AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024915

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024915 MtrunA17_Chr5g0395391 91.892 296 24 0 1 296 12 307 0.0 542
MsaG024915 MtrunA17_Chr5g0395391 85.577 104 15 0 121 224 234 337 1.71e-58 191
MsaG024915 MtrunA17_Chr1g0169431 69.874 239 57 3 1 224 1 239 6.76e-99 291
MsaG024915 MtrunA17_Chr1g0169431 72.000 75 21 0 222 296 135 209 1.24e-33 123
MsaG024915 MtrunA17_Chr8g0340401 41.398 186 98 4 46 224 112 293 3.52e-33 124
MsaG024915 MtrunA17_Chr8g0340401 57.143 49 21 0 248 296 215 263 9.12e-13 67.8
MsaG024915 MtrunA17_Chr2g0326771 44.720 161 66 3 83 220 119 279 2.21e-31 119
MsaG024915 MtrunA17_Chr2g0326771 65.116 43 15 0 247 289 204 246 5.48e-13 68.2
MsaG024915 MtrunA17_Chr8g0372291 70.000 70 21 0 155 224 216 285 2.68e-30 115
MsaG024915 MtrunA17_Chr8g0372291 62.500 40 15 0 257 296 216 255 4.64e-12 65.5
MsaG024915 MtrunA17_Chr1g0199671 54.545 99 45 0 122 220 207 305 2.84e-30 116
MsaG024915 MtrunA17_Chr1g0199671 49.296 71 34 2 220 289 203 272 5.46e-12 65.5
MsaG024915 MtrunA17_Chr6g0461591 73.846 65 17 0 156 220 191 255 4.82e-30 114
MsaG024915 MtrunA17_Chr6g0461591 64.103 39 14 0 258 296 191 229 2.50e-11 62.8
MsaG024915 MtrunA17_Chr3g0140331 73.913 69 18 0 156 224 252 320 7.03e-30 116
MsaG024915 MtrunA17_Chr3g0140331 53.846 52 24 0 238 289 232 283 3.78e-12 66.2
MsaG024915 MtrunA17_Chr1g0146231 71.831 71 20 0 157 227 234 304 7.63e-30 115
MsaG024915 MtrunA17_Chr1g0146231 77.419 31 7 0 259 289 234 264 2.95e-11 63.5
MsaG024915 MtrunA17_Chr7g0253101 75.000 64 16 0 157 220 188 251 1.98e-29 113
MsaG024915 MtrunA17_Chr7g0253101 65.789 38 13 0 259 296 188 225 4.94e-11 62.0
MsaG024915 MtrunA17_Chr4g0028961 62.651 83 30 1 139 220 213 295 7.71e-29 112
MsaG024915 MtrunA17_Chr4g0028961 54.000 50 23 0 247 296 220 269 4.33e-11 62.8
MsaG024915 MtrunA17_Chr4g0035891 42.308 156 60 4 93 224 129 278 2.62e-28 110
MsaG024915 MtrunA17_Chr4g0035891 41.071 112 50 5 191 296 147 248 7.58e-12 64.7
MsaG024915 MtrunA17_Chr1g0213161 68.182 66 21 0 155 220 150 215 2.86e-28 109
MsaG024915 MtrunA17_Chr1g0213161 72.727 33 9 0 257 289 150 182 1.65e-11 63.2
MsaG024915 MtrunA17_Chr5g0404981 66.667 72 24 0 157 228 300 371 4.40e-28 112
MsaG024915 MtrunA17_Chr3g0145121 59.259 81 33 0 148 228 206 286 4.87e-28 110
MsaG024915 MtrunA17_Chr7g0232671 54.839 62 28 0 157 218 187 248 1.36e-17 80.5
