AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580028538.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028538.01.T01 MTR_5g073610 93.455 275 17 1 1 274 12 286 0.0 525
MsG0580028538.01.T01 MTR_5g073750 91.882 271 21 1 1 271 12 281 1.38e-176 488
MsG0580028538.01.T01 MTR_5g073810 72.910 299 62 1 1 280 12 310 3.31e-151 429
MsG0580028538.01.T01 MTR_5g073620 56.688 314 100 5 1 280 12 323 4.76e-104 326
MsG0580028538.01.T01 MTR_5g073460 56.491 285 117 5 1 280 12 294 5.45e-98 302
MsG0580028538.01.T01 MTR_5g073480 54.196 286 123 6 1 280 12 295 1.85e-96 296
MsG0580028538.01.T01 MTR_5g074130 53.571 280 125 3 1 280 13 287 5.30e-93 290
MsG0580028538.01.T01 MTR_5g073650 68.750 208 46 1 92 280 1 208 5.32e-90 270
MsG0580028538.01.T01 MTR_5g093530 54.701 234 101 3 1 234 13 241 2.52e-79 250
MsG0580028538.01.T01 MTR_5g073960 46.786 280 144 4 1 280 12 286 2.81e-77 241
MsG0580028538.01.T01 MTR_5g074450 51.383 253 101 5 2 234 13 263 2.05e-74 236
MsG0580028538.01.T01 MTR_3g464010 45.890 292 127 7 1 280 12 284 1.23e-73 238
MsG0580028538.01.T01 MTR_5g073920 47.350 283 133 5 1 280 12 281 1.94e-73 238
MsG0580028538.01.T01 MTR_5g073880 45.560 259 116 6 1 258 13 247 7.28e-65 204
MsG0580028538.01.T01 MTR_5g073660 43.554 287 92 6 1 259 31 275 9.57e-61 194
MsG0580028538.01.T01 MTR_5g073470 42.908 282 101 7 1 279 12 236 1.51e-59 191
MsG0580028538.01.T01 MTR_5g074190 57.143 175 70 3 1 175 9 178 3.30e-59 196
MsG0580028538.01.T01 MTR_5g073820 42.509 287 80 6 1 262 31 257 2.76e-56 188
MsG0580028538.01.T01 MTR_5g073770 39.931 288 102 6 1 280 12 236 2.85e-52 175
MsG0580028538.01.T01 MTR_5g073840 48.205 195 95 5 1 192 12 203 1.50e-50 167
MsG0580028538.01.T01 MTR_5g074150 55.000 160 70 2 2 161 24 181 6.06e-47 157
MsG0580028538.01.T01 MTR_5g074090 50.932 161 76 3 2 161 13 171 3.72e-45 153
MsG0580028538.01.T01 MTR_5g074200 35.294 238 143 4 1 234 9 239 2.52e-36 132
MsG0580028538.01.T01 MTR_5g073860 53.448 116 52 2 1 116 26 139 1.79e-34 128
MsG0580028538.01.T01 MTR_5g073500 48.684 152 45 5 2 153 1 119 5.76e-29 107
MsG0580028538.01.T01 MTR_6g078770 37.500 176 109 1 7 182 109 283 1.26e-28 112
MsG0580028538.01.T01 MTR_6g078610 40.506 158 93 1 6 163 593 749 8.45e-28 112
MsG0580028538.01.T01 MTR_5g074070 34.025 241 106 10 3 233 14 211 9.87e-27 105
MsG0580028538.01.T01 MTR_6g075870 34.483 174 109 4 7 177 613 784 6.12e-24 101
MsG0580028538.01.T01 MTR_5g093540 32.143 224 104 8 7 230 15 190 2.17e-17 79.7
