AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene048325

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene048325.t1 MTR_2g076780 55.122 205 76 4 23 214 21 222 4.73e-65 201
MS.gene048325.t1 MTR_8g069080 52.941 204 79 5 24 214 54 253 6.17e-61 191
MS.gene048325.t1 MTR_8g069380 88.095 84 6 1 131 214 21 100 3.02e-45 146
MS.gene048325.t1 MTR_8g442330 49.367 158 46 5 48 203 14 139 6.01e-38 129
MS.gene048325.t1 MTR_5g032600 42.268 194 80 5 39 214 78 257 8.26e-35 124
MS.gene048325.t1 MTR_5g020510 35.417 192 99 4 39 214 99 281 3.78e-34 123
MS.gene048325.t1 MTR_1g077020 36.788 193 84 6 35 214 5 172 2.76e-33 118
MS.gene048325.t1 MTR_3g100650 41.969 193 86 6 37 214 78 259 5.66e-33 120
MS.gene048325.t1 MTR_4g134580 32.824 262 115 6 7 214 78 332 1.68e-32 120
MS.gene048325.t1 MTR_5g065440 35.537 242 112 6 5 214 24 253 5.35e-31 114
MS.gene048325.t1 MTR_6g012280 37.696 191 93 5 39 214 91 270 2.49e-28 109
MS.gene048325.t1 MTR_7g010300 35.106 188 107 4 37 214 86 268 5.27e-27 105
MS.gene048325.t1 MTR_8g051480 54.639 97 36 4 123 214 21 114 1.41e-23 91.7
MS.gene048325.t1 MTR_6g073013 26.966 178 82 3 39 214 19 150 6.86e-20 83.6
MS.gene048325.t1 MTR_3g039810 53.846 52 24 0 37 88 18 69 2.83e-15 68.6
MS.gene048325.t1 MTR_8g467340 54.237 59 25 1 32 88 57 115 2.03e-14 71.6
MS.gene048325.t1 MTR_8g467340 53.061 49 23 0 166 214 271 319 3.63e-11 62.0
MS.gene048325.t1 MTR_8g032100 66.667 42 14 0 173 214 125 166 5.27e-12 62.4
MS.gene048325.t1 MTR_6g012220 47.692 65 30 1 36 100 18 78 1.05e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene048325.t1 AT4G24660 40.000 180 85 3 37 214 47 205 2.25e-37 130
MS.gene048325.t1 AT4G24660 40.000 180 85 3 37 214 47 205 2.64e-37 129
MS.gene048325.t1 AT1G14440 35.979 189 102 3 36 214 87 266 3.38e-33 121
MS.gene048325.t1 AT1G14440 35.979 189 102 3 36 214 87 266 3.38e-33 121
MS.gene048325.t1 AT2G02540 34.928 209 84 7 36 214 84 270 5.86e-33 120
MS.gene048325.t1 AT2G02540 34.928 209 84 7 36 214 84 270 5.86e-33 120
MS.gene048325.t1 AT5G15210 37.624 202 103 6 22 214 40 227 5.05e-32 117
MS.gene048325.t1 AT5G65410 37.430 179 95 4 39 214 75 239 2.15e-29 110
MS.gene048325.t1 AT3G50890 34.946 186 95 5 39 214 60 229 1.08e-28 108
MS.gene048325.t1 AT1G69600 37.306 193 89 8 37 214 29 204 6.46e-28 106
MS.gene048325.t1 AT2G18350 35.556 180 101 4 37 214 80 246 8.54e-28 106
MS.gene048325.t1 AT3G28920 36.649 191 108 3 37 214 50 240 3.03e-25 100
