AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1439670


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1439670 MtrunA17_Chr3g0136561 98.947 190 2 0 2 191 715 904 1.94e-134 398
Msa1439670 MtrunA17_Chr4g0035081 62.434 189 61 2 2 190 324 502 2.75e-84 257
Msa1439670 MtrunA17_Chr1g0188051 62.766 188 61 1 3 190 328 506 3.40e-84 257
Msa1439670 MtrunA17_Chr1g0166191 61.702 188 63 1 3 190 334 512 1.69e-83 256
Msa1439670 MtrunA17_Chr7g0250661 60.106 188 66 1 3 190 111 289 3.03e-82 245
Msa1439670 MtrunA17_Chr2g0306781 60.638 188 65 1 3 190 221 399 9.36e-82 248
Msa1439670 MtrunA17_Chr7g0276251 61.053 190 64 2 3 190 347 528 5.53e-80 247
Msa1439670 MtrunA17_Chr1g0209881 59.788 189 66 2 2 190 312 490 1.65e-79 245
Msa1439670 MtrunA17_Chr5g0423521 59.259 189 67 2 2 190 312 490 5.40e-79 243
Msa1439670 MtrunA17_Chr4g0063011 59.043 188 68 1 3 190 316 494 6.43e-78 241
Msa1439670 MtrunA17_Chr7g0276241 56.150 187 66 3 3 187 111 283 3.17e-73 223
Msa1439670 MtrunA17_Chr6g0461631 50.794 189 84 1 2 190 77 256 1.42e-70 215
Msa1439670 MtrunA17_Chr2g0282281 56.667 180 65 2 2 181 336 502 4.54e-68 216
Msa1439670 MtrunA17_Chr4g0026871 50.794 189 83 2 4 191 49 228 9.19e-66 201
Msa1439670 MtrunA17_Chr2g0277841 48.663 187 87 2 4 190 274 451 3.38e-62 199
Msa1439670 MtrunA17_Chr6g0480561 50.538 186 83 1 6 191 293 469 1.18e-60 195
Msa1439670 MtrunA17_Chr2g0295781 46.277 188 93 2 3 190 272 451 2.26e-60 194
Msa1439670 MtrunA17_Chr4g0026721 50.602 166 73 1 26 191 4 160 2.48e-57 177
Msa1439670 MtrunA17_Chr1g0204301 40.107 187 103 2 1 187 306 483 3.71e-49 166
Msa1439670 MtrunA17_Chr6g0469631 41.304 184 98 1 6 189 310 483 2.50e-48 164
Msa1439670 MtrunA17_Chr4g0030601 44.681 188 90 5 3 187 257 433 2.22e-47 160
Msa1439670 MtrunA17_Chr3g0115041 41.176 187 99 2 3 189 309 484 1.66e-46 159
Msa1439670 MtrunA17_Chr3g0115021 41.176 187 99 2 3 189 309 484 1.73e-46 159
Msa1439670 MtrunA17_Chr4g0030581 39.487 195 98 3 3 187 257 441 3.04e-44 152
Msa1439670 MtrunA17_Chr4g0030591 39.153 189 108 2 3 187 257 442 5.66e-43 149
Msa1439670 MtrunA17_Chr2g0327721 39.683 189 109 3 3 187 257 444 9.58e-43 149
Msa1439670 MtrunA17_Chr1g0212951 37.374 198 107 3 3 187 258 451 2.91e-42 147
Msa1439670 MtrunA17_Chr4g0026791 50.000 142 57 3 4 142 49 179 1.49e-41 138
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1439670 AT2G26250.1 67.476 206 50 1 2 190 345 550 1.46e-98 296
Msa1439670 AT1G19440.1 63.684 190 59 2 2 191 336 515 6.64e-88 267
Msa1439670 AT2G16280.1 62.963 189 60 2 3 191 333 511 7.66e-84 257
Msa1439670 AT4G34510.1 60.847 189 65 2 3 191 307 486 1.74e-81 250
Msa1439670 AT1G04220.1 62.500 192 58 3 3 188 330 513 2.85e-80 248
Msa1439670 AT1G68530.1 60.753 186 63 2 3 188 314 489 3.63e-80 247
Msa1439670 AT2G26640.1 59.574 188 67 1 3 190 325 503 2.39e-79 245
Msa1439670 AT5G43760.1 60.622 193 63 3 3 190 336 520 6.18e-79 244
Msa1439670 AT1G01120.1 58.201 189 69 2 3 190 347 526 6.50e-77 239
Msa1439670 AT1G25450.1 58.602 186 67 2 3 188 309 484 2.04e-75 234
Msa1439670 AT2G15090.1 54.211 190 77 2 2 191 301 480 1.28e-71 224
Msa1439670 AT4G34250.1 53.158 190 79 2 2 191 309 488 3.72e-70 221
Msa1439670 AT4G34520.1 52.632 190 81 3 2 191 311 491 3.71e-68 216
Msa1439670 AT2G46720.1 53.403 191 78 2 3 191 285 466 9.88e-68 214
Msa1439670 AT3G10280.1 53.403 191 78 2 3 191 278 459 1.24e-67 214
Msa1439670 AT5G49070.1 50.265 189 86 3 2 190 275 455 4.98e-66 209
Msa1439670 AT1G71160.1 46.486 185 88 3 4 188 273 446 2.29e-54 179
Msa1439670 AT3G52160.2 46.067 178 56 2 2 179 199 336 1.20e-48 161
Msa1439670 AT3G52160.1 46.067 178 56 2 2 179 312 449 1.27e-47 161
Msa1439670 AT2G28630.2 40.513 195 101 3 3 187 257 446 4.06e-46 158
Msa1439670 AT2G28630.1 40.513 195 101 3 3 187 257 446 4.06e-46 158
Msa1439670 AT1G07720.1 38.743 191 110 3 3 187 258 447 7.76e-41 144
Msa1439670 AT1G07720.2 38.743 191 110 3 3 187 301 490 9.79e-41 144
Msa1439670 AT5G04530.1 36.216 185 110 4 3 187 261 437 8.73e-35 127

