AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26733

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26733.t1 MTR_4g124390 92.079 101 8 0 1 101 45 145 6.27e-68 200
MS.gene26733.t1 MTR_4g124380 81.818 110 11 1 1 101 59 168 9.20e-60 180
MS.gene26733.t1 MTR_7g078150 36.486 74 41 1 1 74 70 137 1.11e-14 66.2
MS.gene26733.t1 MTR_8g098770 40.541 74 34 3 1 74 70 133 1.44e-14 65.5
MS.gene26733.t1 MTR_5g010100 39.189 74 39 2 1 74 61 128 2.01e-14 64.3
MS.gene26733.t1 MTR_8g009190 43.421 76 35 2 2 76 85 153 1.65e-13 64.7
MS.gene26733.t1 MTR_2g044570 43.421 76 35 2 2 76 63 131 2.66e-13 63.9
MS.gene26733.t1 MTR_8g028815 34.000 100 55 4 1 97 74 165 1.26e-12 60.5
MS.gene26733.t1 MTR_5g064990 44.444 54 23 1 21 74 143 189 1.64e-12 62.0
MS.gene26733.t1 MTR_3g082510 40.278 72 37 1 3 74 81 146 1.98e-12 59.7
MS.gene26733.t1 MTR_3g099650 48.148 54 21 2 21 74 136 182 2.13e-12 61.6
MS.gene26733.t1 MTR_1g082550 46.296 54 22 1 21 74 127 173 3.08e-12 61.2
MS.gene26733.t1 MTR_4g129420 47.368 57 23 1 21 77 144 193 4.50e-12 60.8
MS.gene26733.t1 MTR_7g113800 38.272 81 40 3 2 80 100 172 2.11e-11 58.9
MS.gene26733.t1 MTR_0010s0050 42.373 59 29 2 15 73 68 121 3.18e-11 56.2
MS.gene26733.t1 MTR_4g077570 44.828 58 27 2 16 73 6 58 7.27e-11 53.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26733.t1 AT3G43430 53.774 106 42 4 2 101 63 167 7.09e-33 112
MS.gene26733.t1 AT5G20885 49.558 113 42 4 2 99 62 174 1.05e-29 104
MS.gene26733.t1 AT4G00305 43.590 78 37 2 1 78 52 122 7.86e-16 67.8
MS.gene26733.t1 AT5G41400 40.789 76 39 3 1 75 84 154 1.03e-15 68.9
MS.gene26733.t1 AT3G61460 37.838 74 40 1 1 74 74 141 2.04e-15 67.8
MS.gene26733.t1 AT1G63840 44.595 74 33 4 1 74 72 137 1.72e-14 65.5
MS.gene26733.t1 AT3G60220 43.421 76 35 2 2 76 97 165 5.18e-14 66.2
MS.gene26733.t1 AT2G01150 51.852 54 19 2 21 74 74 120 1.14e-12 60.5
MS.gene26733.t1 AT3G05200 41.096 73 35 2 2 73 108 173 1.54e-12 62.4
MS.gene26733.t1 AT2G01150 51.852 54 19 2 21 74 100 146 1.55e-12 60.5
MS.gene26733.t1 AT2G01150 51.852 54 19 2 21 74 123 169 2.60e-12 60.5
MS.gene26733.t1 AT2G28920 46.429 56 23 1 18 73 90 138 1.85e-11 57.0
MS.gene26733.t1 AT4G40070 39.726 73 36 2 2 73 104 169 1.93e-11 58.9
MS.gene26733.t1 AT1G15100 44.286 70 30 3 21 90 86 146 3.53e-11 56.6
MS.gene26733.t1 AT5G43200 43.077 65 31 1 9 73 144 202 6.70e-11 56.6