MsG0580028538.01.T01 MTR_4g023690 53.226 62 28 1 71 132 26 86 8.99e-16 71.2
MsG0580028538.01.T01 MTR_6g078620 35.099 151 74 3 16 166 94 220 3.30e-15 73.6
MsG0580028538.01.T01 MTR_6g078770 28.977 176 93 1 7 182 109 252 3.69e-15 74.7
MsG0580028538.01.T01 MTR_5g073830 45.333 75 41 0 1 75 12 86 4.94e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 47 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATTCAGTGGTTCTTAATA+TGG 0.196083 5:+81995720 MsG0580028538.01.T01:CDS
GGATTTGCTGCTGTTGTTGC+TGG 0.254444 5:+81995208 MsG0580028538.01.T01:CDS
CAACTGGCTAGTACTAATTT+TGG 0.264131 5:+81995751 MsG0580028538.01.T01:CDS
TCTTCCTTCAACTATCTCTT+TGG 0.283998 5:+81995253 MsG0580028538.01.T01:CDS
TGTTTCCTCTAGGTCTTTGA+TGG 0.289475 5:-81995929 None:intergenic
AAAGTCCATTCAAATGGTTT+TGG 0.296790 5:+81995828 MsG0580028538.01.T01:CDS
TCATACAACATTTGCTGTAT+TGG 0.315167 5:+81995390 MsG0580028538.01.T01:CDS
TAATATGGATTCTCTACAAC+TGG 0.399665 5:+81995735 MsG0580028538.01.T01:CDS
TCCTTCAACTATCTCTTTGG+AGG 0.401422 5:+81995256 MsG0580028538.01.T01:CDS
ATGTGCATCCTTTGCTGTCA+CGG 0.423858 5:+81995486 MsG0580028538.01.T01:CDS
AGGCTCCAAAACCATTTGAA+TGG 0.441764 5:-81995833 None:intergenic
CCCACAAATCTCCACACCTT+TGG 0.444313 5:-81995187 None:intergenic
GAACCACTGAATTTCCATCT+TGG 0.449916 5:-81995711 None:intergenic
CCAAAGGTGTGGAGATTTGT+GGG 0.449986 5:+81995187 MsG0580028538.01.T01:CDS
AGAGGAAACAACAAATGTTA+TGG 0.453162 5:+81995942 MsG0580028538.01.T01:CDS
AAATTCAAAGTCCATTCAAA+TGG 0.453874 5:+81995822 MsG0580028538.01.T01:CDS
CAACGCGTCAAACATGAAGT+TGG 0.460762 5:-81995896 None:intergenic
TAACATTTGTTGTTTCCTCT+AGG 0.473814 5:-81995939 None:intergenic
GAAATGAGACTCCATGCATC+TGG 0.481164 5:-81995463 None:intergenic
TCCTCCAAAGAGATAGTTGA+AGG 0.485636 5:-81995257 None:intergenic
ACACTCACAATCGGTGATAG+AGG 0.488023 5:+81995870 MsG0580028538.01.T01:CDS
ACAAATGTTATGGCGAGGGC+CGG 0.488972 5:+81995952 MsG0580028538.01.T01:CDS
AACGCGTCAAACATGAAGTT+GGG 0.499337 5:-81995895 None:intergenic
TCAACTATCTCTTTGGAGGA+TGG 0.506399 5:+81995260 MsG0580028538.01.T01:CDS
CAAATGTTATGGCGAGGGCC+GGG 0.513454 5:+81995953 MsG0580028538.01.T01:CDS
AAAACTTAAACACTCACAAT+CGG 0.520932 5:+81995861 MsG0580028538.01.T01:CDS
GGCAACACTCAAGAAGTCAT+TGG 0.523682 5:+81995359 MsG0580028538.01.T01:CDS
TCTAGCATCTATTGAAGGAA+AGG 0.524621 5:-81995665 None:intergenic
TGCATAATACGCCAGATGCA+TGG 0.531259 5:+81995452 MsG0580028538.01.T01:CDS