Find 36 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCAAAGACTTAATTGAAAT+TGG 0.237658 tig0028837:-2223 Msa1439670:CDS
CTGGTATGAACTTGCTTATA+TGG 0.315118 tig0028837:-1891 Msa1439670:CDS
GTGTCACAAAACCTTCTTCT+AGG 0.319740 tig0028837:-1772 Msa1439670:CDS
CGTGTTTGGCAACTCGCTTT+TGG 0.347268 tig0028837:-1839 Msa1439670:CDS
TCAAAAGCTAGTTTGTAGTT+AGG 0.354642 tig0028837:+2046 None:intergenic
TTAGTGTGGAGGAACTTCTT+TGG 0.382188 tig0028837:-2118 Msa1439670:CDS
GAAAATAAGCTGTTCTGAAA+AGG 0.385068 tig0028837:+2150 None:intergenic
TTAAAAGAGGAGACCGTGTT+TGG 0.419933 tig0028837:-1853 Msa1439670:CDS
AGTTTGTAGTTAGGAATGTA+TGG 0.424543 tig0028837:+2055 None:intergenic
ATTTCTGATCGTCTTCCTCT+TGG 0.433317 tig0028837:+2263 None:intergenic
TACTAGAAGTGTTGCCGAAT+CGG 0.436153 tig0028837:+1921 None:intergenic
AACCTTCTTCTAGGAACCCT+TGG 0.447884 tig0028837:-1763 Msa1439670:CDS
AAAATAAGCTGTTCTGAAAA+GGG 0.455046 tig0028837:+2151 None:intergenic
AGAATGACGCTGCACCGATT+CGG 0.461090 tig0028837:-1935 Msa1439670:CDS
TTAAGTGTAACAGTGCTGTT+TGG 0.462133 tig0028837:-1808 Msa1439670:CDS
GCTTGTTAATTGAGAGAAGC+AGG 0.477899 tig0028837:+1719 None:intergenic
AGCCAAGGGTTCCTAGAAGA+AGG 0.494068 tig0028837:+1761 None:intergenic
ACACTTCTAGTAGCAGCATC+TGG 0.506481 tig0028837:-1910 Msa1439670:CDS
AAAGACTTAATTGAAATTGG+TGG 0.514408 tig0028837:-2220 Msa1439670:CDS
GTGTGGAGGAACTTCTTTGG+TGG 0.523308 tig0028837:-2115 Msa1439670:CDS
ACTTGCTTATATGGAAGCTA+AGG 0.533019 tig0028837:-1882 Msa1439670:CDS
TGGAGGAACTTCTTTGGTGG+TGG 0.537831 tig0028837:-2112 Msa1439670:CDS
ATGTATGGCTTGTTTGATGA+TGG 0.542182 tig0028837:+2070 None:intergenic
GGAAGACGATCAGAAATTCA+AGG 0.543870 tig0028837:-2257 Msa1439670:CDS
CATCACAACACTAGGACCAT+TGG 0.552303 tig0028837:-2179 Msa1439670:CDS
GCATCAATGCAGTCAAGCCA+AGG 0.562088 tig0028837:+1746 None:intergenic
TCTGAAAAGGGTAGGACCAA+TGG 0.573247 tig0028837:+2163 None:intergenic
TGAATTGAGTGACAAGAACA+TGG 0.579983 tig0028837:-1966 Msa1439670:CDS
AAAACAAACATCACAACACT+AGG 0.592072 tig0028837:-2187 Msa1439670:CDS
TCGGTGCAGCGTCATTCTAG+AGG 0.593076 tig0028837:+1940 None:intergenic
GAAGACGATCAGAAATTCAA+GGG 0.595322 tig0028837:-2256 Msa1439670:CDS
TAAGCTGTTCTGAAAAGGGT+AGG 0.602571 tig0028837:+2155 None:intergenic
TCTTTGCTACATTAGTGTGG+AGG 0.612338 tig0028837:-2129 Msa1439670:CDS
CATCAATGCAGTCAAGCCAA+GGG 0.623256 tig0028837:+1747 None:intergenic
CAAAAGCGAGTTGCCAAACA+CGG 0.635869 tig0028837:+1840 None:intergenic
ATGCAGGTGTGTGTACCAAG+AGG 0.695574 tig0028837:-2278 Msa1439670:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGCAAAGACTTAATTGAAAT+TGG - tig0028837:1845-1864 Msa1439670:CDS 25.0%
! AAAGACTTAATTGAAATTGG+TGG - tig0028837:1848-1867 Msa1439670:CDS 25.0%
!!! AAAATAAGCTGTTCTGAAAA+GGG + tig0028837:1920-1939 None:intergenic 25.0%
AAAACAAACATCACAACACT+AGG - tig0028837:1881-1900 Msa1439670:CDS 30.0%
!! GAAAATAAGCTGTTCTGAAA+AGG + tig0028837:1921-1940 None:intergenic 30.0%
! TTTTCTTTGCTACATTAGTG+TGG - tig0028837:1936-1955 Msa1439670:CDS 30.0%
AGTTTGTAGTTAGGAATGTA+TGG + tig0028837:2016-2035 None:intergenic 30.0%