Find 16 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCACATGTGTCTTCTGTTTC+TGG 0.130755 8.3:+4889205 None:intergenic
ATGTTACCGTTGACGAGTTT+TGG 0.271368 8.3:-4889247 MS.gene26733:CDS
TTGTTTGAACAAGCTGAAAA+TGG 0.301105 8.3:-4889179 MS.gene26733:CDS
CTCTACAAAGTGGACAAGTT+TGG 0.375846 8.3:+4889059 None:intergenic
AACAAATTATTTAATTAAGA+AGG 0.386010 8.3:+4888947 None:intergenic
ATTCACCTAGTCAACCTCAT+TGG 0.420746 8.3:-4889012 MS.gene26733:CDS
TTCACCTAGTCAACCTCATT+GGG 0.441403 8.3:-4889011 MS.gene26733:CDS
ATAAGGAATGCATAGATAAG+TGG 0.505856 8.3:-4889114 MS.gene26733:CDS
CTGTGATCATGTGTTTCATA+AGG 0.517073 8.3:-4889131 MS.gene26733:CDS
TAGTCAACCTCATTGGGCTG+TGG 0.577784 8.3:-4889005 MS.gene26733:CDS
ATTTCTCCAAAACTCGTCAA+CGG 0.592534 8.3:+4889241 None:intergenic
ATCAAAGGAGCTCTACAAAG+TGG 0.596806 8.3:+4889049 None:intergenic
ACAGCCCAATGAGGTTGACT+AGG 0.604880 8.3:+4889007 None:intergenic
GGAATGCATAGATAAGTGGT+TGG 0.607450 8.3:-4889110 MS.gene26733:CDS
ATAGATAAGTGGTTGGAACA+TGG 0.640834 8.3:-4889103 MS.gene26733:CDS
AGTCTTTCCACAGCCCAATG+AGG 0.646393 8.3:+4888998 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCCTTTGATTAATAGTTTTT+GGG - chr8.3:4889173-4889192 MS.gene26733:CDS 20.0%
! TCCCAAAAACTATTAATCAA+AGG + chr8.3:4889177-4889196 None:intergenic 25.0%
!! CTCCTTTGATTAATAGTTTT+TGG - chr8.3:4889172-4889191 MS.gene26733:CDS 25.0%
!!! GAAAGACTTTTTTATCTATG+TGG - chr8.3:4889225-4889244 MS.gene26733:CDS 25.0%
ATAAGGAATGCATAGATAAG+TGG - chr8.3:4889094-4889113 MS.gene26733:CDS 30.0%
TTGTTTGAACAAGCTGAAAA+TGG - chr8.3:4889029-4889048 MS.gene26733:CDS 30.0%
ATAGATAAGTGGTTGGAACA+TGG - chr8.3:4889105-4889124 MS.gene26733:CDS 35.0%
ATTTCTCCAAAACTCGTCAA+CGG + chr8.3:4888970-4888989 None:intergenic 35.0%
CTGTGATCATGTGTTTCATA+AGG - chr8.3:4889077-4889096 MS.gene26733:CDS 35.0%
ATCAAAGGAGCTCTACAAAG+TGG + chr8.3:4889162-4889181 None:intergenic 40.0%
ATTCACCTAGTCAACCTCAT+TGG - chr8.3:4889196-4889215 MS.gene26733:CDS 40.0%
CTCTACAAAGTGGACAAGTT+TGG + chr8.3:4889152-4889171 None:intergenic 40.0%
GGAATGCATAGATAAGTGGT+TGG - chr8.3:4889098-4889117 MS.gene26733:CDS 40.0%
TTCACCTAGTCAACCTCATT+GGG - chr8.3:4889197-4889216 MS.gene26733:CDS 40.0%
! ATGTTACCGTTGACGAGTTT+TGG - chr8.3:4888961-4888980 MS.gene26733:CDS 40.0%
!!! GACGAGTTTTGGAGAAATCA+AGG - chr8.3:4888972-4888991 MS.gene26733:CDS 40.0%
GCACATGTGTCTTCTGTTTC+TGG + chr8.3:4889006-4889025 None:intergenic 45.0%
ACAGCCCAATGAGGTTGACT+AGG + chr8.3:4889204-4889223 None:intergenic 50.0%
AGTCTTTCCACAGCCCAATG+AGG + chr8.3:4889213-4889232 None:intergenic 50.0%
TAGTCAACCTCATTGGGCTG+TGG - chr8.3:4889203-4889222 MS.gene26733:CDS 50.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 4888961 4889269 4888961 ID=MS.gene26733
chr8.3 mRNA 4888961 4889269 4888961 ID=MS.gene26733.t1;Parent=MS.gene26733
chr8.3 exon 4888961 4889269 4888961 ID=MS.gene26733.t1.exon1;Parent=MS.gene26733.t1
chr8.3 CDS 4888961 4889269 4888961 ID=cds.MS.gene26733.t1;Parent=MS.gene26733.t1
Gene Sequence

>MS.gene26733

ATGTTACCGTTGACGAGTTTTGGAGAAATCAAGGAAAGACATCCAGAAACAGAAGACACATGTGCTATTTGTTTGAACAAGCTGAAAATGGAAGATGAAGTTAGAGAATTGATGAACTGTGATCATGTGTTTCATAAGGAATGCATAGATAAGTGGTTGGAACATGGTTATGAAAATGAAAATCATAACCAAACTTGTCCACTTTGTAGAGCTCCTTTGATTAATAGTTTTTGGGATTCACCTAGTCAACCTCATTGGGCTGTGGAAAGACTTTTTTATCTATGTGGTGATGATCTTTTGCCTTCTTAA
Protein sequence

>MS.gene26733.t1

MLPLTSFGEIKERHPETEDTCAICLNKLKMEDEVRELMNCDHVFHKECIDKWLEHGYENENHNQTCPLCRAPLINSFWDSPSQPHWAVERLFYLCGDDLLPS