MsaG024915 MtrunA17_Chr7g0232701 51.613 62 30 0 157 218 73 134 1.50e-15 72.4
MsaG024915 MtrunA17_Chr7g0232681 50.000 62 31 0 157 218 132 193 6.63e-15 72.0
MsaG024915 MtrunA17_Chr5g0404131 34.234 111 55 3 92 189 119 224 5.71e-11 62.4
MsaG024915 MtrunA17_Chr7g0271861 57.143 42 18 0 151 192 16 57 6.30e-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
MsaG024915 AT3G24050.1 40.444 225 99 5 24 220 40 257 1.12e-41 145
MsaG024915 AT3G24050.1 54.098 61 21 1 243 296 171 231 2.04e-14 72.4
MsaG024915 AT4G34680.1 47.857 140 58 4 96 224 112 247 1.11e-33 124
MsaG024915 AT4G34680.1 47.887 71 35 1 222 290 141 211 1.88e-12 66.6
MsaG024915 AT4G34680.2 47.857 140 58 4 96 224 112 247 1.11e-33 124
MsaG024915 AT4G34680.2 47.887 71 35 1 222 290 141 211 1.88e-12 66.6
MsaG024915 AT3G60530.1 47.967 123 56 2 109 224 104 225 1.83e-31 118
MsaG024915 AT3G60530.1 46.429 56 30 0 241 296 140 195 7.75e-11 61.6
MsaG024915 AT1G08010.2 39.773 176 67 5 78 222 118 285 4.47e-31 118
MsaG024915 AT1G08010.2 50.980 51 25 0 246 296 207 257 6.28e-11 62.8
MsaG024915 AT1G08010.1 39.773 176 67 5 78 222 118 285 4.47e-31 118
MsaG024915 AT1G08010.1 50.980 51 25 0 246 296 207 257 6.28e-11 62.8
MsaG024915 AT1G08010.3 39.773 176 67 5 78 222 118 285 4.47e-31 118
MsaG024915 AT1G08010.3 50.980 51 25 0 246 296 207 257 6.28e-11 62.8
MsaG024915 AT4G32890.1 72.464 69 19 0 156 224 196 264 1.81e-30 117
MsaG024915 AT4G32890.1 75.000 32 8 0 258 289 196 227 3.70e-11 63.2
MsaG024915 AT2G45050.1 45.578 147 56 4 101 224 101 246 7.97e-30 114
MsaG024915 AT5G25830.1 73.529 68 18 0 157 224 219 286 1.67e-29 115
MsaG024915 AT1G08000.2 38.542 192 87 6 56 220 94 281 2.08e-29 114
MsaG024915 AT1G08000.1 38.542 192 87 6 56 220 94 281 2.08e-29 114
MsaG024915 AT5G66320.2 72.059 68 19 0 157 224 249 316 4.37e-29 114
MsaG024915 AT5G66320.2 68.421 38 12 0 259 296 249 286 3.08e-11 63.9
MsaG024915 AT5G66320.1 72.059 68 19 0 157 224 249 316 4.37e-29 114
MsaG024915 AT5G66320.1 68.421 38 12 0 259 296 249 286 3.08e-11 63.9
MsaG024915 AT3G51080.1 72.059 68 19 0 157 224 221 288 7.48e-29 112
MsaG024915 AT4G36240.1 35.644 202 104 5 23 220 48 227 2.24e-28 109
MsaG024915 AT3G45170.1 44.366 142 57 4 86 224 60 182 3.78e-28 108
MsaG024915 AT3G54810.1 70.312 64 19 0 157 220 229 292 2.78e-26 106
MsaG024915 AT3G54810.2 70.312 64 19 0 157 220 229 292 2.78e-26 106
