AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene000245

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000245.t1 MTR_8g017210 64.835 91 32 0 29 119 62 152 8.16e-42 144
MS.gene000245.t1 MTR_1g016010 60.952 105 35 2 21 119 28 132 1.05e-41 142
MS.gene000245.t1 MTR_2g099990 62.637 91 34 0 29 119 46 136 4.04e-41 141
MS.gene000245.t1 MTR_2g093960 63.043 92 33 1 29 119 32 123 5.05e-40 137
MS.gene000245.t1 MTR_1g094115 59.341 91 37 0 29 119 47 137 1.62e-39 138
MS.gene000245.t1 MTR_1g112270 60.227 88 35 0 32 119 47 134 1.12e-38 136
MS.gene000245.t1 MTR_4g059870 52.459 122 51 2 5 119 8 129 2.90e-38 134
MS.gene000245.t1 MTR_1g112270 61.250 80 31 0 40 119 66 145 7.30e-36 129
MS.gene000245.t1 MTR_2g090745 62.651 83 31 0 37 119 15 97 2.05e-34 123
MS.gene000245.t1 MTR_2g017720 61.250 80 31 0 39 118 323 402 5.04e-31 114
MS.gene000245.t1 MTR_2g099990 62.687 67 25 0 53 119 1 67 1.42e-29 109
MS.gene000245.t1 MTR_1g094115 58.730 63 26 0 57 119 58 120 7.91e-26 100
MS.gene000245.t1 MTR_3g102000 41.584 101 52 2 25 118 2 102 3.00e-18 77.0
MS.gene000245.t1 MTR_5g030560 64.444 45 16 0 39 83 16 60 8.00e-17 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000245.t1 AT1G68130 89.899 99 9 1 22 119 34 132 4.58e-61 192
MS.gene000245.t1 AT1G25250 88.000 100 10 1 22 119 26 125 6.83e-61 191
MS.gene000245.t1 AT2G01940 83.654 104 12 2 21 119 32 135 6.78e-60 190
MS.gene000245.t1 AT2G01940 83.654 104 12 2 21 119 32 135 7.45e-60 190
MS.gene000245.t1 AT1G25250 90.361 83 6 1 39 119 20 102 2.80e-50 163
MS.gene000245.t1 AT5G66730 63.366 101 36 1 20 119 22 122 2.16e-41 142
MS.gene000245.t1 AT3G50700 62.766 94 35 0 26 119 31 124 2.82e-41 142
MS.gene000245.t1 AT3G13810 61.458 96 36 1 25 119 47 142 4.83e-40 139
MS.gene000245.t1 AT3G13810 61.458 96 36 1 25 119 66 161 5.11e-40 139
MS.gene000245.t1 AT3G13810 61.458 96 36 1 25 119 66 161 5.11e-40 139
MS.gene000245.t1 AT3G13810 61.458 96 36 1 25 119 61 156 6.11e-40 139
MS.gene000245.t1 AT2G02080 59.341 91 37 0 29 119 54 144 6.77e-40 139
MS.gene000245.t1 AT2G02080 59.341 91 37 0 29 119 54 144 6.77e-40 139
MS.gene000245.t1 AT2G02080 59.341 91 37 0 29 119 54 144 6.77e-40 139
MS.gene000245.t1 AT2G02080 59.341 91 37 0 29 119 54 144 6.77e-40 139
MS.gene000245.t1 AT1G55110 62.105 95 35 1 26 119 60 154 4.03e-39 136
MS.gene000245.t1 AT1G55110 62.105 95 35 1 26 119 60 154 4.03e-39 136
MS.gene000245.t1 AT1G55110 62.105 95 35 1 26 119 60 154 4.03e-39 136
MS.gene000245.t1 AT1G03840 62.637 91 34 0 29 119 41 131 5.27e-39 136
MS.gene000245.t1 AT5G03150 60.417 96 37 1 25 119 49 144 8.63e-39 135
MS.gene000245.t1 AT1G14580 57.143 91 39 0 29 119 53 143 1.01e-38 135
MS.gene000245.t1 AT1G14580 57.143 91 39 0 29 119 53 143 1.01e-38 135