MS.gene048325.t1 AT5G60480 35.829 187 95 6 32 214 30 195 5.81e-23 92.8
MS.gene048325.t1 AT1G74660 62.264 53 20 0 37 89 37 89 5.74e-19 79.0
MS.gene048325.t1 AT1G74660 62.264 53 20 0 37 89 37 89 8.28e-19 78.6
MS.gene048325.t1 AT1G75240 59.615 52 21 0 37 88 74 125 8.85e-18 80.5
MS.gene048325.t1 AT1G75240 59.615 52 21 0 163 214 237 288 1.67e-14 71.2
MS.gene048325.t1 AT5G42780 35.393 178 101 5 38 214 63 227 7.13e-17 77.0
MS.gene048325.t1 AT3G28917 52.830 53 24 1 37 88 31 83 1.23e-14 67.4
MS.gene048325.t1 AT1G18835 52.830 53 22 1 37 89 24 73 2.89e-13 63.5

Find 44 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAATCTAAGAAGAGATTC+AGG 0.367997 8.4:+34664398 MS.gene048325:CDS
TTCTGAAGCAAATAGTTTCC+TGG 0.384443 8.4:+34663997 MS.gene048325:CDS
CAACAATAGTTTCCTTCCTA+TGG 0.387746 8.4:-34664162 None:intergenic
CAAAGATAGAGGTGGAGAAT+TGG 0.404534 8.4:-34664275 None:intergenic
ATTGGAGGTTATGCCCTTGA+TGG 0.419532 8.4:+34664058 MS.gene048325:CDS
CTAAGAAGAGATTCAGGTCT+AGG 0.422419 8.4:+34664404 MS.gene048325:CDS
AAGAACCATGCTTCCAGCAT+TGG 0.428212 8.4:+34664040 MS.gene048325:CDS
CATCACTTCGTTGACTTTGG+TGG 0.429801 8.4:-34663921 None:intergenic
GTTGTTGAGCCTATCAATAT+TGG 0.447727 8.4:+34664349 MS.gene048325:CDS
CTTCCACCACCAATATTGAT+AGG 0.453259 8.4:-34664358 None:intergenic
GGTGGTGGAAGTGGTGGAGA+AGG 0.453761 8.4:+34664370 MS.gene048325:CDS
ACTCATCACTTCGTTGACTT+TGG 0.456189 8.4:-34663924 None:intergenic
ATCAATATTGGTGGTGGAAG+TGG 0.459529 8.4:+34664361 MS.gene048325:CDS
CTTGGTGCTCCAGTCGTAGA+AGG 0.459839 8.4:-34664244 None:intergenic
CGAGATAGGAGTCATATCTC+TGG 0.469386 8.4:-34664188 None:intergenic
CCCTCTTCATACAAAGATAG+AGG 0.472639 8.4:-34664286 None:intergenic
CATGGAGCACTAAACGAGAT+AGG 0.482608 8.4:-34664202 None:intergenic
GGAGAATTGGTTGTGCCCCT+TGG 0.489769 8.4:-34664262 None:intergenic
GAGGATGGAAGATTCCGAAA+AGG 0.501579 8.4:+34664473 MS.gene048325:CDS
AAGGGCATAACCTCCAATGC+TGG 0.508828 8.4:-34664053 None:intergenic
ACCTCTATCTTTGTATGAAG+AGG 0.520488 8.4:+34664285 MS.gene048325:CDS
AGGATGGAAGATTCCGAAAA+GGG 0.524688 8.4:+34664474 MS.gene048325:CDS
TAGAAGGAGTAACTGCTTGA+GGG 0.527054 8.4:-34664228 None:intergenic
AAAACTCACAACAACCATCA+AGG 0.527865 8.4:-34664072 None:intergenic
AACCATGCTTCCAGCATTGG+AGG 0.529576 8.4:+34664043 MS.gene048325:CDS
AACATTCCTTAAAATTTACC+AGG 0.534577 8.4:-34664015 None:intergenic
