AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene31815

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31815.t1 MTR_1g028480 80.435 92 18 0 81 172 19 110 1.66e-50 158
MS.gene31815.t1 MTR_1g029070 51.899 158 75 1 1 157 1 158 1.13e-45 148
MS.gene31815.t1 MTR_1g039040 62.222 90 34 0 50 139 5 94 4.47e-38 129
MS.gene31815.t1 MTR_7g061270 40.909 132 65 2 44 173 17 137 3.47e-34 118
MS.gene31815.t1 MTR_7g100650 40.909 132 65 2 44 173 17 137 5.19e-34 118
MS.gene31815.t1 MTR_8g091720 53.846 91 42 0 49 139 26 116 6.54e-34 119
MS.gene31815.t1 MTR_4g133952 47.500 120 59 2 21 139 30 146 1.05e-33 119
MS.gene31815.t1 MTR_3g058980 43.571 140 70 4 29 164 2 136 5.19e-33 116
MS.gene31815.t1 MTR_2g026710 43.590 117 59 1 32 148 5 114 1.23e-32 114
MS.gene31815.t1 MTR_5g095740 52.222 90 43 0 50 139 22 111 1.47e-32 115
MS.gene31815.t1 MTR_1g072790 51.648 91 44 0 49 139 27 117 2.78e-32 114
MS.gene31815.t1 MTR_4g133938 45.872 109 54 1 32 140 5 108 1.97e-31 110
MS.gene31815.t1 MTR_8g093920 45.000 100 55 0 50 149 39 138 9.93e-30 108
MS.gene31815.t1 MTR_4g119500 47.778 90 47 0 50 139 21 110 1.48e-28 103
MS.gene31815.t1 MTR_0392s0020 47.778 90 47 0 50 139 17 106 1.69e-28 103
MS.gene31815.t1 MTR_1g088860 45.263 95 52 0 50 144 35 129 9.70e-27 100
MS.gene31815.t1 MTR_1g029100 47.500 80 42 0 52 131 3 82 2.00e-22 86.3
MS.gene31815.t1 MTR_1g083070 41.379 87 51 0 53 139 6 92 2.06e-21 84.7
MS.gene31815.t1 MTR_5g095900 40.000 85 51 0 56 140 21 105 1.34e-17 76.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31815.t1 AT1G21970 53.846 91 42 0 49 139 57 147 4.77e-34 120
MS.gene31815.t1 AT2G38880 45.000 120 55 1 50 169 20 128 6.89e-34 117
MS.gene31815.t1 AT4G14540 52.747 91 43 0 49 139 19 109 7.46e-34 117
MS.gene31815.t1 AT2G38880 45.000 120 55 1 50 169 20 128 8.08e-34 117
MS.gene31815.t1 AT2G38880 45.000 120 55 1 50 169 20 128 8.08e-34 117
MS.gene31815.t1 AT2G38880 45.000 120 55 1 50 169 20 128 8.08e-34 117
MS.gene31815.t1 AT2G38880 45.000 120 53 1 50 169 20 126 1.28e-33 116
MS.gene31815.t1 AT5G47670 53.846 91 42 0 49 139 27 117 1.99e-33 117
MS.gene31815.t1 AT5G47670 54.444 90 41 0 50 139 57 146 2.96e-33 118
MS.gene31815.t1 AT5G47670 54.444 90 41 0 50 139 57 146 2.96e-33 118
MS.gene31815.t1 AT2G38880 41.353 133 66 1 49 169 19 151 6.38e-32 112
MS.gene31815.t1 AT2G38880 41.353 133 66 1 49 169 19 151 6.38e-32 112
MS.gene31815.t1 AT2G38880 50.000 92 46 0 49 140 19 110 8.59e-32 110
MS.gene31815.t1 AT5G47640 50.549 91 45 0 50 140 26 116 1.07e-31 113
MS.gene31815.t1 AT3G53340 42.735 117 56 1 50 166 28 133 1.97e-31 112