! TCAAAAGCTAGTTTGTAGTT+AGG + tig0028837:2025-2044 None:intergenic 30.0%
GCTAAGGAAAAAGTTAAAAG+AGG - tig0028837:2202-2221 Msa1439670:CDS 30.0%
CTTAACTGTAACACAAATGC+AGG - tig0028837:1774-1793 Msa1439670:CDS 35.0%
GAAGACGATCAGAAATTCAA+GGG - tig0028837:1812-1831 Msa1439670:CDS 35.0%
!! ATGTATGGCTTGTTTGATGA+TGG + tig0028837:2001-2020 None:intergenic 35.0%
!!! CTTTTGAAGCTCATCAAGAA+TGG + tig0028837:2077-2096 None:intergenic 35.0%
TGAATTGAGTGACAAGAACA+TGG - tig0028837:2102-2121 Msa1439670:CDS 35.0%
! CTGGTATGAACTTGCTTATA+TGG - tig0028837:2177-2196 Msa1439670:CDS 35.0%
ACTTGCTTATATGGAAGCTA+AGG - tig0028837:2186-2205 Msa1439670:CDS 35.0%
! TTAAGTGTAACAGTGCTGTT+TGG - tig0028837:2260-2279 Msa1439670:CDS 35.0%
ATTTCTGATCGTCTTCCTCT+TGG + tig0028837:1808-1827 None:intergenic 40.0%
GGAAGACGATCAGAAATTCA+AGG - tig0028837:1811-1830 Msa1439670:CDS 40.0%
!! TAAGCTGTTCTGAAAAGGGT+AGG + tig0028837:1916-1935 None:intergenic 40.0%
TCTTTGCTACATTAGTGTGG+AGG - tig0028837:1939-1958 Msa1439670:CDS 40.0%
TTAGTGTGGAGGAACTTCTT+TGG - tig0028837:1950-1969 Msa1439670:CDS 40.0%
!! TACTAGAAGTGTTGCCGAAT+CGG + tig0028837:2150-2169 None:intergenic 40.0%
TTAAAAGAGGAGACCGTGTT+TGG - tig0028837:2215-2234 Msa1439670:CDS 40.0%
GTGTCACAAAACCTTCTTCT+AGG - tig0028837:2296-2315 Msa1439670:intron 40.0%
CATCACAACACTAGGACCAT+TGG - tig0028837:1889-1908 Msa1439670:CDS 45.0%
TCTGAAAAGGGTAGGACCAA+TGG + tig0028837:1908-1927 None:intergenic 45.0%
ACACTTCTAGTAGCAGCATC+TGG - tig0028837:2158-2177 Msa1439670:CDS 45.0%
CAAAAGCGAGTTGCCAAACA+CGG + tig0028837:2231-2250 None:intergenic 45.0%
! AACCTTCTTCTAGGAACCCT+TGG - tig0028837:2305-2324 Msa1439670:intron 45.0%
CATCAATGCAGTCAAGCCAA+GGG + tig0028837:2324-2343 None:intergenic 45.0%
ATGCAGGTGTGTGTACCAAG+AGG - tig0028837:1790-1809 Msa1439670:CDS 50.0%
GTGTGGAGGAACTTCTTTGG+TGG - tig0028837:1953-1972 Msa1439670:CDS 50.0%
TGGAGGAACTTCTTTGGTGG+TGG - tig0028837:1956-1975 Msa1439670:CDS 50.0%
!! AGAATGACGCTGCACCGATT+CGG - tig0028837:2133-2152 Msa1439670:CDS 50.0%
! CGTGTTTGGCAACTCGCTTT+TGG - tig0028837:2229-2248 Msa1439670:CDS 50.0%
!!! TGGCAACTCGCTTTTGGTTC+TGG - tig0028837:2235-2254 Msa1439670:CDS 50.0%
AGCCAAGGGTTCCTAGAAGA+AGG + tig0028837:2310-2329 None:intergenic 50.0%
GCATCAATGCAGTCAAGCCA+AGG + tig0028837:2325-2344 None:intergenic 50.0%
TCGGTGCAGCGTCATTCTAG+AGG + tig0028837:2131-2150 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
tig0028837 gene 1724 2366 1724 ID=Msa1439670;Name=Msa1439670
tig0028837 mRNA 1724 2366 1724 ID=Msa1439670-mRNA-1;Parent=Msa1439670;Name=Msa1439670-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|0|0|0.5|1|1|2|0|191
tig0028837 exon 2362 2366 2362 ID=Msa1439670-mRNA-1:exon:11931;Parent=Msa1439670-mRNA-1
tig0028837 exon 1724 2294 1724 ID=Msa1439670-mRNA-1:exon:11930;Parent=Msa1439670-mRNA-1
tig0028837 CDS 2362 2366 2362 ID=Msa1439670-mRNA-1:cds;Parent=Msa1439670-mRNA-1
tig0028837 CDS 1724 2294 1724 ID=Msa1439670-mRNA-1:cds;Parent=Msa1439670-mRNA-1
Gene Sequence