AACCTCCAATGCTGGAAGCA+TGG 0.548110 8.4:-34664045 None:intergenic
GTGGTGGAAGTGGTGGAGAA+GGG 0.552317 8.4:+34664371 MS.gene048325:CDS
GTTGAGCCTATCAATATTGG+TGG 0.555242 8.4:+34664352 MS.gene048325:CDS
TTCTACGACTGGAGCACCAA+GGG 0.559075 8.4:+34664246 MS.gene048325:CDS
GCAGTTACTCCTTCTACGAC+TGG 0.562065 8.4:+34664235 MS.gene048325:CDS
CCTCTATCTTTGTATGAAGA+GGG 0.568187 8.4:+34664286 MS.gene048325:CDS
GTAGAAGGAGTAACTGCTTG+AGG 0.569241 8.4:-34664229 None:intergenic
AATATTGGTGGTGGAAGTGG+TGG 0.571569 8.4:+34664364 MS.gene048325:CDS
AATGTACCTTCATCTCCAGC+AGG 0.574198 8.4:-34664097 None:intergenic
GTAACTGCTTGAGGGAGGCA+TGG 0.581241 8.4:-34664220 None:intergenic
GAGCCTATCAATATTGGTGG+TGG 0.617447 8.4:+34664355 MS.gene048325:CDS
AAACTCACAACAACCATCAA+GGG 0.621682 8.4:-34664071 None:intergenic
CAGCAAAGAGAAGATGGTGA+TGG 0.635353 8.4:+34663898 None:intergenic
AAGGGATGAGAATGTTGTCA+AGG 0.636812 8.4:+34664492 MS.gene048325:CDS
CTTCTACGACTGGAGCACCA+AGG 0.637408 8.4:+34664245 MS.gene048325:CDS
TCTTCATACAAAGATAGAGG+TGG 0.653323 8.4:-34664283 None:intergenic
AAGGAGTAACTGCTTGAGGG+AGG 0.663240 8.4:-34664225 None:intergenic
TCTACGACTGGAGCACCAAG+GGG 0.703811 8.4:+34664247 MS.gene048325:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACATTAGATTTTTTTAAATT+TGG + chr8.4:34664115-34664134 MS.gene048325:CDS 10.0%
! AACATTCCTTAAAATTTACC+AGG - chr8.4:34664018-34664037 None:intergenic 25.0%
! ATTGTCATAAAAACTTCCAT+AGG + chr8.4:34664146-34664165 MS.gene048325:CDS 25.0%
!! TAGTTTCCTGGTAAATTTTA+AGG + chr8.4:34664009-34664028 MS.gene048325:CDS 25.0%
TCATAAAAACTTCCATAGGA+AGG + chr8.4:34664150-34664169 MS.gene048325:CDS 30.0%
! AAAAGATGCTTGATTTTGCT+TGG + chr8.4:34664446-34664465 MS.gene048325:CDS 30.0%
! AAAGATGCTTGATTTTGCTT+GGG + chr8.4:34664447-34664466 MS.gene048325:CDS 30.0%
!! AAGGAGTTTTGTAATGAGAT+TGG + chr8.4:34664511-34664530 MS.gene048325:CDS 30.0%
!! AGGAGTTTTGTAATGAGATT+GGG + chr8.4:34664512-34664531 MS.gene048325:CDS 30.0%
AAAACTCACAACAACCATCA+AGG - chr8.4:34664075-34664094 None:intergenic 35.0%
AAACTCACAACAACCATCAA+GGG - chr8.4:34664074-34664093 None:intergenic 35.0%
ACCTCTATCTTTGTATGAAG+AGG + chr8.4:34664285-34664304 MS.gene048325:CDS 35.0%
CAACAATAGTTTCCTTCCTA+TGG - chr8.4:34664165-34664184 None:intergenic 35.0%
CACAATCTAAGAAGAGATTC+AGG + chr8.4:34664398-34664417 MS.gene048325:CDS 35.0%
CCTCTATCTTTGTATGAAGA+GGG + chr8.4:34664286-34664305 MS.gene048325:CDS 35.0%