MS.gene31815.t1 AT3G53340 42.735 117 56 1 50 166 28 133 1.97e-31 112
MS.gene31815.t1 AT2G37060 43.590 117 62 2 26 139 3 118 2.77e-31 111
MS.gene31815.t1 AT2G37060 43.590 117 62 2 26 139 3 118 2.77e-31 111
MS.gene31815.t1 AT2G37060 43.590 117 62 2 26 139 3 118 2.77e-31 111
MS.gene31815.t1 AT3G53340 49.451 91 46 0 49 139 27 117 6.54e-31 108
MS.gene31815.t1 AT2G38880 48.421 95 49 0 49 143 19 113 1.06e-30 109
MS.gene31815.t1 AT2G38880 48.421 95 49 0 49 143 19 113 1.06e-30 109
MS.gene31815.t1 AT2G38880 48.421 95 49 0 49 143 19 113 1.06e-30 109
MS.gene31815.t1 AT3G53340 49.451 91 46 0 49 139 27 117 1.22e-29 106
MS.gene31815.t1 AT3G53340 49.451 91 46 0 49 139 27 117 1.22e-29 106
MS.gene31815.t1 AT2G13570 48.352 91 47 0 50 140 35 125 4.34e-29 107
MS.gene31815.t1 AT2G47810 46.154 91 49 0 49 139 49 139 3.28e-26 98.2
MS.gene31815.t1 AT1G09030 41.573 89 52 0 51 139 3 91 2.49e-23 90.1

Find 32 sgRNAs with CRISPR-Local

Find 67 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACAGCGAACGATTTAATA+TGG 0.243997 1.1:-14241094 MS.gene31815:CDS
TTGTCGAATCCAATTGTAAT+TGG 0.273848 1.1:+14240978 None:intergenic
AGGTAAATGCTGCTTAGTTC+CGG 0.363825 1.1:+14241304 None:intergenic
ATATGGGCAATGGATAGTTT+AGG 0.379912 1.1:-14241077 MS.gene31815:CDS
AATGACATGCCAATTACAAT+TGG 0.392076 1.1:-14240987 MS.gene31815:CDS
GTGTTGAACGACTAAGGTTA+AGG 0.408775 1.1:+14242053 None:intergenic
CCACATAGTTACGATACCTT+TGG 0.434158 1.1:+14241018 None:intergenic
TTGATTGTGTTGAACGACTA+AGG 0.437171 1.1:+14242047 None:intergenic
ACAATTGGATTCGACAATGA+TGG 0.452168 1.1:-14240972 MS.gene31815:CDS
TGTTGAACGACTAAGGTTAA+GGG 0.465410 1.1:+14242054 None:intergenic
CATAGTTACGATACCTTTGG+AGG 0.481766 1.1:+14241021 None:intergenic
CTTAAAAGTAGTATGGAGAA+TGG 0.482031 1.1:-14242085 None:intergenic
TACAGCGAACGATTTAATAT+GGG 0.483846 1.1:-14241093 MS.gene31815:CDS
ATTCTTGTCAATTGCACGAT+GGG 0.485603 1.1:+14241254 None:intergenic
CGTTCAACACAATCAAGCTC+TGG 0.512773 1.1:-14242040 MS.gene31815:intron
AACGACTAAGGTTAAGGGAC+GGG 0.520234 1.1:+14242059 None:intergenic
AATTGACTCTTTAGCACCAT+CGG 0.524561 1.1:+14241196 None:intergenic
GGATTCGACAATGATGGATC+GGG 0.529726 1.1:-14240966 MS.gene31815:CDS
TGGATTCGACAATGATGGAT+CGG 0.535072 1.1:-14240967 MS.gene31815:CDS
GGTGCTAGTGGCTCGAACAA+TGG 0.541308 1.1:-14240945 MS.gene31815:CDS
GAACGATTTAATATGGGCAA+TGG 0.552208 1.1:-14241087 MS.gene31815:CDS
TTTACCTAAAACAAAGAATG+AGG 0.564286 1.1:-14241288 MS.gene31815:CDS
AATGATGGATCGGGTGCTAG+TGG 0.570953 1.1:-14240957 MS.gene31815:CDS
AACAACAATAACTTTCACAC+CGG 0.626294 1.1:-14241323 MS.gene31815:CDS
