AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016743

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016743 MtrunA17_Chr3g0132191 97.268 183 2 2 1 182 36 216 3.06e-129 362
MsaG016743 MtrunA17_Chr7g0272991 66.456 158 42 4 2 150 83 238 5.38e-67 205
MsaG016743 MtrunA17_Chr2g0310741 68.750 144 37 3 1 137 84 226 4.44e-66 203
MsaG016743 MtrunA17_Chr1g0191681 68.493 146 35 4 2 137 83 227 1.11e-63 197
MsaG016743 MtrunA17_Chr2g0288481 48.066 181 73 4 2 164 67 244 9.98e-49 158
MsaG016743 MtrunA17_Chr2g0318881 60.674 89 34 1 19 106 21 109 4.79e-32 112
MsaG016743 MtrunA17_Chr2g0318921 60.000 90 35 1 19 107 21 110 1.34e-31 110
MsaG016743 MtrunA17_Chr8g0376351 71.429 63 18 0 38 100 1 63 2.74e-27 99.0
MsaG016743 MtrunA17_Chr3g0081161 40.506 79 47 0 20 98 8 86 1.02e-11 62.4
MsaG016743 MtrunA17_Chr8g0354151 37.975 79 49 0 20 98 8 86 1.20e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016743 AT3G48590.1 86.982 169 16 3 2 165 47 214 1.71e-102 295
MsaG016743 AT5G63470.2 84.971 173 17 3 1 165 59 230 9.29e-102 293
MsaG016743 AT5G63470.1 84.971 173 17 3 1 165 59 230 9.29e-102 293
MsaG016743 AT1G54830.2 64.151 159 48 4 2 155 52 206 2.21e-66 203
MsaG016743 AT1G54830.3 64.151 159 48 4 2 155 52 206 2.21e-66 203
MsaG016743 AT1G54830.1 64.151 159 48 4 2 155 52 206 2.21e-66 203
MsaG016743 AT1G56170.1 70.149 134 36 2 1 133 57 187 4.58e-65 199
MsaG016743 AT1G56170.2 70.149 134 36 2 1 133 57 187 4.58e-65 199
MsaG016743 AT1G08970.3 68.056 144 37 4 2 137 62 204 1.46e-63 196
MsaG016743 AT1G08970.4 68.056 144 37 4 2 137 62 204 1.46e-63 196
MsaG016743 AT1G08970.2 68.056 144 37 4 2 137 62 204 1.46e-63 196
MsaG016743 AT1G08970.1 68.056 144 37 4 2 137 62 204 1.46e-63 196
MsaG016743 AT5G50480.1 54.268 164 64 5 4 165 38 192 4.71e-52 166
MsaG016743 AT5G27910.1 48.066 181 76 6 2 178 21 187 8.04e-45 147
MsaG016743 AT5G50490.1 46.809 141 66 4 2 139 21 155 1.91e-34 120
MsaG016743 AT5G50470.1 40.223 179 83 6 4 173 47 210 2.23e-34 121
MsaG016743 AT5G38140.1 43.878 98 51 2 1 97 50 144 7.11e-25 96.3
MsaG016743 AT3G12480.1 37.975 79 49 0 20 98 8 86 1.56e-11 62.0