GTTGTTGAGCCTATCAATAT+TGG + chr8.4:34664349-34664368 MS.gene048325:CDS 35.0%
TCTTCATACAAAGATAGAGG+TGG - chr8.4:34664286-34664305 None:intergenic 35.0%
! ACAACATTCTCATCCCTTTT+CGG - chr8.4:34664490-34664509 None:intergenic 35.0%
! ATGAAGAGGGCTATATTTTG+AGG + chr8.4:34664299-34664318 MS.gene048325:CDS 35.0%
!! GGAGTTTTGTAATGAGATTG+GGG + chr8.4:34664513-34664532 MS.gene048325:CDS 35.0%
!! TGAAGAGGGCTATATTTTGA+GGG + chr8.4:34664300-34664319 MS.gene048325:CDS 35.0%
!! TTCTGAAGCAAATAGTTTCC+TGG + chr8.4:34663997-34664016 MS.gene048325:CDS 35.0%
AAGGGATGAGAATGTTGTCA+AGG + chr8.4:34664492-34664511 MS.gene048325:CDS 40.0%
AGGATGGAAGATTCCGAAAA+GGG + chr8.4:34664474-34664493 MS.gene048325:CDS 40.0%
CAAAGATAGAGGTGGAGAAT+TGG - chr8.4:34664278-34664297 None:intergenic 40.0%
CCCTCTTCATACAAAGATAG+AGG - chr8.4:34664289-34664308 None:intergenic 40.0%
CTAAGAAGAGATTCAGGTCT+AGG + chr8.4:34664404-34664423 MS.gene048325:CDS 40.0%
CTTCCACCACCAATATTGAT+AGG - chr8.4:34664361-34664380 None:intergenic 40.0%
GTTGAGCCTATCAATATTGG+TGG + chr8.4:34664352-34664371 MS.gene048325:CDS 40.0%
TAGAAGGAGTAACTGCTTGA+GGG - chr8.4:34664231-34664250 None:intergenic 40.0%
! TGTTGTGAGTTTTTACCTGC+TGG + chr8.4:34664082-34664101 MS.gene048325:CDS 40.0%
! TTTTTACCTGCTGGAGATGA+AGG + chr8.4:34664091-34664110 MS.gene048325:CDS 40.0%
!! ACTCATCACTTCGTTGACTT+TGG - chr8.4:34663927-34663946 None:intergenic 40.0%
!! ATCAATATTGGTGGTGGAAG+TGG + chr8.4:34664361-34664380 MS.gene048325:CDS 40.0%
AAGAACCATGCTTCCAGCAT+TGG + chr8.4:34664040-34664059 MS.gene048325:CDS 45.0%
AATGTACCTTCATCTCCAGC+AGG - chr8.4:34664100-34664119 None:intergenic 45.0%
ATTGGAGGTTATGCCCTTGA+TGG + chr8.4:34664058-34664077 MS.gene048325:CDS 45.0%
CGAGATAGGAGTCATATCTC+TGG - chr8.4:34664191-34664210 None:intergenic 45.0%
GAGCCTATCAATATTGGTGG+TGG + chr8.4:34664355-34664374 MS.gene048325:CDS 45.0%
GAGGATGGAAGATTCCGAAA+AGG + chr8.4:34664473-34664492 MS.gene048325:CDS 45.0%
GTAGAAGGAGTAACTGCTTG+AGG - chr8.4:34664232-34664251 None:intergenic 45.0%
! CATGGAGCACTAAACGAGAT+AGG - chr8.4:34664205-34664224 None:intergenic 45.0%
!! AATATTGGTGGTGGAAGTGG+TGG + chr8.4:34664364-34664383 MS.gene048325:CDS 45.0%
!! AGAGGGCTATATTTTGAGGG+AGG + chr8.4:34664303-34664322 MS.gene048325:CDS 45.0%
!! CATCACTTCGTTGACTTTGG+TGG - chr8.4:34663924-34663943 None:intergenic 45.0%
AACCTCCAATGCTGGAAGCA+TGG - chr8.4:34664048-34664067 None:intergenic 50.0%
