CAGTCCTATTTATACTGCAT+AGG - Chr6:38744923-38744942 None:intergenic 35.0%
GTGATTGTTGTATAGTTGTC+TGG + Chr6:38745195-38745214 MsG0680032333.01.T01:intron 35.0%
TAGCTGTTAGTGTAATCTGT+TGG + Chr6:38744893-38744912 MsG0680032333.01.T01:intron 35.0%
TCCTACTATACTGGAATTCT+CGG + Chr6:38744701-38744720 MsG0680032333.01.T01:intron 35.0%
TCCTATTTATACTGCATAGG+AGG - Chr6:38744920-38744939 None:intergenic 35.0%
TCCTCCTATGCAGTATAAAT+AGG + Chr6:38744916-38744935 MsG0680032333.01.T01:intron 35.0%
TTCCAGTATAGTAGGAAAGT+GGG - Chr6:38744697-38744716 None:intergenic 35.0%
TTGACTTCAATATCAGCATC+AGG - Chr6:38743915-38743934 None:intergenic 35.0%
TTGATTTCAGTCTCATATGC+AGG + Chr6:38744773-38744792 MsG0680032333.01.T01:intron 35.0%
! CAAATGGTAAGAGTACAGTT+TGG + Chr6:38744628-38744647 MsG0680032333.01.T01:intron 35.0%
! GCTTTAACTTACAGATTGAG+GGG - Chr6:38744236-38744255 None:intergenic 35.0%
! TCTGATTCTTTAGGAAAACC+AGG - Chr6:38744104-38744123 None:intergenic 35.0%
!! AAATTAGTTTGTGCTGAGCA+TGG + Chr6:38744320-38744339 MsG0680032333.01.T01:intron 35.0%
!! AAGGAAGGTGATTTAGTTTG+GGG + Chr6:38744599-38744618 MsG0680032333.01.T01:CDS 35.0%
!! TATGCTGGTTTCTTTGAACT+AGG + Chr6:38745496-38745515 MsG0680032333.01.T01:intron 35.0%
!! TTGTTGTTTCAGCTGCTATA+TGG - Chr6:38743845-38743864 None:intergenic 35.0%
AAACTAGCTCCTTCGTGTAT+TGG + Chr6:38745016-38745035 MsG0680032333.01.T01:intron 40.0%
AATCAGGATGTCCTGATTCA+AGG - Chr6:38744577-38744596 None:intergenic 40.0%
ACCGAGAATTCCAGTATAGT+AGG - Chr6:38744705-38744724 None:intergenic 40.0%
AGAGAAGTTATGCAGAGATG+TGG - Chr6:38745317-38745336 None:intergenic 40.0%
ATAGGTATAGTTGGCTGTAG+AGG + Chr6:38745142-38745161 MsG0680032333.01.T01:intron 40.0%
CACTAATAATCAGCTACGGT+TGG - Chr6:38744815-38744834 None:intergenic 40.0%
CAGTAATGACAGGTAATAGC+AGG + Chr6:38744533-38744552 MsG0680032333.01.T01:intron 40.0%
CCAGCATAAGCAGTTATTCA+TGG - Chr6:38745484-38745503 None:intergenic 40.0%
CCATGAATAACTGCTTATGC+TGG + Chr6:38745481-38745500 MsG0680032333.01.T01:intron 40.0%
CTGACAGGATGTTATGTTGT+AGG + Chr6:38745598-38745617 MsG0680032333.01.T01:CDS 40.0%
GAACAAGCAAGTGATTCTGA+AGG + Chr6:38744070-38744089 MsG0680032333.01.T01:intron 40.0%
GGACATCCTGATTATAAGGA+AGG + Chr6:38744584-38744603 MsG0680032333.01.T01:CDS 40.0%
GGTGTATGGAAGAGGATTAA+TGG - Chr6:38744215-38744234 None:intergenic 40.0%
GTTGGTGTATTCTGTTAGCT+AGG + Chr6:38744869-38744888 MsG0680032333.01.T01:intron 40.0%
TAGTTTGGGGATTCTGCAAA+TGG + Chr6:38744612-38744631 MsG0680032333.01.T01:CDS 40.0%
TGATACGTGAAAATCTGGAC+TGG + Chr6:38743868-38743887 MsG0680032333.01.T01:CDS 40.0%
! ACAGGTAATAGCAGGTTTTG+GGG + Chr6:38744541-38744560 MsG0680032333.01.T01:intron 40.0%
! ATATGCAGGCCTTATCTGTT+AGG + Chr6:38744787-38744806 MsG0680032333.01.T01:intron 40.0%
! GACAGGTAATAGCAGGTTTT+GGG + Chr6:38744540-38744559 MsG0680032333.01.T01:intron 40.0%
! GAGTAAGTTAGGTTAGCTGT+TGG + Chr6:38744851-38744870 MsG0680032333.01.T01:intron 40.0%
! GTAGAGGATCCATTTTGTCA+TGG + Chr6:38745158-38745177 MsG0680032333.01.T01:intron 40.0%
! GTGTCTAAAGTCCTTGAATC+AGG + Chr6:38744563-38744582 MsG0680032333.01.T01:CDS 40.0%
