AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044086

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044086 MtrunA17_Chr8g0370131 83.537 164 25 2 26 189 62 223 7.91e-91 265
MsaG044086 MtrunA17_Chr8g0370121 56.548 168 54 2 42 190 75 242 2.75e-55 175
MsaG044086 MtrunA17_Chr5g0409841 39.437 71 43 0 62 132 87 157 2.71e-14 68.6
MsaG044086 MtrunA17_Chr6g0488471 37.079 89 44 2 67 144 97 184 2.39e-12 63.9
MsaG044086 MtrunA17_Chr4g0062741 47.170 53 28 0 64 116 135 187 2.63e-12 63.9
MsaG044086 MtrunA17_Chr8g0389241 50.000 50 25 0 67 116 105 154 3.46e-12 63.5
MsaG044086 MtrunA17_Chr3g0104071 50.000 48 24 0 67 114 147 194 3.55e-12 63.5
MsaG044086 MtrunA17_Chr5g0436501 50.000 48 24 0 67 114 125 172 3.82e-12 63.2
MsaG044086 MtrunA17_Chr5g0429521 50.000 48 24 0 67 114 132 179 3.82e-12 63.5
MsaG044086 MtrunA17_Chr2g0331031 52.083 48 23 0 67 114 109 156 6.07e-12 63.2
MsaG044086 MtrunA17_Chr1g0162081 32.990 97 62 2 64 160 119 212 1.06e-11 62.4
MsaG044086 MtrunA17_Chr5g0415191 47.917 48 25 0 67 114 102 149 1.21e-11 62.0
MsaG044086 MtrunA17_Chr4g0059701 48.936 47 24 0 67 113 84 130 1.63e-11 61.6
MsaG044086 MtrunA17_Chr7g0241761 47.917 48 25 0 67 114 140 187 1.75e-11 61.6
MsaG044086 MtrunA17_Chr4g0055931 50.000 48 24 0 67 114 95 142 1.97e-11 61.6
MsaG044086 MtrunA17_Chr5g0409831 38.889 54 33 0 62 115 72 125 2.79e-11 60.5
MsaG044086 MtrunA17_Chr1g0210471 33.333 132 69 4 28 148 74 197 4.46e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044086 AT5G58900.1 52.083 48 23 0 67 114 141 188 1.29e-12 65.1
MsaG044086 AT3G16350.1 51.852 54 25 1 62 114 131 184 1.49e-12 65.5
MsaG044086 AT5G05790.2 47.273 55 29 0 59 113 123 177 1.80e-12 64.7
MsaG044086 AT5G05790.1 47.273 55 29 0 59 113 123 177 1.80e-12 64.7
MsaG044086 AT2G38090.1 52.083 48 23 0 67 114 141 188 2.05e-12 64.7
MsaG044086 AT1G49010.1 47.170 53 28 0 64 116 131 183 3.74e-12 63.9
MsaG044086 AT5G01200.1 43.077 65 30 1 50 114 136 193 4.40e-12 63.5
MsaG044086 AT3G11280.2 51.064 47 23 0 67 113 127 173 1.07e-11 62.4
MsaG044086 AT3G11280.1 51.064 47 23 0 67 113 127 173 1.07e-11 62.4
MsaG044086 AT1G19000.2 49.091 55 27 1 60 113 94 148 1.31e-11 62.4
MsaG044086 AT1G19000.1 49.091 55 27 1 60 113 94 148 1.31e-11 62.4
MsaG044086 AT5G08520.1 45.283 53 29 0 64 116 115 167 1.74e-11 62.0
MsaG044086 AT5G04760.1 37.079 89 54 1 67 155 99 185 2.55e-11 60.8
MsaG044086 AT5G56840.1 41.667 60 35 0 67 126 91 150 6.05e-11 60.1