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCAGGCTTGGCAGTCTGTT+TGG 0.288988 3:+101512015 MsaT016743.1:CDS
TTGAACTCACCATTCGTTCT+TGG 0.290380 3:+101511730 MsaT016743.1:CDS
TCCTTATTATTATCCTCCTA+TGG 0.322109 3:+101511920 MsaT016743.1:CDS
CCCATAGGAGGATAATAATA+AGG 0.322822 3:-101511921 None:intergenic
CAAGCTTTGGCAAAGAGAAT+TGG 0.395526 3:-101511693 None:intergenic
TTATGTTCAGCCGCCTTCTC+AGG 0.407879 3:+101511998 MsaT016743.1:CDS
AATGAAAAGCTCACAAGCTT+TGG 0.414215 3:-101511706 None:intergenic
TGGTCGTCCCGCTGTTGATC+CGG 0.430949 3:+101511965 MsaT016743.1:CDS
CCTCCTATGGGACAACCTGC+TGG 0.443243 3:+101511933 MsaT016743.1:CDS
TTCAGCCGCCTTCTCAGGCT+TGG 0.445274 3:+101512003 MsaT016743.1:CDS
ATATTGCTGCTGCTATTACT+AGG 0.451638 3:+101511796 MsaT016743.1:CDS
TGGCAGACGGGAGCGGATGA+TGG 0.454235 3:+101512035 MsaT016743.1:CDS
AACAACAGCTTCAAATGTTC+TGG 0.455902 3:+101511550 None:intergenic
TGGCAGTCTGTTTGGCAGAC+GGG 0.457754 3:+101512023 MsaT016743.1:CDS
TCTTATGCTGGTGGTGGTGT+TGG 0.460055 3:+101512059 MsaT016743.1:CDS
TTGGCAGTCTGTTTGGCAGA+CGG 0.463047 3:+101512022 MsaT016743.1:CDS
GTCTGTTTGGCAGACGGGAG+CGG 0.463208 3:+101512028 MsaT016743.1:CDS
CCCGCTGTTGATCCGGCTAC+CGG 0.469158 3:+101511972 MsaT016743.1:CDS
CCTTATTATTATCCTCCTAT+GGG 0.475192 3:+101511921 MsaT016743.1:CDS
GCGGATGATGGTTCTTATGC+TGG 0.494268 3:+101512047 MsaT016743.1:CDS
ATTCCAGCAGGTTGTCCCAT+AGG 0.521379 3:-101511936 None:intergenic
GCTGGTGGTGGTGTTGGCAG+TGG 0.530864 3:+101512065 MsaT016743.1:CDS
CAACCTGCTGGAATGATGAT+TGG 0.531059 3:+101511945 MsaT016743.1:CDS
TTCAATTTCTTGACGTTGGT+AGG 0.532955 3:-101511574 None:intergenic
TCATCTTTAATCTCGTCTCT+CGG 0.544717 3:-101511852 None:intergenic
AGTGGTCAGCACAATGGCGG+TGG 0.552676 3:+101512083 MsaT016743.1:CDS
TGAACATAAACACCGGTAGC+CGG 0.556443 3:-101511984 None:intergenic
ATCGAACAAAACGATACCTC+TGG 0.556676 3:-101512106 None:intergenic
ATTGTTGGTGCTGCTGCTAG+TGG 0.559151 3:+101511894 MsaT016743.1:CDS
AGCACAATGGCGGTGGCCAG+AGG 0.560068 3:+101512090 MsaT016743.1:CDS
CGACCAATCATCATTCCAGC+AGG 0.560161 3:-101511948 None:intergenic
TGCGTGCTAATGGAAGTTGA+TGG 0.566195 3:-101511617 None:intergenic
CCGGTAGCCGGATCAACAGC+GGG 0.566961 3:-101511972 None:intergenic
CGTGTTCAATTTCTTGACGT+TGG 0.574575 3:-101511578 None:intergenic
GATGGTTCTTATGCTGGTGG+TGG 0.575597 3:+101512053 MsaT016743.1:CDS
GACTGCCAAGCCTGAGAAGG+CGG 0.581694 3:-101512008 None:intergenic
AGCATGAAGCCAAGAACGAA+TGG 0.590029 3:-101511739 None:intergenic
CCAGCAGGTTGTCCCATAGG+AGG 0.597127 3:-101511933 None:intergenic
ACAGACTGCCAAGCCTGAGA+AGG 0.599594 3:-101512011 None:intergenic
ACCGGTAGCCGGATCAACAG+CGG 0.640253 3:-101511973 None:intergenic
GGCAGTGGTCAGCACAATGG+CGG 0.641863 3:+101512080 MsaT016743.1:CDS
GTTGGCAGTGGTCAGCACAA+TGG 0.646785 3:+101512077 MsaT016743.1:CDS
GATGATGGTTCTTATGCTGG+TGG 0.665141 3:+101512050 MsaT016743.1:CDS
AGGCGGCTGAACATAAACAC+CGG 0.726448 3:-101511991 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 101511564 101512136 101511564 ID=MsaG016743
Chr3 mRNA 101511564 101512136 101511564 ID=MsaT016743.1;Parent=MsaG016743
Chr3 exon 101511564 101512136 101511564 ID=MsaT016743.1.exon1;Parent=MsaT016743.1
Chr3 CDS 101511564 101512136 101511564 ID=cds.MsaT016743.1;Parent=MsaT016743.1
Gene Sequence

>MsaT016743.1

ATGTTCTGGTCCTACCAACGTCAAGAAATTGAACACGTCAACGATTTCAAAAACCATCAACTTCCATTAGCACGCATTAAGAAAATCATGAAAGCTGATGAAGACGTTCGAATGATTTCTGCAGAAGCACCAATTCTCTTTGCCAAAGCTTGTGAGCTTTTCATTCTTGAACTCACCATTCGTTCTTGGCTTCATGCTGAAGAGAATAAACGACGAACTCTTCAGAAAAATGATATTGCTGCTGCTATTACTAGGACTGATATTTTTGATTTTTTGGTTGATATTGTTCCGAGAGACGAGATTAAAGATGAAGCTGCTGCTGCTGCTGCTATTGTTGGTGCTGCTGCTAGTGGTGTTCCTTATTATTATCCTCCTATGGGACAACCTGCTGGAATGATGATTGGTCGTCCCGCTGTTGATCCGGCTACCGGTGTTTATGTTCAGCCGCCTTCTCAGGCTTGGCAGTCTGTTTGGCAGACGGGAGCGGATGATGGTTCTTATGCTGGTGGTGGTGTTGGCAGTGGTCAGCACAATGGCGGTGGCCAGAGGTATCGTTTTGTTCGATTTTCTTAA
Protein sequence

>MsaT016743.1

MFWSYQRQEIEHVNDFKNHQLPLARIKKIMKADEDVRMISAEAPILFAKACELFILELTIRSWLHAEENKRRTLQKNDIAAAITRTDIFDFLVDIVPRDEIKDEAAAAAAIVGAAASGVPYYYPPMGQPAGMMIGRPAVDPATGVYVQPPSQAWQSVWQTGADDGSYAGGGVGSGQHNGGGQRYRFVRFS*