TTTGGAGGTAAAAGACTAGA+GGG 0.630419 1.1:+14241036 None:intergenic
CATGAGCATCATCACGAGTG+AGG 0.643678 1.1:-14241153 MS.gene31815:CDS
CCAAAGGTATCGTAACTATG+TGG 0.644573 1.1:-14241018 MS.gene31815:CDS
GAACGACTAAGGTTAAGGGA+CGG 0.644933 1.1:+14242058 None:intergenic
GATTCTTGTCAATTGCACGA+TGG 0.645811 1.1:+14241253 None:intergenic
CTTTGGAGGTAAAAGACTAG+AGG 0.649236 1.1:+14241035 None:intergenic
TCACGAGTGAGGCAAGCGAG+CGG 0.677839 1.1:-14241142 MS.gene31815:CDS
TGCAATTGACAAGAATCATG+CGG 0.689401 1.1:-14241247 MS.gene31815:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAAGAATTATTATTTTTAAA+AGG - chr1.1:14241061-14241080 MS.gene31815:CDS 10.0%
!!! CTTATATTTTTTTTTTTTGA+GGG - chr1.1:14241275-14241294 MS.gene31815:CDS 10.0%
!! AAACAAAGATCTAAAAAATA+AGG - chr1.1:14241462-14241481 MS.gene31815:intron 15.0%
!!! GCTTATATTTTTTTTTTTTG+AGG - chr1.1:14241274-14241293 MS.gene31815:CDS 15.0%
!!! GATTATTTTTGAGAAATAAG+AGG + chr1.1:14241042-14241061 None:intergenic 20.0%
! AAATGAGTCAAACAAAATTG+AGG - chr1.1:14241198-14241217 MS.gene31815:CDS 25.0%
! AATCGTATCTTCGTTATTAT+GGG - chr1.1:14241009-14241028 MS.gene31815:CDS 25.0%
! ATGAATTACCTACTTCAAAA+TGG + chr1.1:14241618-14241637 None:intergenic 25.0%
! TTTACCTAAAACAAAGAATG+AGG - chr1.1:14241708-14241727 MS.gene31815:intron 25.0%
!! TCAAACAAAATTGAGGTATT+TGG - chr1.1:14241205-14241224 MS.gene31815:CDS 25.0%
!!! TGTACAATTTTGGTTGTTTA+GGG + chr1.1:14240988-14241007 None:intergenic 25.0%
AACAACAATAACTTTCACAC+CGG - chr1.1:14241673-14241692 MS.gene31815:intron 30.0%
AATGACATGCCAATTACAAT+TGG - chr1.1:14242009-14242028 MS.gene31815:intron 30.0%
AGCAAAAAGTAAGTCAAAGA+AGG + chr1.1:14241257-14241276 None:intergenic 30.0%
CAATCGTATCTTCGTTATTA+TGG - chr1.1:14241008-14241027 MS.gene31815:CDS 30.0%
TAATGCCTTAAGAATCCAAT+GGG + chr1.1:14241422-14241441 None:intergenic 30.0%
TACAGCGAACGATTTAATAT+GGG - chr1.1:14241903-14241922 MS.gene31815:intron 30.0%
TTACAGCGAACGATTTAATA+TGG - chr1.1:14241902-14241921 MS.gene31815:intron 30.0%
TTGTCGAATCCAATTGTAAT+TGG + chr1.1:14242021-14242040 None:intergenic 30.0%
! ACAGACAGAGTATTCAATTA+TGG + chr1.1:14241162-14241181 None:intergenic 30.0%
! GATACGATTGTGTACAATTT+TGG + chr1.1:14240998-14241017 None:intergenic 30.0%
!! TCAAAGAAGGTTGATGTATT+TGG + chr1.1:14241244-14241263 None:intergenic 30.0%
!! TGTTACTTTGAAGAAGATTG+AGG - chr1.1:14241122-14241141 MS.gene31815:CDS 30.0%
!!! GTGTACAATTTTGGTTGTTT+AGG + chr1.1:14240989-14241008 None:intergenic 30.0%
!!! TTAGGTTTTGAAGTCTATGT+TGG - chr1.1:14241937-14241956 MS.gene31815:intron 30.0%
ACAATTGGATTCGACAATGA+TGG - chr1.1:14242024-14242043 MS.gene31815:intron 35.0%