MsaG024915 AT2G28340.1 64.516 62 22 0 159 220 193 254 8.15e-23 96.3
MsaG024915 AT3G06740.1 63.889 36 13 0 157 192 41 76 4.11e-11 60.8

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTTGCAGGGCGGTATTC+AGG 0.237442 5:-2029688 None:intergenic
ATGTGCTTAGATTGGGGATT+AGG 0.251282 5:+2030323 MsaT024915.1:CDS
TGTGCTTAGATTGGGGATTA+GGG 0.343205 5:+2030324 MsaT024915.1:CDS
GGTTTGCTTCGATTGTTCTT+TGG 0.359998 5:-2029845 None:intergenic
GTTGTTTCCACGCGAATTGA+TGG 0.373020 5:-2029501 None:intergenic
CACATCACATGTGCTTAGAT+TGG 0.390703 5:+2030315 MsaT024915.1:CDS
ATGCATGTGGGGTTAGGTAT+AGG 0.393134 5:+2029650 MsaT024915.1:CDS
CGAAATATCTGGTTGAATAC+AGG 0.393474 5:-2029308 None:intergenic
CCACGCGAATTGATGGTTCC+AGG 0.401734 5:-2029494 None:intergenic
AGCTGGAAATGCATCTTTGT+TGG 0.402382 5:-2029263 None:intergenic
GCTGTTTCCACGTGAATTGA+CGG 0.414591 5:-2029807 None:intergenic
TTTGTAATGCATGTGGGGTT+AGG 0.415099 5:+2029644 MsaT024915.1:CDS
TCTTTGGATGCTTTGTTACT+CGG 0.415607 5:-2029829 None:intergenic
ACATCACATGTGCTTAGATT+GGG 0.417527 5:+2030316 MsaT024915.1:CDS
TCATCAAATGTTTCAACAGC+TGG 0.422269 5:-2029280 None:intergenic
GAGCTGATAATACTCCTCTA+TGG 0.452228 5:+2029593 MsaT024915.1:CDS
CTATGGCGTGCAGGTCCTGC+TGG 0.452250 5:+2029610 MsaT024915.1:CDS
CTTGTGCTGTTCTCAACAAT+TGG 0.453321 5:-2029349 None:intergenic
TAATGCTGTTGGAACTGTTA+TGG 0.453732 5:-2029384 None:intergenic
GACTTGCTCCGTGCACGGAC+AGG 0.469909 5:-2029439 None:intergenic
TTGATTCTGTGGATGACCTA+TGG 0.476926 5:+2028636 MsaT024915.1:CDS
TTTGTAATGCATGTGGGGTC+AGG 0.477301 5:+2029950 MsaT024915.1:CDS
AACAGCATTACACTCTTAAG+TGG 0.478526 5:+2029397 MsaT024915.1:CDS
GCCTTGGCATTTCTGACACA+TGG 0.480082 5:+2029782 MsaT024915.1:CDS
ACATTTCCTCCCAATGGTTG+AGG 0.482486 5:-2029866 None:intergenic
CGAAGCAAACCTCAACCATT+GGG 0.485894 5:+2029857 MsaT024915.1:CDS
GCGAAACAAACCTCAACCAT+TGG 0.490923 5:+2029550 MsaT024915.1:CDS
TTAAACTTACAGAAAATGAA+TGG 0.491207 5:-2028739 None:intergenic
GCCTCGGCATTTCTGATACC+TGG 0.496075 5:+2029476 MsaT024915.1:CDS
ACATTGCCTCCCAATGGTTG+AGG 0.497491 5:-2029560 None:intergenic
TCGAAGCAAACCTCAACCAT+TGG 0.499266 5:+2029856 MsaT024915.1:CDS
AGCATTTCCTTCATTTGACC+TGG 0.504334 5:+2028706 MsaT024915.1:CDS
CGAAACAAACCTCAACCATT+GGG 0.506442 5:+2029551 MsaT024915.1:CDS
ACTTACAGAAAATGAATGGT+TGG 0.511740 5:-2028735 None:intergenic
GATGGAGGCTCTTGATTCTG+TGG 0.514579 5:+2028625 None:intergenic