CAGTGTTCTGAATTCCAAGA+TGG 0.558001 5:+81995697 MsG0580028538.01.T01:CDS
GCCAAAGGTGTGGAGATTTG+TGG 0.566628 5:+81995186 MsG0580028538.01.T01:CDS
AACAACAAATGTTATGGCGA+GGG 0.585862 5:+81995948 MsG0580028538.01.T01:CDS
TCACGGCGCTTAGTTTGTCA+AGG 0.598752 5:+81995503 MsG0580028538.01.T01:CDS
ACTAAGCGCCGTGACAGCAA+AGG 0.610060 5:-81995494 None:intergenic
CGTGTGAAGGCACTCGAGCA+CGG 0.617949 5:+81995799 MsG0580028538.01.T01:CDS
AAACAACAAATGTTATGGCG+AGG 0.620335 5:+81995947 MsG0580028538.01.T01:CDS
ATTCCAAGATGGAAATTCAG+TGG 0.625640 5:+81995708 MsG0580028538.01.T01:CDS
AAAACTCGAGACTCGTGTGA+AGG 0.633334 5:+81995786 MsG0580028538.01.T01:CDS
ATGTGTACAACAATAGTCGT+AGG 0.639424 5:+81995995 MsG0580028538.01.T01:CDS
CTATTGAAGGAAAGGATGAA+CGG 0.640738 5:-81995657 None:intergenic
CTTTGGAGGATGGACCATGT+TGG 0.645605 5:+81995270 MsG0580028538.01.T01:CDS
GGATGATGCAGCCAAAGGTG+TGG 0.649228 5:+81995176 None:intergenic
GAGATGGATGATGCAGCCAA+AGG 0.694750 5:+81995171 None:intergenic
AGAAACCATCAAAGACCTAG+AGG 0.695509 5:+81995924 MsG0580028538.01.T01:CDS
TGAGTGTTGCCATATCCTTG+CGG 0.704895 5:-81995347 None:intergenic
TCAAGGAACGAAACTCAATG+CGG 0.732487 5:+81995520 MsG0580028538.01.T01:CDS
GTAAAGAGTTATCACCAACA+TGG 0.757087 5:-81995284 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GCATTGAAATTATTCATTTT+TGG + Chr5:81995604-81995623 MsG0580028538.01.T01:CDS 20.0%
! AAAACTTAAACACTCACAAT+CGG + Chr5:81995861-81995880 MsG0580028538.01.T01:CDS 25.0%
! AAATTCAAAGTCCATTCAAA+TGG + Chr5:81995822-81995841 MsG0580028538.01.T01:CDS 25.0%
! AAATTCAGTGGTTCTTAATA+TGG + Chr5:81995720-81995739 MsG0580028538.01.T01:CDS 25.0%
!! GATCTTCTATATTTTCTTCT+TGG + Chr5:81995553-81995572 MsG0580028538.01.T01:CDS 25.0%
AGAGGAAACAACAAATGTTA+TGG + Chr5:81995942-81995961 MsG0580028538.01.T01:CDS 30.0%
GAAAAAATTGTTCTCAAACC+CGG - Chr5:81995974-81995993 None:intergenic 30.0%
TAATATGGATTCTCTACAAC+TGG + Chr5:81995735-81995754 MsG0580028538.01.T01:CDS 30.0%
! AAAGTCCATTCAAATGGTTT+TGG + Chr5:81995828-81995847 MsG0580028538.01.T01:CDS 30.0%
! TTTTCTCTAGCATCTATTGA+AGG - Chr5:81995673-81995692 None:intergenic 30.0%
!! CTAGTACTAATTTTGGTAGT+AGG + Chr5:81995758-81995777 MsG0580028538.01.T01:CDS 30.0%
!! GAGTGTTTAAGTTTTCTTAC+AGG - Chr5:81995856-81995875 None:intergenic 30.0%
!! TAACATTTGTTGTTTCCTCT+AGG - Chr5:81995942-81995961 None:intergenic 30.0%
!! TACTAATTTTGGTAGTAGGT+TGG + Chr5:81995762-81995781 MsG0580028538.01.T01:CDS 30.0%