>Msa1439670

ATGAAGTGTGTGTACCAAGAGGAAGACGATCAGAAATTCAAGGGAATAAAGATAAGCAAAGACTTAATTGAAATTGGTGGTGAAGCTCTCAAAACAAACATCACAACACTAGGACCATTGGTCCTACCCTTTTCAGAACAGCTTATTTTCTTTGCTACATTAGTGTGGAGGAACTTCTTTGGTGGTGGAAAATCTGATAAAAATTCACCATCATCAAACAAGCCATACATTCCTAACTACAAACTAGCTTTTGAGCATTTTTGTGTGCATGCTGCTAGCAAAACCATTCTTGATGAGCTTCAAAAGAATCTTGAATTGAGTGACAAGAACATGGAAGCCTCTAGAATGACGCTGCACCGATTCGGCAACACTTCTAGTAGCAGCATCTGGTATGAACTTGCTTATATGGAAGCTAAGGAAAAAGTTAAAAGAGGAGACCGTGTTTGGCAACTCGCTTTTGGTTCTGGTTTTAAGTGTAACAGTGCTGTTTGGCGTTCTATGCGTCGTGTCACAAAACCTTCTTCTAGGAACCCTTGGCTTGACTGCATTGATGCATATCCTGCTTCTCTCAATTAA

Protein sequence

>Msa1439670

MKCVYQEEDDQKFKGIKISKDLIEIGGEALKTNITTLGPLVLPFSEQLIFFATLVWRNFFGGGKSDKNSPSSNKPYIPNYKLAFEHFCVHAASKTILDELQKNLELSDKNMEASRMTLHRFGNTSSSSIWYELAYMEAKEKVKRGDRVWQLAFGSGFKCNSAVWRSMRRVTKPSSRNPWLDCIDAYPASLN*