GTTCCAGGAGTTTGCAGTAG+AGG 0.515595 5:+2029225 MsaT024915.1:intron
AATACTCCGCAATGGCGTGC+AGG 0.516576 5:+2029907 MsaT024915.1:CDS
TGAAGTTCCCTGTCCGTGCA+CGG 0.541394 5:+2029431 MsaT024915.1:CDS
TGGAGTTTCTTATCTGACAT+AGG 0.541869 5:+2028656 MsaT024915.1:CDS
TTGCAGTAGAGGATCTTGAA+TGG 0.544677 5:+2029236 MsaT024915.1:CDS
AATACTCCTCTATGGCGTGC+AGG 0.546436 5:+2029601 MsaT024915.1:CDS
TGTGGGGTTAGGTATAGGTC+TGG 0.555845 5:+2029655 MsaT024915.1:CDS
ATGAATGGTTGGTATCATCC+AGG 0.557618 5:-2028724 None:intergenic
TATTTCCACTACTTTCCTGT+GGG 0.558023 5:-2029743 None:intergenic
TGCGAGACTTGCTCCGTGCA+CGG 0.562316 5:-2029444 None:intergenic
ACTTGCTCCGTGCACGGACA+GGG 0.574860 5:-2029438 None:intergenic
AACACTTTGTAATGCATGTG+GGG 0.575624 5:+2029639 MsaT024915.1:CDS
GTATCATCCAGGTCAAATGA+AGG 0.576270 5:-2028713 None:intergenic
GCAGGACCTGCACGCCATAG+AGG 0.577006 5:-2029607 None:intergenic
AAAACACTTTGTAATGCATG+TGG 0.577073 5:+2029637 MsaT024915.1:CDS
AAAACACTTTGTAATGCATG+TGG 0.577073 5:+2029943 MsaT024915.1:CDS
ACTTAAGAGTGTAATGCTGT+TGG 0.577340 5:-2029395 None:intergenic
ATGATGACATTTCCTCCCAA+TGG 0.580868 5:-2029872 None:intergenic
CATCACATGTGCTTAGATTG+GGG 0.585297 5:+2030317 MsaT024915.1:CDS
CAATGGCGTGCAGGTCCCGA+TGG 0.590689 5:+2029916 MsaT024915.1:CDS
ATTCGTAGTAAGCCTCGCCT+TGG 0.591249 5:+2029766 MsaT024915.1:CDS
TTATTTCCACTACTTTCCTG+TGG 0.598127 5:-2029744 None:intergenic
AAACACTTTGTAATGCATGT+GGG 0.605185 5:+2029638 MsaT024915.1:CDS
TAATTCCCACAGGAAAGTAG+TGG 0.608211 5:+2029738 MsaT024915.1:CDS
TCCATGTGTCAGAAATGCCA+AGG 0.617962 5:-2029783 None:intergenic
AACACTTTGTAATGCATGTG+GGG 0.618425 5:+2029945 MsaT024915.1:CDS
AAACACTTTGTAATGCATGT+GGG 0.620936 5:+2029944 MsaT024915.1:CDS
GGGAGGAAATGTCATCATTG+TGG 0.622937 5:+2029877 MsaT024915.1:CDS
GGGAGGCAATGTCATCATTG+TGG 0.625233 5:+2029571 MsaT024915.1:CDS
ATGTGCATTCTAATTCCCAC+AGG 0.631252 5:+2029728 MsaT024915.1:CDS
GGCGGTATTCAGGTACAAGT+CGG 0.632650 5:-2029678 None:intergenic
TTTCTTATCTGACATAGGCG+AGG 0.637448 5:+2028661 MsaT024915.1:CDS
AACAAACCTCAACCATTGGG+AGG 0.638620 5:+2029554 MsaT024915.1:CDS
CCTGGAACCATCAATTCGCG+TGG 0.640359 5:+2029494 MsaT024915.1:CDS
TCCAGGTATCAGAAATGCCG+AGG 0.643154 5:-2029477 None:intergenic
TGTCAGATAAGAAACTCCAT+AGG 0.643894 5:-2028652 None:intergenic
CATGGAACCGTCAATTCACG+TGG 0.644051 5:+2029800 MsaT024915.1:CDS
TCTCGCAGTAAGCCTCGCCT+CGG 0.646601 5:+2029460 MsaT024915.1:CDS