ATATGGGCAATGGATAGTTT+AGG - chr1.1:14241919-14241938 MS.gene31815:intron 35.0%
ATTCTTGTCAATTGCACGAT+GGG + chr1.1:14241745-14241764 None:intergenic 35.0%
CTTGTTGAACATCTTGTACA+GGG - chr1.1:14241500-14241519 MS.gene31815:intron 35.0%
GAACGATTTAATATGGGCAA+TGG - chr1.1:14241909-14241928 MS.gene31815:intron 35.0%
GTAATGCCTTAAGAATCCAA+TGG + chr1.1:14241423-14241442 None:intergenic 35.0%
TACTTCCCATTGGATTCTTA+AGG - chr1.1:14241414-14241433 MS.gene31815:intron 35.0%
TGCAATTGACAAGAATCATG+CGG - chr1.1:14241749-14241768 MS.gene31815:intron 35.0%
TGTTGAACGACTAAGGTTAA+GGG + chr1.1:14240945-14240964 None:intergenic 35.0%
TTGATTGTGTTGAACGACTA+AGG + chr1.1:14240952-14240971 None:intergenic 35.0%
TTTGGAGGTAAAAGACTAGA+GGG + chr1.1:14241963-14241982 None:intergenic 35.0%
! AATTGACTCTTTAGCACCAT+CGG + chr1.1:14241803-14241822 None:intergenic 35.0%
! ACTTGTTGAACATCTTGTAC+AGG - chr1.1:14241499-14241518 MS.gene31815:intron 35.0%
! TAAGGCATTACTTTCCTCTT+TGG - chr1.1:14241432-14241451 MS.gene31815:intron 35.0%
!! AATCCAATGGGAAGTATTCA+AGG + chr1.1:14241410-14241429 None:intergenic 35.0%
!! ATCCAATGGGAAGTATTCAA+GGG + chr1.1:14241409-14241428 None:intergenic 35.0%
!! TTACTTAGCTCTGATCTGTT+TGG - chr1.1:14241586-14241605 MS.gene31815:intron 35.0%
!!! GGATTAGTCCATTTTGAAGT+AGG - chr1.1:14241607-14241626 MS.gene31815:intron 35.0%
!!! TGCTCCTCATTCTTTGTTTT+AGG + chr1.1:14241715-14241734 None:intergenic 35.0%
CATAGTTACGATACCTTTGG+AGG + chr1.1:14241978-14241997 None:intergenic 40.0%
CCACATAGTTACGATACCTT+TGG + chr1.1:14241981-14242000 None:intergenic 40.0%
GATTCTTGTCAATTGCACGA+TGG + chr1.1:14241746-14241765 None:intergenic 40.0%
GTGTTGAACGACTAAGGTTA+AGG + chr1.1:14240946-14240965 None:intergenic 40.0%
TCGCATGTAAAAATCTCCGA+TGG - chr1.1:14241784-14241803 MS.gene31815:intron 40.0%
TTCCCTTGAATACTTCCCAT+TGG - chr1.1:14241404-14241423 MS.gene31815:intron 40.0%
TTTGTTTCACACGTCCAAAG+AGG + chr1.1:14241449-14241468 None:intergenic 40.0%
! AGGTAAATGCTGCTTAGTTC+CGG + chr1.1:14241695-14241714 None:intergenic 40.0%
! ATCGGAGATTTTTACATGCG+AGG + chr1.1:14241785-14241804 None:intergenic 40.0%
! CTTTGGAGGTAAAAGACTAG+AGG + chr1.1:14241964-14241983 None:intergenic 40.0%
! TCGGAGATTTTTACATGCGA+GGG + chr1.1:14241784-14241803 None:intergenic 40.0%
!! CCAAAGGTATCGTAACTATG+TGG - chr1.1:14241978-14241997 MS.gene31815:intron 40.0%
!! CTCTAGTCTTTTACCTCCAA+AGG - chr1.1:14241962-14241981 MS.gene31815:intron 40.0%
!! TGGATTCGACAATGATGGAT+CGG - chr1.1:14242029-14242048 MS.gene31815:intron 40.0%
AACGACTAAGGTTAAGGGAC+GGG + chr1.1:14240940-14240959 None:intergenic 45.0%