! TGACAGGTAATAGCAGGTTT+TGG + Chr6:38744539-38744558 MsG0680032333.01.T01:intron 40.0%
! TGTTATGTTGTAGGAAGTGC+TGG + Chr6:38745607-38745626 MsG0680032333.01.T01:CDS 40.0%
!! AAGTGCTGGAAGTAAAGAGA+AGG + Chr6:38745621-38745640 MsG0680032333.01.T01:CDS 40.0%
!! GACAGTCTTGTTGCAGAATT+AGG + Chr6:38744942-38744961 MsG0680032333.01.T01:intron 40.0%
AGAACATCGTTGGAACCTTG+TGG - Chr6:38744164-38744183 None:intergenic 45.0%
GAACTAGGCAGTCCTAAGAA+AGG + Chr6:38745511-38745530 MsG0680032333.01.T01:intron 45.0%
GAGTATACGCTAGTGAGAAG+AGG + Chr6:38744993-38745012 MsG0680032333.01.T01:intron 45.0%
GGTCAATTCGCTAAACTGAC+AGG + Chr6:38745583-38745602 MsG0680032333.01.T01:CDS 45.0%
GTCCCACTTTCCTACTATAC+TGG + Chr6:38744692-38744711 MsG0680032333.01.T01:intron 45.0%
TACCAAACATGGCACAAGTG+AGG + Chr6:38744048-38744067 MsG0680032333.01.T01:intron 45.0%
TTCCTCACTTGTGCCATGTT+TGG - Chr6:38744053-38744072 None:intergenic 45.0%
! ATTCTGAAGGACTATGTGCC+TGG + Chr6:38744083-38744102 MsG0680032333.01.T01:intron 45.0%
! CGGTTGGTTCCTAACAGATA+AGG - Chr6:38744799-38744818 None:intergenic 45.0%
! CTTACAGATTGAGGGGTGTA+TGG - Chr6:38744229-38744248 None:intergenic 45.0%
!! GTTTTTGTTTCAGCTGCCTC+TGG + Chr6:38745541-38745560 MsG0680032333.01.T01:CDS 45.0%
!! AAAATAACAAATAATATAAA+AGG - Chr6:38743975-38743994 None:intergenic 5.0%
CATCGTTGGAACCTTGTGGA+AGG - Chr6:38744160-38744179 None:intergenic 50.0%
! GATTGAGGGGTGTATGGAAG+AGG - Chr6:38744223-38744242 None:intergenic 50.0%
AAGTTGACCGACTGCACCAG+AGG - Chr6:38745560-38745579 None:intergenic 55.0%
GGTGCAGTCGGTCAACTTGT+TGG + Chr6:38745562-38745581 MsG0680032333.01.T01:CDS 55.0%
TCAGCTGCCTCTGGTGCAGT+CGG + Chr6:38745550-38745569 MsG0680032333.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr6 gene 38743819 38745654 38743819 ID=MsG0680032333.01;Name=MsG0680032333.01
Chr6 mRNA 38743819 38745654 38743819 ID=MsG0680032333.01.T01;Parent=MsG0680032333.01;Name=MsG0680032333.01.T01;_AED=0.49;_eAED=0.49;_QI=0|0|0|0.66|1|1|3|0|110
Chr6 exon 38743819 38743929 38743819 ID=MsG0680032333.01.T01:exon:21056;Parent=MsG0680032333.01.T01
Chr6 exon 38744545 38744633 38744545 ID=MsG0680032333.01.T01:exon:21057;Parent=MsG0680032333.01.T01
Chr6 exon 38745522 38745654 38745522 ID=MsG0680032333.01.T01:exon:21058;Parent=MsG0680032333.01.T01
Chr6 CDS 38743819 38743929 38743819 ID=MsG0680032333.01.T01:cds;Parent=MsG0680032333.01.T01
Chr6 CDS 38744545 38744633 38744545 ID=MsG0680032333.01.T01:cds;Parent=MsG0680032333.01.T01
Chr6 CDS 38745522 38745654 38745522 ID=MsG0680032333.01.T01:cds;Parent=MsG0680032333.01.T01
Gene Sequence

>MsG0680032333.01.T01

GATGATGATGGTGATAATGCTTTCCATATAGCAGCTGAAACAACAAAAATGATACGTGAAAATCTGGACTGGTTGATTTTGATGCTATTGAATCCTGATGCTGATATTGAAGTAATAGCAGGTTTTGGGGTGTCTAAAGTCCTTGAATCAGGACATCCTGATTATAAGGAAGGTGATTTAGTTTGGGGATTCTGCAAATGTCCTAAGAAAGGAGAGACTGTTTTTGTTTCAGCTGCCTCTGGTGCAGTCGGTCAACTTGTTGGTCAATTCGCTAAACTGACAGGATGTTATGTTGTAGGAAGTGCTGGAAGTAAAGAGAAGGTATTTTTGTAA
Protein sequence

>MsG0680032333.01.T01

DDDGDNAFHIAAETTKMIRENLDWLILMLLNPDADIEVIAGFGVSKVLESGHPDYKEGDLVWGFCKCPKKGETVFVSAASGAVGQLVGQFAKLTGCYVVGSAGSKEKVFL*