AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85234

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85234.t1 MTR_2g099630 93.519 108 6 1 1 107 1 108 1.30e-69 203
MS.gene85234.t1 MTR_8g018320 65.049 103 33 2 1 101 1 102 2.06e-40 129
MS.gene85234.t1 MTR_8g018360 65.049 103 33 2 1 101 1 102 3.77e-39 129
MS.gene85234.t1 MTR_4g125990 49.180 122 44 4 2 106 3 123 1.10e-30 105
MS.gene85234.t1 MTR_3g104640 46.667 105 54 2 4 106 6 110 9.23e-22 82.8
MS.gene85234.t1 MTR_1g015810 60.417 48 19 0 60 107 72 119 1.10e-15 67.4
MS.gene85234.t1 MTR_7g109290 54.902 51 22 1 56 106 42 91 3.38e-12 57.8
MS.gene85234.t1 MTR_1g087730 47.368 57 28 2 51 106 51 106 2.78e-11 55.8
MS.gene85234.t1 MTR_1g098310 50.000 48 24 0 58 105 38 85 4.07e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85234.t1 AT5G11970 56.098 82 33 2 26 107 27 105 4.56e-24 88.6
MS.gene85234.t1 AT1G72720 34.921 126 61 4 3 107 2 127 4.44e-16 68.9
MS.gene85234.t1 AT2G19460 47.297 74 38 1 24 97 37 109 2.13e-15 66.6
MS.gene85234.t1 AT2G19460 47.297 74 38 1 24 97 89 161 6.22e-15 66.6
MS.gene85234.t1 AT3G13910 53.333 60 20 3 45 97 39 97 3.79e-13 60.5
MS.gene85234.t1 AT3G13910 53.333 60 20 3 45 97 39 97 5.52e-13 60.5
MS.gene85234.t1 AT3G05725 56.818 44 19 0 62 105 80 123 1.60e-11 57.0