TCGGGACCTGCACGCCATTG+CGG 0.648022 5:-2029913 None:intergenic
ATGATGACATTGCCTCCCAA+TGG 0.653586 5:-2029566 None:intergenic
GTATCAGAAATGCCGAGGCG+AGG 0.653593 5:-2029472 None:intergenic
GTGTCAGAAATGCCAAGGCG+AGG 0.655134 5:-2029778 None:intergenic
AGCAAACCTCAACCATTGGG+AGG 0.655985 5:+2029860 MsaT024915.1:CDS
GAGCTGATAATACTCCGCAA+TGG 0.677467 5:+2029899 MsaT024915.1:CDS
AAGTTGGGCTCTTTGCAGGG+CGG 0.700990 5:-2029696 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 2028626 2030366 2028626 ID=MsaG024915
Chr5 mRNA 2028626 2030366 2028626 ID=MsaT024915.1;Parent=MsaG024915
Chr5 exon 2028626 2028751 2028626 ID=MsaT024915.1.exon1;Parent=MsaT024915.1
Chr5 CDS 2028626 2028751 2028626 ID=cds.MsaT024915.1;Parent=MsaT024915.1
Chr5 exon 2029232 2029971 2029232 ID=MsaT024915.1.exon2;Parent=MsaT024915.1
Chr5 CDS 2029232 2029971 2029232 ID=cds.MsaT024915.1;Parent=MsaT024915.1
Chr5 exon 2030309 2030366 2030309 ID=MsaT024915.1.exon3;Parent=MsaT024915.1
Chr5 CDS 2030309 2030366 2030309 ID=cds.MsaT024915.1;Parent=MsaT024915.1
Gene Sequence

>MsaT024915.1

ATGGAGGCTCTTGATTCTGTGGATGACCTATGGAGTTTCTTATCTGACATAGGCGAGGATGATTATGACAAACCTACAAAAGCATTTCCTTCATTTGACCTGGATGATACCAACCATTCATTTTCTGAGTTTGCAGTAGAGGATCTTGAATGGCTATCCAACAAAGATGCATTTCCAGCTGTTGAAACATTTGATGACTTTTCCTGTATTCAACCAGATATTTCGCAGAATCAAAAGATAGCACCAATTGTTGAGAACAGCACAAGTAGTAGCAACAGCCATAACAGTTCCAACAGCATTACACTCTTAAGTGGCTACAATCACGTGAAGTTCCCTGTCCGTGCACGGAGCAAGTCTCGCAGTAAGCCTCGCCTCGGCATTTCTGATACCTGGAACCATCAATTCGCGTGGAAACAACTGAGTAACAAAACTTCTAAAGAACAAGCGAAACAAACCTCAACCATTGGGAGGCAATGTCATCATTGTGGAGCTGATAATACTCCTCTATGGCGTGCAGGTCCTGCTGGTCCAAAAACACTTTGTAATGCATGTGGGGTTAGGTATAGGTCTGGCCGACTTGTACCTGAATACCGCCCTGCAAAGAGCCCAACTTTTTGCAGCAATGTGCATTCTAATTCCCACAGGAAAGTAGTGGAAATAATTCGTAGTAAGCCTCGCCTTGGCATTTCTGACACATGGAACCGTCAATTCACGTGGAAACAGCCGAGTAACAAAGCATCCAAAGAACAATCGAAGCAAACCTCAACCATTGGGAGGAAATGTCATCATTGTGGAGCTGATAATACTCCGCAATGGCGTGCAGGTCCCGATGGTCCAAAAACACTTTGTAATGCATGTGGGGTCAGGTTGCTCACATCACATGTGCTTAGATTGGGGATTAGGGAGAAGATGAGTTGCAAGTAG
Protein sequence

>MsaT024915.1

MEALDSVDDLWSFLSDIGEDDYDKPTKAFPSFDLDDTNHSFSEFAVEDLEWLSNKDAFPAVETFDDFSCIQPDISQNQKIAPIVENSTSSSNSHNSSNSITLLSGYNHVKFPVRARSKSRSKPRLGISDTWNHQFAWKQLSNKTSKEQAKQTSTIGRQCHHCGADNTPLWRAGPAGPKTLCNACGVRYRSGRLVPEYRPAKSPTFCSNVHSNSHRKVVEIIRSKPRLGISDTWNRQFTWKQPSNKASKEQSKQTSTIGRKCHHCGADNTPQWRAGPDGPKTLCNACGVRLLTSHVLRLGIREKMSCK*