MS.gene000245.t1 AT1G14580 57.143 91 39 0 29 119 67 157 1.28e-38 135
MS.gene000245.t1 AT2G02070 58.242 91 38 0 29 119 52 142 5.70e-38 134
MS.gene000245.t1 AT2G02070 58.242 91 38 0 29 119 52 142 5.70e-38 134
MS.gene000245.t1 AT5G60470 50.435 115 51 2 6 119 26 135 7.24e-38 132
MS.gene000245.t1 AT5G60470 50.435 115 51 2 6 119 22 131 7.69e-38 132
MS.gene000245.t1 AT3G45260 59.783 92 36 1 29 119 39 130 1.16e-37 132
MS.gene000245.t1 AT3G45260 59.783 92 36 1 29 119 39 130 1.16e-37 132
MS.gene000245.t1 AT4G02670 63.043 92 33 1 29 119 53 144 1.61e-37 130
MS.gene000245.t1 AT4G02670 63.043 92 33 1 29 119 55 146 1.79e-37 130
MS.gene000245.t1 AT5G44160 60.440 91 36 0 29 119 37 127 7.46e-37 130
MS.gene000245.t1 AT1G03840 60.440 91 34 1 29 119 41 129 1.35e-35 127
MS.gene000245.t1 AT3G13810 64.198 81 28 1 40 119 68 148 5.60e-35 125
MS.gene000245.t1 AT3G13810 64.198 81 28 1 40 119 82 162 5.86e-35 125
MS.gene000245.t1 AT5G44160 61.728 81 31 0 39 119 8 88 1.40e-33 120
MS.gene000245.t1 AT5G60470 58.025 81 33 1 40 119 46 126 3.59e-32 117
MS.gene000245.t1 AT2G02080 56.716 67 29 0 53 119 1 67 6.49e-28 105
MS.gene000245.t1 AT2G02080 56.716 67 29 0 53 119 1 67 6.49e-28 105
MS.gene000245.t1 AT1G68130 89.130 46 4 1 75 119 1 46 3.52e-23 92.0
MS.gene000245.t1 AT1G25250 85.106 47 5 1 75 119 1 47 2.07e-22 89.4
MS.gene000245.t1 AT2G01940 82.609 46 7 1 75 119 1 46 3.28e-22 89.7

Find 25 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTATGCATCTGTAAATTT+TGG 0.191998 6.1:-65611011 None:intergenic
GCACTTCTTCCACTAATAAA+AGG 0.270599 6.1:+65610527 MS.gene000245:CDS
CATGATCCTTGTCATGCTTT+AGG 0.279693 6.1:+65611126 MS.gene000245:CDS
TTTGGTCCCTTTGGAATCCT+TGG 0.356941 6.1:-65610993 None:intergenic
AGAGACACCACTTCTGCATC+TGG 0.419684 6.1:-65610919 None:intergenic
TCTCTCTTCAATAGCTTCCA+TGG 0.428102 6.1:-65611048 None:intergenic
TGGTGCAAACAAGTTGGTTC+AGG 0.440705 6.1:-65611105 None:intergenic
AGAAGACAAACCTGGTGTTC+CGG 0.450569 6.1:-65610563 None:intergenic
CATGCTTTAGGTGATCTTGT+TGG 0.466169 6.1:+65611138 MS.gene000245:CDS
TCAGAAGATGGAAGTGAAGA+TGG 0.478640 6.1:-65610481 None:intergenic
GTATGTGAGATCTGCAACCA+AGG 0.515942 6.1:+65610976 MS.gene000245:CDS
AGAAGACCCGCCGGAACACC+AGG 0.530373 6.1:+65610553 MS.gene000245:CDS
CTAAAGCATGACAAGGATCA+TGG 0.532248 6.1:-65611125 None:intergenic
ATTTACAGATGCATAGAAGA+AGG 0.537823 6.1:+65611016 MS.gene000245:CDS
GATGCATAGAAGAAGGCATA+AGG 0.546337 6.1:+65611023 MS.gene000245:CDS
GACAAACCTGGTGTTCCGGC+GGG 0.558405 6.1:-65610559 None:intergenic
AGATAAGCTATTAGCTAACA+TGG 0.580180 6.1:-65610458 None:intergenic
CTGCAACCAAGGATTCCAAA+GGG 0.607708 6.1:+65610987 MS.gene000245:CDS
GGATCATGGTGCAAACAAGT+TGG 0.608116 6.1:-65611111 None:intergenic