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGCTTTGCTTCCGTAAAA+AGG 0.178127 8:-55761650 MsaT044086.1:CDS
TCATCATCTGCTCCATATTA+TGG 0.239375 8:-55723310 MsaT044086.1:CDS
CTGATTCGCTCGAGGAAATA+AGG 0.273412 8:-55761587 MsaT044086.1:intron
GTTTAAGAACCGTTGCAATT+TGG 0.286710 8:+55732858 None:intergenic
GCCTAGCTCCATTTGAGAAT+TGG 0.318293 8:+55732813 None:intergenic
AGTTGATTTGGAGCTTCGTT+TGG 0.335545 8:-55723200 MsaT044086.1:CDS
CTAGCTTCATCTCCATAATA+TGG 0.339516 8:+55723298 None:intergenic
CTGATGGGGCTGATTGAGTA+TGG 0.344517 8:-55723508 MsaT044086.1:CDS
CAAAGCACATTAACTTTCTT+CGG 0.354232 8:+55761664 None:intergenic
CCTAGCTCCATTTGAGAATT+GGG 0.375616 8:+55732814 None:intergenic
CTCTTGGAAGCAGAGTTGTT+GGG 0.392834 8:+55723343 None:intergenic
TCTCAAATGGAGCTAGGCTC+AGG 0.396903 8:-55732808 MsaT044086.1:CDS
TGATGAGTTCATGTTTCTCT+TGG 0.402392 8:+55723327 None:intergenic
TTCCTCGAGCGAATCAGAAA+TGG 0.410418 8:+55761593 None:intergenic
TCTCTTGGAAGCAGAGTTGT+TGG 0.416850 8:+55723342 None:intergenic
GTTGATTTGGAGCTTCGTTT+GGG 0.430693 8:-55723199 MsaT044086.1:CDS
CCTAGTGCTTCCGCTGGTGA+TGG 0.436784 8:-55723226 MsaT044086.1:CDS
GAGCTAGGCTCAGGGTTCCT+TGG 0.446694 8:-55732799 MsaT044086.1:CDS
GGGCTGATTGAGTATGGAAA+AGG 0.458465 8:-55723502 MsaT044086.1:CDS
TTGAGTATGGAAAAGGGAAA+TGG 0.487269 8:-55723495 MsaT044086.1:CDS
AAGACATCCCAATTCTCAAA+TGG 0.488869 8:-55732821 MsaT044086.1:CDS
CCACAACAAGTTAAAAGCTA+TGG 0.499837 8:-55723436 MsaT044086.1:CDS
TGGTGATGGAGAAGTTGATT+TGG 0.507047 8:-55723212 MsaT044086.1:CDS
CCATCACCAGCGGAAGCACT+AGG 0.537314 8:+55723226 None:intergenic
GGCTGATTGAGTATGGAAAA+GGG 0.548425 8:-55723501 MsaT044086.1:CDS
AAACCATGCACAAATGTGGC+TGG 0.559050 8:+55723391 None:intergenic
TTCCATTTCTGATTCGCTCG+AGG 0.561981 8:-55761595 MsaT044086.1:CDS
ACTCCGCCTAGTGCTTCCGC+TGG 0.568264 8:-55723232 MsaT044086.1:CDS
CCTAAAACCATGCACAAATG+TGG 0.569308 8:+55723387 None:intergenic
CCCAATTCTCAAATGGAGCT+AGG 0.570237 8:-55732814 MsaT044086.1:CDS
CTACCAGCCACATTTGTGCA+TGG 0.576832 8:-55723394 MsaT044086.1:CDS
CGAGCGAATCAGAAATGGAA+AGG 0.594177 8:+55761598 None:intergenic
CTCAAATGGAGCTAGGCTCA+GGG 0.594472 8:-55732807 MsaT044086.1:CDS
GGAAGCACTAGGCGGAGTCA+TGG 0.604225 8:+55723237 None:intergenic
TCATGCTCTAATTGACTCCA+AGG 0.607425 8:+55732782 None:intergenic
CATGCACAAATGTGGCTGGT+AGG 0.633937 8:+55723395 None:intergenic
ATCAACTTCTCCATCACCAG+CGG 0.670758 8:+55723216 None:intergenic
GTATCACAGCCAAATTGCAA+CGG 0.672262 8:-55732867 MsaT044086.1:CDS
TCACCAGCGGAAGCACTAGG+CGG 0.716496 8:+55723229 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 55723189 55761700 55723189 ID=MsaG044086
Chr8 mRNA 55723189 55761700 55723189 ID=MsaT044086.1;Parent=MsaG044086
Chr8 exon 55723189 55723537 55723189 ID=MsaT044086.1.exon3;Parent=MsaT044086.1
Chr8 CDS 55723189 55723537 55723189 ID=cds.MsaT044086.1;Parent=MsaT044086.1
Chr8 exon 55732782 55732892 55732782 ID=MsaT044086.1.exon2;Parent=MsaT044086.1
Chr8 CDS 55732782 55732892 55732782 ID=cds.MsaT044086.1;Parent=MsaT044086.1
Chr8 exon 55761588 55761700 55761588 ID=MsaT044086.1.exon1;Parent=MsaT044086.1
Chr8 CDS 55761588 55761700 55761588 ID=cds.MsaT044086.1;Parent=MsaT044086.1
Gene Sequence

>MsaT044086.1

ATGGGTAGCTTACTCCGAAGAAAGTTAATGTGCTTTGCTTCCGTAAAAAGGGAAGTCGGCCGGAGAACGTCCTCTGAAAACCTTTCCATTTCTGATTCGCTCGAGGAAATAAGCATGTATCACAGCCAAATTGCAACGGTTCTTAAACCGTTACCTGAACAAAAGACATCCCAATTCTCAAATGGAGCTAGGCTCAGGGTTCCTTGGAGTCAATTAGAGCATGACTTATTTCTGATGGGGCTGATTGAGTATGGAAAAGGGAAATGGAGCAAAATTGCTAAGAACTATGTATCTAGCAAGACACCACAACAAGTTAAAAGCTATGGTTTAAGCTTTTTCATGTACCTACCAGCCACATTTGTGCATGGTTTTAGGAAAAGAAAACAAATTGCAAATCCCAACAACTCTGCTTCCAAGAGAAACATGAACTCATCATCTGCTCCATATTATGGAGATGAAGCTAGCAACAGCAACAATACAAACAACTATGAAGCAAGCACTTCCATGACTCCGCCTAGTGCTTCCGCTGGTGATGGAGAAGTTGATTTGGAGCTTCGTTTGGGTTTATATTAG
Protein sequence

>MsaT044086.1

MGSLLRRKLMCFASVKREVGRRTSSENLSISDSLEEISMYHSQIATVLKPLPEQKTSQFSNGARLRVPWSQLEHDLFLMGLIEYGKGKWSKIAKNYVSSKTPQQVKSYGLSFFMYLPATFVHGFRKRKQIANPNNSASKRNMNSSSAPYYGDEASNSNNTNNYEASTSMTPPSASAGDGEVDLELRLGLY*