CGTTCAACACAATCAAGCTC+TGG - chr1.1:14240956-14240975 MS.gene31815:CDS 45.0%
GAACGACTAAGGTTAAGGGA+CGG + chr1.1:14240941-14240960 None:intergenic 45.0%
!! GGATTCGACAATGATGGATC+GGG - chr1.1:14242030-14242049 MS.gene31815:intron 45.0%
!!! TAATATTGTATATTTTTTTT+TGG + chr1.1:14241343-14241362 None:intergenic 5.0%
CATGAGCATCATCACGAGTG+AGG - chr1.1:14241843-14241862 MS.gene31815:intron 50.0%
!! AATGATGGATCGGGTGCTAG+TGG - chr1.1:14242039-14242058 MS.gene31815:intron 50.0%
GGTGCTAGTGGCTCGAACAA+TGG - chr1.1:14242051-14242070 MS.gene31815:CDS 55.0%
TCACGAGTGAGGCAAGCGAG+CGG - chr1.1:14241854-14241873 MS.gene31815:intron 60.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 14240923 14242095 14240923 ID=MS.gene31815
chr1.1 mRNA 14240923 14242095 14240923 ID=MS.gene31815.t1;Parent=MS.gene31815
chr1.1 exon 14242041 14242095 14242041 ID=MS.gene31815.t1.exon1;Parent=MS.gene31815.t1
chr1.1 CDS 14242041 14242095 14242041 ID=cds.MS.gene31815.t1;Parent=MS.gene31815.t1
chr1.1 exon 14240923 14241389 14240923 ID=MS.gene31815.t1.exon2;Parent=MS.gene31815.t1
chr1.1 CDS 14240923 14241389 14240923 ID=cds.MS.gene31815.t1;Parent=MS.gene31815.t1
Gene Sequence

>MS.gene31815

ATGGAGAATGGAATCCCGTCCCTTAACCTTAGTCGTTCAACACAATCAAGCTCTGGTAAGCACCCTAAACAACCAAAATTGTACACAATCGTATCTTCGTTATTATGGGTTTAGATCCTCTTATTTCTCAAAAATAATCAAGAATTATTATTTTTAAAAGGAGTGATGATACATATTTTAAATATTCTTTTTTTTTTGTTGTTACTTTGAAGAAGATTGAGGAATAAAGATGATCTCCATAATTGAATACTCTGTCTGTTACAAAAAATAAACAAAAATGAGTCAAACAAAATTGAGGTATTTGGTTTAAAATTTAGTCCAAATACATCAACCTTCTTTGACTTACTTTTTGCTTATATTTTTTTTTTTTGAGGGATGCTTATATTTTGTTATAGAGTCTTATTATTATTTTTATTACCAAAAAAAAATATACAATATTATTTCAATTTTTTTACTAGTATTTTTCTTTGTTTATTTGTTATTCCCTTGAATACTTCCCATTGGATTCTTAAGGCATTACTTTCCTCTTTGGACGTGTGAAACAAAGATCTAAAAAATAAGGTTTGATTTTGCATCACTTGTTGAACATCTTGTACAGGGATAAATATTTGATTTTTGAATGAAATTTTCAATCATAAATTACAAAACTATTTTTTGTCTAAATTACTTAGCTCTGATCTGTTTGGATTAGTCCATTTTGAAGTAGGTAATTCATCAACAAACATTGAATCTCAAAGCAACGTCGACAACAACAACAATAACTTTCACACCGGAACTAAGCAGCATTTACCTAAAACAAAGAATGAGGAGCAGCACATTCCCATCGTGCAATTGACAAGAATCATGCGGCGTGCTCTTCCCTCGCATGTAAAAATCTCCGATGGTGCTAAAGAGTCAATTCAATTGTGTTTATCTGAATTCATGAGCATCATCACGAGTGAGGCAAGCGAGCGGTGCAAGATAGAGCATCGAAAGATCGTTACAGCGAACGATTTAATATGGGCAATGGATAGTTTAGGTTTTGAAGTCTATGTTGGCCCTCTAGTCTTTTACCTCCAAAGGTATCGTAACTATGTGGCTCAGCTAAATGACATGCCAATTACAATTGGATTCGACAATGATGGATCGGGTGCTAGTGGCTCGAACAATGGCAGTGACAATGTTCACCATTGA
Protein sequence

>MS.gene31815.t1

MENGIPSLNLSRSTQSSSGNSSTNIESQSNVDNNNNNFHTGTKQHLPKTKNEEQHIPIVQLTRIMRRALPSHVKISDGAKESIQLCLSEFMSIITSEASERCKIEHRKIVTANDLIWAMDSLGFEVYVGPLVFYLQRYRNYVAQLNDMPITIGFDNDGSGASGSNNGSDNVHH