GAAGAAGGCATAAGGTACCA+TGG 0.614434 6.1:+65611031 MS.gene000245:CDS
AATAGATCCAGATGCAGAAG+TGG 0.615906 6.1:+65610912 MS.gene000245:intron
AGACAAACCTGGTGTTCCGG+CGG 0.621320 6.1:-65610560 None:intergenic
TCTGCAACCAAGGATTCCAA+AGG 0.641443 6.1:+65610986 MS.gene000245:CDS
AAAAGGAAAAGAAGACCCGC+CGG 0.646338 6.1:+65610544 MS.gene000245:CDS
AGATCACCTAAAGCATGACA+AGG 0.685132 6.1:-65611132 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATTTTTATTTTTTTGGTT+TGG + chr6.1:65610889-65610908 MS.gene000245:intron 10.0%
!! AAAAAACATGATTCAAGAAT+TGG - chr6.1:65610676-65610695 None:intergenic 20.0%
!!! TCATGTTTTTTTTGTTGTAT+TGG + chr6.1:65610685-65610704 MS.gene000245:intron 20.0%
!! AAAACTCTTTTTCTAACAAC+TGG - chr6.1:65611078-65611097 None:intergenic 25.0%
!! TCTTCTTTTCCTTTTATTAG+TGG - chr6.1:65610539-65610558 None:intergenic 25.0%
!! TTCTATGCATCTGTAAATTT+TGG - chr6.1:65611014-65611033 None:intergenic 25.0%
AAAAAGAAAGAGGATTTAGG+AGG - chr6.1:65610592-65610611 None:intergenic 30.0%
ATTTACAGATGCATAGAAGA+AGG + chr6.1:65611016-65611035 MS.gene000245:CDS 30.0%
! CCATTTTCATTGCAAGAAAA+AGG - chr6.1:65610508-65610527 None:intergenic 30.0%
! CCTTTTTCTTGCAATGAAAA+TGG + chr6.1:65610505-65610524 MS.gene000245:CDS 30.0%
! TCTGATTCCAACAATGTTTT+TGG - chr6.1:65610949-65610968 None:intergenic 30.0%
GCACTTCTTCCACTAATAAA+AGG + chr6.1:65610527-65610546 MS.gene000245:CDS 35.0%
GCGAAAAAGAAAGAGGATTT+AGG - chr6.1:65610595-65610614 None:intergenic 35.0%
TCTCTCACCAAAAACATTGT+TGG + chr6.1:65610939-65610958 MS.gene000245:CDS 35.0%
! GTTGAGATTTTCTGTAACAC+TGG - chr6.1:65610654-65610673 None:intergenic 35.0%
!! TCTGTAAATTTTGGTCCCTT+TGG - chr6.1:65611005-65611024 None:intergenic 35.0%
AATAGATCCAGATGCAGAAG+TGG + chr6.1:65610912-65610931 MS.gene000245:intron 40.0%
AGATCACCTAAAGCATGACA+AGG - chr6.1:65611135-65611154 None:intergenic 40.0%
CAAGAAAAAGGCTCAGAAGA+TGG - chr6.1:65610496-65610515 None:intergenic 40.0%
CATGATCCTTGTCATGCTTT+AGG + chr6.1:65611126-65611145 MS.gene000245:CDS 40.0%
CTAAAGCATGACAAGGATCA+TGG - chr6.1:65611128-65611147 None:intergenic 40.0%
TCAGAAGATGGAAGTGAAGA+TGG - chr6.1:65610484-65610503 None:intergenic 40.0%
TCTCTCTTCAATAGCTTCCA+TGG - chr6.1:65611051-65611070 None:intergenic 40.0%
! GATGCATAGAAGAAGGCATA+AGG + chr6.1:65611023-65611042 MS.gene000245:CDS 40.0%
!! ATCCTCTTTCTTTTTCGCAC+TGG + chr6.1:65610597-65610616 MS.gene000245:intron 40.0%
!! TCCTCTTTCTTTTTCGCACT+GGG + chr6.1:65610598-65610617 MS.gene000245:intron 40.0%
AAAAGGAAAAGAAGACCCGC+CGG + chr6.1:65610544-65610563 MS.gene000245:CDS 45.0%
ACCCAGTGCGAAAAAGAAAG+AGG - chr6.1:65610602-65610621 None:intergenic 45.0%
AGAAGACAAACCTGGTGTTC+CGG - chr6.1:65610566-65610585 None:intergenic 45.0%