!! TCATACAACATTTGCTGTAT+TGG + Chr5:81995390-81995409 MsG0580028538.01.T01:CDS 30.0%
!!! TGTTAGTTTTATTTTCCGCA+AGG + Chr5:81995332-81995351 MsG0580028538.01.T01:CDS 30.0%
!!! TTTTATTTTCCGCAAGGATA+TGG + Chr5:81995338-81995357 MsG0580028538.01.T01:CDS 30.0%
AAACAACAAATGTTATGGCG+AGG + Chr5:81995947-81995966 MsG0580028538.01.T01:CDS 35.0%
AACAACAAATGTTATGGCGA+GGG + Chr5:81995948-81995967 MsG0580028538.01.T01:CDS 35.0%
ATGTGTACAACAATAGTCGT+AGG + Chr5:81995995-81996014 MsG0580028538.01.T01:CDS 35.0%
ATTCCAAGATGGAAATTCAG+TGG + Chr5:81995708-81995727 MsG0580028538.01.T01:CDS 35.0%
CTATTGAAGGAAAGGATGAA+CGG - Chr5:81995660-81995679 None:intergenic 35.0%
GTAAAGAGTTATCACCAACA+TGG - Chr5:81995287-81995306 None:intergenic 35.0%
TCTAGCATCTATTGAAGGAA+AGG - Chr5:81995668-81995687 None:intergenic 35.0%
TCTTCCTTCAACTATCTCTT+TGG + Chr5:81995253-81995272 MsG0580028538.01.T01:CDS 35.0%
! CAACTGGCTAGTACTAATTT+TGG + Chr5:81995751-81995770 MsG0580028538.01.T01:CDS 35.0%
AACGCGTCAAACATGAAGTT+GGG - Chr5:81995898-81995917 None:intergenic 40.0%
AGAAACCATCAAAGACCTAG+AGG + Chr5:81995924-81995943 MsG0580028538.01.T01:CDS 40.0%
AGGCTCCAAAACCATTTGAA+TGG - Chr5:81995836-81995855 None:intergenic 40.0%
GAACCACTGAATTTCCATCT+TGG - Chr5:81995714-81995733 None:intergenic 40.0%
TCAAGGAACGAAACTCAATG+CGG + Chr5:81995520-81995539 MsG0580028538.01.T01:CDS 40.0%
TCCTCCAAAGAGATAGTTGA+AGG - Chr5:81995260-81995279 None:intergenic 40.0%
TCCTTCAACTATCTCTTTGG+AGG + Chr5:81995256-81995275 MsG0580028538.01.T01:CDS 40.0%
TGTTTCCTCTAGGTCTTTGA+TGG - Chr5:81995932-81995951 None:intergenic 40.0%
! CAGTGTTCTGAATTCCAAGA+TGG + Chr5:81995697-81995716 MsG0580028538.01.T01:CDS 40.0%
! TCAACTATCTCTTTGGAGGA+TGG + Chr5:81995260-81995279 MsG0580028538.01.T01:CDS 40.0%
AAAACTCGAGACTCGTGTGA+AGG + Chr5:81995786-81995805 MsG0580028538.01.T01:CDS 45.0%
ACACTCACAATCGGTGATAG+AGG + Chr5:81995870-81995889 MsG0580028538.01.T01:CDS 45.0%
CAACGCGTCAAACATGAAGT+TGG - Chr5:81995899-81995918 None:intergenic 45.0%
GAAATGAGACTCCATGCATC+TGG - Chr5:81995466-81995485 None:intergenic 45.0%
GGCAACACTCAAGAAGTCAT+TGG + Chr5:81995359-81995378 MsG0580028538.01.T01:CDS 45.0%
TGCATAATACGCCAGATGCA+TGG + Chr5:81995452-81995471 MsG0580028538.01.T01:CDS 45.0%
! ATGTGCATCCTTTGCTGTCA+CGG + Chr5:81995486-81995505 MsG0580028538.01.T01:CDS 45.0%
! CCAAAGGTGTGGAGATTTGT+GGG + Chr5:81995187-81995206 MsG0580028538.01.T01:CDS 45.0%
! TGAGTGTTGCCATATCCTTG+CGG - Chr5:81995350-81995369 None:intergenic 45.0%