Find 27 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTCTTCCTCTGCAATTC+AGG 0.144268 2.4:+4634094 None:intergenic
TCAGTTCTTGCATGCTAGTT+GGG 0.283001 2.4:+4634224 None:intergenic
CTCAGTTCTTGCATGCTAGT+TGG 0.365308 2.4:+4634223 None:intergenic
ATGAAGCTCCAACTCTTTGA+TGG 0.366122 2.4:+4634124 None:intergenic
TCTTTATTACATGCCAGGTT+TGG 0.397283 2.4:+4634172 None:intergenic
CAGAGGAAGAAGAGAATTGC+TGG 0.419243 2.4:-4634085 MS.gene85234:CDS
GATGAAAAGCTACAAATTGA+AGG 0.461024 2.4:-4634256 MS.gene85234:CDS
ACTTACACTCAAGCTATGTA+TGG 0.473577 2.4:-4633992 MS.gene85234:CDS
TCACCTCTTTATTACATGCC+AGG 0.477597 2.4:+4634167 None:intergenic
AAAGAGGTGAAAATGAAGAA+AGG 0.496185 2.4:-4634154 MS.gene85234:CDS
GGTCTCTAAGAAAGAGTCTC+AGG 0.496771 2.4:-4634027 MS.gene85234:CDS
AAGAGGTGAAAATGAAGAAA+GGG 0.497586 2.4:-4634153 MS.gene85234:CDS
AAAGCTACAAATTGAAGGTA+AGG 0.497739 2.4:-4634251 MS.gene85234:CDS
TGAAGCTCCAACTCTTTGAT+GGG 0.510832 2.4:+4634125 None:intergenic
CAGTTCTTGCATGCTAGTTG+GGG 0.522810 2.4:+4634225 None:intergenic
GGAAAATCCCATCAAAGAGT+TGG 0.532658 2.4:-4634132 MS.gene85234:CDS
GTGCTGAAGGGAAAATGAAA+GGG 0.551730 2.4:-4634048 MS.gene85234:CDS
AAACCTGGCATGTAATAAAG+AGG 0.555221 2.4:-4634170 MS.gene85234:CDS
TACAAAATGTATGGTGCTGA+AGG 0.562238 2.4:-4634061 MS.gene85234:CDS
ATTGCTGGCTACAAAATGTA+TGG 0.571795 2.4:-4634070 MS.gene85234:CDS
ACACTCAAGCTATGTATGGA+TGG 0.580620 2.4:-4633988 MS.gene85234:CDS
GGTGCTGAAGGGAAAATGAA+AGG 0.580805 2.4:-4634049 MS.gene85234:CDS
TTATGTTTATAATCCAAACC+TGG 0.587054 2.4:-4634185 MS.gene85234:CDS
ACAAAATGTATGGTGCTGAA+GGG 0.616006 2.4:-4634060 MS.gene85234:CDS
CTCTAAGAAAGAGTCTCAGG+TGG 0.623042 2.4:-4634024 MS.gene85234:CDS
TGAATGATCCTGAATTGCAG+AGG 0.659598 2.4:-4634102 MS.gene85234:CDS
CTCAAGCTATGTATGGATGG+TGG 0.724201 2.4:-4633985 MS.gene85234:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTATGTTTATAATCCAAACC+TGG - chr2.4:4634080-4634099 MS.gene85234:CDS 25.0%
AAAGAGGTGAAAATGAAGAA+AGG - chr2.4:4634111-4634130 MS.gene85234:CDS 30.0%
AAAGCTACAAATTGAAGGTA+AGG - chr2.4:4634014-4634033 MS.gene85234:CDS 30.0%
AAGAGGTGAAAATGAAGAAA+GGG - chr2.4:4634112-4634131 MS.gene85234:CDS 30.0%
GATGAAAAGCTACAAATTGA+AGG - chr2.4:4634009-4634028 MS.gene85234:CDS 30.0%
AAACCTGGCATGTAATAAAG+AGG - chr2.4:4634095-4634114 MS.gene85234:CDS 35.0%
ACTTACACTCAAGCTATGTA+TGG - chr2.4:4634273-4634292 MS.gene85234:CDS 35.0%
TCTTTATTACATGCCAGGTT+TGG + chr2.4:4634096-4634115 None:intergenic 35.0%
! ACAAAATGTATGGTGCTGAA+GGG - chr2.4:4634205-4634224 MS.gene85234:CDS 35.0%
! ATTGCTGGCTACAAAATGTA+TGG - chr2.4:4634195-4634214 MS.gene85234:CDS 35.0%
! TACAAAATGTATGGTGCTGA+AGG - chr2.4:4634204-4634223 MS.gene85234:CDS 35.0%
ACACTCAAGCTATGTATGGA+TGG - chr2.4:4634277-4634296 MS.gene85234:CDS 40.0%
ATGAAGCTCCAACTCTTTGA+TGG + chr2.4:4634144-4634163 None:intergenic 40.0%
GGAAAATCCCATCAAAGAGT+TGG - chr2.4:4634133-4634152 MS.gene85234:CDS 40.0%
GTGCTGAAGGGAAAATGAAA+GGG - chr2.4:4634217-4634236 MS.gene85234:CDS 40.0%
TCACCTCTTTATTACATGCC+AGG + chr2.4:4634101-4634120 None:intergenic 40.0%
TCAGTTCTTGCATGCTAGTT+GGG + chr2.4:4634044-4634063 None:intergenic 40.0%
TGAAGCTCCAACTCTTTGAT+GGG + chr2.4:4634143-4634162 None:intergenic 40.0%
TGAATGATCCTGAATTGCAG+AGG - chr2.4:4634163-4634182 MS.gene85234:CDS 40.0%
CAGAGGAAGAAGAGAATTGC+TGG - chr2.4:4634180-4634199 MS.gene85234:CDS 45.0%
CAGTTCTTGCATGCTAGTTG+GGG + chr2.4:4634043-4634062 None:intergenic 45.0%
CTCAAGCTATGTATGGATGG+TGG - chr2.4:4634280-4634299 MS.gene85234:CDS 45.0%
CTCAGTTCTTGCATGCTAGT+TGG + chr2.4:4634045-4634064 None:intergenic 45.0%
CTCTTCTTCCTCTGCAATTC+AGG + chr2.4:4634174-4634193 None:intergenic 45.0%
! CTCTAAGAAAGAGTCTCAGG+TGG - chr2.4:4634241-4634260 MS.gene85234:CDS 45.0%
! GGTCTCTAAGAAAGAGTCTC+AGG - chr2.4:4634238-4634257 MS.gene85234:CDS 45.0%
! GGTGCTGAAGGGAAAATGAA+AGG - chr2.4:4634216-4634235 MS.gene85234:CDS 45.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 4633982 4634305 4633982 ID=MS.gene85234
chr2.4 mRNA 4633982 4634305 4633982 ID=MS.gene85234.t1;Parent=MS.gene85234
chr2.4 exon 4633982 4634305 4633982 ID=MS.gene85234.t1.exon1;Parent=MS.gene85234.t1
chr2.4 CDS 4633982 4634305 4633982 ID=cds.MS.gene85234.t1;Parent=MS.gene85234.t1
Gene Sequence

>MS.gene85234

ATGGAATTCAGATCAAAGTCATGCAGAGATGAAAAGCTACAAATTGAAGGTAAGGTGACCCCAACTAGCATGCAAGAACTGAGATGTTACAGTGCTAATTATGTTTATAATCCAAACCTGGCATGTAATAAAGAGGTGAAAATGAAGAAAGGGAAAATCCCATCAAAGAGTTGGAGCTTCATGAATGATCCTGAATTGCAGAGGAAGAAGAGAATTGCTGGCTACAAAATGTATGGTGCTGAAGGGAAAATGAAAGGGTCTCTAAGAAAGAGTCTCAGGTGGATCAAAAATACTTACACTCAAGCTATGTATGGATGGTGGTGA
Protein sequence

>MS.gene85234.t1

MEFRSKSCRDEKLQIEGKVTPTSMQELRCYSANYVYNPNLACNKEVKMKKGKIPSKSWSFMNDPELQRKKRIAGYKMYGAEGKMKGSLRKSLRWIKNTYTQAMYGWW