AAGGAGTAACTGCTTGAGGG+AGG - chr8.4:34664228-34664247 None:intergenic 50.0%
GCAGTTACTCCTTCTACGAC+TGG + chr8.4:34664235-34664254 MS.gene048325:CDS 50.0%
! AACCATGCTTCCAGCATTGG+AGG + chr8.4:34664043-34664062 MS.gene048325:CDS 50.0%
! AAGGGCATAACCTCCAATGC+TGG - chr8.4:34664056-34664075 None:intergenic 50.0%
! ATTTTGCTTGGGCACGAGGA+TGG + chr8.4:34664458-34664477 MS.gene048325:CDS 50.0%
! CTTGATTTTGCTTGGGCACG+AGG + chr8.4:34664454-34664473 MS.gene048325:CDS 50.0%
! TTCTACGACTGGAGCACCAA+GGG + chr8.4:34664246-34664265 MS.gene048325:CDS 50.0%
GGAGAATTGGTTGTGCCCCT+TGG - chr8.4:34664265-34664284 None:intergenic 55.0%
GTAACTGCTTGAGGGAGGCA+TGG - chr8.4:34664223-34664242 None:intergenic 55.0%
! CTTCTACGACTGGAGCACCA+AGG + chr8.4:34664245-34664264 MS.gene048325:CDS 55.0%
! GTGGTGGAAGTGGTGGAGAA+GGG + chr8.4:34664371-34664390 MS.gene048325:CDS 55.0%
! TCTACGACTGGAGCACCAAG+GGG + chr8.4:34664247-34664266 MS.gene048325:CDS 55.0%
!! CTTGGTGCTCCAGTCGTAGA+AGG - chr8.4:34664247-34664266 None:intergenic 55.0%
!! GGTGGTGGAAGTGGTGGAGA+AGG + chr8.4:34664370-34664389 MS.gene048325:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 34663911 34664555 34663911 ID=MS.gene048325
chr8.4 mRNA 34663911 34664555 34663911 ID=MS.gene048325.t1;Parent=MS.gene048325
chr8.4 exon 34663911 34664555 34663911 ID=MS.gene048325.t1.exon1;Parent=MS.gene048325.t1
chr8.4 CDS 34663911 34664555 34663911 ID=cds.MS.gene048325.t1;Parent=MS.gene048325.t1
Gene Sequence

>MS.gene048325

ATGGTGATGGCCACCAAAGTCAACGAAGTGATGAGTAGCACATCACAAGAGAAAATATCAACTCGAGTAGAAGAATCTCATATGAATTCTGAAGCAAATAGTTTCCTGGTAAATTTTAAGGAATGTTTGAAGAACCATGCTTCCAGCATTGGAGGTTATGCCCTTGATGGTTGTTGTGAGTTTTTACCTGCTGGAGATGAAGGTACATTAGATTTTTTTAAATTTGGTGCTTGTCATTGTCATAAAAACTTCCATAGGAAGGAAACTATTGTTGTTTCCAGAGATATGACTCCTATCTCGTTTAGTGCTCCATGCCTCCCTCAAGCAGTTACTCCTTCTACGACTGGAGCACCAAGGGGCACAACCAATTCTCCACCTCTATCTTTGTATGAAGAGGGCTATATTTTGAGGGAGGATCTTGAACAAAATGTTCATCATGTTGTTGAGCCTATCAATATTGGTGGTGGAAGTGGTGGAGAAGGGTCATCACAATCTAAGAAGAGATTCAGGTCTAGGTTCACACATGAACAAAGAGAAAAGATGCTTGATTTTGCTTGGGCACGAGGATGGAAGATTCCGAAAAGGGATGAGAATGTTGTCAAGGAGTTTTGTAATGAGATTGGGGTGAAGCTTCAAGTTTTTTAA
Protein sequence

>MS.gene048325.t1

MVMATKVNEVMSSTSQEKISTRVEESHMNSEANSFLVNFKECLKNHASSIGGYALDGCCEFLPAGDEGTLDFFKFGACHCHKNFHRKETIVVSRDMTPISFSAPCLPQAVTPSTTGAPRGTTNSPPLSLYEEGYILREDLEQNVHHVVEPINIGGGSGGEGSSQSKKRFRSRFTHEQREKMLDFAWARGWKIPKRDENVVKEFCNEIGVKLQVF