ACAAATGTTATGGCGAGGGC+CGG + Chr5:81995952-81995971 MsG0580028538.01.T01:CDS 50.0%
CCCACAAATCTCCACACCTT+TGG - Chr5:81995190-81995209 None:intergenic 50.0%
! CTTTGGAGGATGGACCATGT+TGG + Chr5:81995270-81995289 MsG0580028538.01.T01:CDS 50.0%
! GCCAAAGGTGTGGAGATTTG+TGG + Chr5:81995186-81995205 MsG0580028538.01.T01:CDS 50.0%
!! GGATTTGCTGCTGTTGTTGC+TGG + Chr5:81995208-81995227 MsG0580028538.01.T01:CDS 50.0%
!! TCACGGCGCTTAGTTTGTCA+AGG + Chr5:81995503-81995522 MsG0580028538.01.T01:CDS 50.0%
CAAATGTTATGGCGAGGGCC+GGG + Chr5:81995953-81995972 MsG0580028538.01.T01:CDS 55.0%
! ACTAAGCGCCGTGACAGCAA+AGG - Chr5:81995497-81995516 None:intergenic 55.0%
!! CGTGTGAAGGCACTCGAGCA+CGG + Chr5:81995799-81995818 MsG0580028538.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 81995178 81996020 81995178 ID=MsG0580028538.01;Name=MsG0580028538.01
Chr5 mRNA 81995178 81996020 81995178 ID=MsG0580028538.01.T01;Parent=MsG0580028538.01;Name=MsG0580028538.01.T01;_AED=0.28;_eAED=0.28;_QI=0|-1|0|1|-1|1|1|0|280
Chr5 exon 81995178 81996020 81995178 ID=MsG0580028538.01.T01:exon:33041;Parent=MsG0580028538.01.T01
Chr5 CDS 81995178 81996020 81995178 ID=MsG0580028538.01.T01:cds;Parent=MsG0580028538.01.T01
Gene Sequence

>MsG0580028538.01.T01

ATGATGCAGCCAAAGGTGTGGAGATTTGTGGGATTTGCTGCTGTTGTTGCTGGACTGCTCTGCAATGCTCTAAGTTCTTCCTTCAACTATCTCTTTGGAGGATGGACCATGTTGGTGATAACTCTTTACACTGTTTTCAGTTTCATCATTTGCGTGTTAGTTTTATTTTCCGCAAGGATATGGCAACACTCAAGAAGTCATTGGTTCGTAGCTCATACAACATTTGCTGTATTGGCAATCACGTCACTGTATTCGTATTTCTTTGATAAATTAATGCATAATACGCCAGATGCATGGAGTCTCATTTCATGTGCATCCTTTGCTGTCACGGCGCTTAGTTTGTCAAGGAACGAAACTCAATGCGGATTTGAAATCGATCTTCTATATTTTCTTCTTGGATGTCTAATGATGCAACTCATGAAGATTGCATTGAAATTATTCATTTTTGGAGCAGTTTTCAGCTATTTTCTTATTATTATCCGTTCATCCTTTCCTTCAATAGATGCTAGAGAAAAGAAACAGTGTTCTGAATTCCAAGATGGAAATTCAGTGGTTCTTAATATGGATTCTCTACAACTGGCTAGTACTAATTTTGGTAGTAGGTTGGAAAAACTCGAGACTCGTGTGAAGGCACTCGAGCACGGAAATTCAAAGTCCATTCAAATGGTTTTGGAGCCTGTAAGAAAACTTAAACACTCACAATCGGTGATAGAGGATCCCAACTTCATGTTTGACGCGTTGAAGAAAGAAACCATCAAAGACCTAGAGGAAACAACAAATGTTATGGCGAGGGCCGGGTTTGAGAACAATTTTTTCGATGTGTACAACAATAGTCGTAGGTAA
Protein sequence

>MsG0580028538.01.T01

MMQPKVWRFVGFAAVVAGLLCNALSSSFNYLFGGWTMLVITLYTVFSFIICVLVLFSARIWQHSRSHWFVAHTTFAVLAITSLYSYFFDKLMHNTPDAWSLISCASFAVTALSLSRNETQCGFEIDLLYFLLGCLMMQLMKIALKLFIFGAVFSYFLIIIRSSFPSIDAREKKQCSEFQDGNSVVLNMDSLQLASTNFGSRLEKLETRVKALEHGNSKSIQMVLEPVRKLKHSQSVIEDPNFMFDALKKETIKDLEETTNVMARAGFENNFFDVYNNSRR*