CTGCAACCAAGGATTCCAAA+GGG + chr6.1:65610987-65611006 MS.gene000245:CDS 45.0%
GGATCATGGTGCAAACAAGT+TGG - chr6.1:65611114-65611133 None:intergenic 45.0%
GTATGTGAGATCTGCAACCA+AGG + chr6.1:65610976-65610995 MS.gene000245:CDS 45.0%
TCTGCAACCAAGGATTCCAA+AGG + chr6.1:65610986-65611005 MS.gene000245:CDS 45.0%
! GAAGAAGGCATAAGGTACCA+TGG + chr6.1:65611031-65611050 MS.gene000245:CDS 45.0%
!! CTTTCTTTTTCGCACTGGGT+CGG + chr6.1:65610602-65610621 MS.gene000245:intron 45.0%
!! TGGTGCAAACAAGTTGGTTC+AGG - chr6.1:65611108-65611127 None:intergenic 45.0%
!! TTTCTTTTTCGCACTGGGTC+GGG + chr6.1:65610603-65610622 MS.gene000245:intron 45.0%
!! TTTGGTCCCTTTGGAATCCT+TGG - chr6.1:65610996-65611015 None:intergenic 45.0%
!!! ATATTTTTTAAAAAATGATA+TGG + chr6.1:65610782-65610801 MS.gene000245:intron 5.0%
!!! TTGTTATATTTTTATTTTTT+TGG + chr6.1:65610884-65610903 MS.gene000245:intron 5.0%
AGAGACACCACTTCTGCATC+TGG - chr6.1:65610922-65610941 None:intergenic 50.0%
GGAGGAGAAGAAGACAAACC+TGG - chr6.1:65610574-65610593 None:intergenic 50.0%
AGACAAACCTGGTGTTCCGG+CGG - chr6.1:65610563-65610582 None:intergenic 55.0%
GACAAACCTGGTGTTCCGGC+GGG - chr6.1:65610562-65610581 None:intergenic 60.0%
AGAAGACCCGCCGGAACACC+AGG + chr6.1:65610553-65610572 MS.gene000245:CDS 65.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 65610460 65611159 65610460 ID=MS.gene000245
chr6.1 mRNA 65610460 65611159 65610460 ID=MS.gene000245.t1;Parent=MS.gene000245
chr6.1 exon 65610460 65610574 65610460 ID=MS.gene000245.t1.exon1;Parent=MS.gene000245.t1
chr6.1 CDS 65610460 65610574 65610460 ID=cds.MS.gene000245.t1;Parent=MS.gene000245.t1
chr6.1 exon 65610917 65611159 65610917 ID=MS.gene000245.t1.exon2;Parent=MS.gene000245.t1
chr6.1 CDS 65610917 65611159 65610917 ID=cds.MS.gene000245.t1;Parent=MS.gene000245.t1
Gene Sequence

>MS.gene000245

ATGTTAGCTAATAGCTTATCTCCATCTTCACTTCCATCTTCTGAGCCTTTTTCTTGCAATGAAAATGGCACTTCTTCCACTAATAAAAGGAAAAGAAGACCCGCCGGAACACCAGGTTTGTCTTCTTCTCCTCCTAAATCCTCTTTCTTTTTCGCACTGGGTCGGGTATCTTTCGTACTTCTAAACTCTAACCAGTGTTACAGAAAATCTCAACCAATTCTTGAATCATGTTTTTTTTGTTGTATTGGATTCGACTATCGTTCTCAAGTCTATAAAAAAAACATTTTTTTTTGACATGTTTTTTTCATTCTTTTGATTTATTATATTTTTTAAAAAATGATATGGTTGTTACTTATATGTTTATTTAATTCAATATGTATAGTTTTTTATAATTGTTTGATTTGATGCTAATTCTATAACTAAATTGTTATATTTTTATTTTTTTGGTTTGGAATAGATCCAGATGCAGAAGTGGTGTCTCTCTCACCAAAAACATTGTTGGAATCAGATCGTTATGTATGTGAGATCTGCAACCAAGGATTCCAAAGGGACCAAAATTTACAGATGCATAGAAGAAGGCATAAGGTACCATGGAAGCTATTGAAGAGAGAAACACCAGTTGTTAGAAAAAGAGTTTTTGTTTGTCCTGAACCAACTTGTTTGCACCATGATCCTTGTCATGCTTTAGGTGATCTTGTTG
Protein sequence

>MS.gene000245.t1

MLANSLSPSSLPSSEPFSCNENGTSSTNKRKRRPAGTPDPDAEVVSLSPKTLLESDRYVCEICNQGFQRDQNLQMHRRRHKVPWKLLKRETPVVRKRVFVCPEPTCLHHDPCHALGDLV