AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006187


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006187 MtrunA17_Chr1g0203051 64.865 111 39 0 72 182 143 253 2.25e-46 161
MsaG006187 MtrunA17_Chr8g0340801 48.718 78 40 0 119 196 1 78 5.18e-21 83.6
MsaG006187 MtrunA17_Chr2g0287651 31.313 99 68 0 72 170 139 237 1.17e-16 77.4
MsaG006187 MtrunA17_Chr8g0389811 52.083 48 23 0 72 119 148 195 2.32e-12 63.2
MsaG006187 MtrunA17_Chr2g0290391 29.060 117 78 3 76 189 118 232 9.82e-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
MsaG006187 AT5G28530.3 31.579 114 72 4 73 183 120 230 5.29e-11 61.6
MsaG006187 AT5G28530.2 31.579 114 72 4 73 183 120 230 5.29e-11 61.6

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTGAACCTTCCGCATTA+AGG 0.302211 2:-2631669 None:intergenic
CTCATACTTCCCATCCAAAA+AGG 0.333792 2:-2632269 None:intergenic
GATGCAATTGATTTCCTTAA+GGG 0.353772 2:+2632492 MsaT006187.1:CDS
CCCAATGTAAGCGACATAAC+TGG 0.364706 2:+2631637 MsaT006187.1:CDS
ATTCCTACGTCACGCATCTA+TGG 0.380981 2:+2632364 MsaT006187.1:CDS
GGATGCAATTGATTTCCTTA+AGG 0.395881 2:+2632491 MsaT006187.1:CDS
CCCAGTTATGTCGCTTACAT+TGG 0.430950 2:-2631638 None:intergenic
ACAACGAGCAATTCAAGAAC+AGG 0.446586 2:+2632446 MsaT006187.1:CDS
GAACAGGGAGAGGAAGAGTC+TGG 0.447917 2:+2632462 MsaT006187.1:CDS
CCTTAAGGGTTTGTGTAGTA+CGG 0.450651 2:+2632506 MsaT006187.1:CDS
CCGTACTACACAAACCCTTA+AGG 0.451554 2:-2632506 None:intergenic
GACATGTACAGTTCGTTGTA+TGG 0.455744 2:+2631875 MsaT006187.1:CDS
CCAGTTATGTCGCTTACATT+GGG 0.461886 2:-2631637 None:intergenic
CCAATGTAAGCGACATAACT+GGG 0.477737 2:+2631638 MsaT006187.1:CDS
AACTAGTAGGTGTGGTTGCA+TGG 0.492607 2:+2632171 MsaT006187.1:CDS
ATGAAAATGATGAGGAAAGC+TGG 0.493711 2:+2632340 MsaT006187.1:CDS
CATGGACAATAGCTCTTGTT+CGG 0.498690 2:+2631817 MsaT006187.1:CDS
AGAGGAAGAGTCTGGATGAG+AGG 0.503124 2:+2632470 MsaT006187.1:CDS
GAGAAGCGAAGGCAACTAGT+AGG 0.516347 2:+2632158 MsaT006187.1:CDS
TCGCTCATCTTCCTATGTGC+AGG 0.519995 2:-2632301 None:intergenic
TGCGGAAGGTTCAGAGGTAG+AGG 0.537083 2:+2631675 MsaT006187.1:CDS
ACATGTACAGTTCGTTGTAT+GGG 0.550841 2:+2631876 MsaT006187.1:CDS
GATGAAAGCGGTTGATTGCA+TGG 0.571523 2:+2631910 MsaT006187.1:CDS
GGAGAGTGATGTATGTTCCT+CGG 0.577170 2:+2631838 MsaT006187.1:CDS
AGCAATTCAAGAACAGGGAG+AGG 0.577733 2:+2632452 MsaT006187.1:CDS
GTACACGTTGACGCTGGTAG+CGG 0.591900 2:+2632205 MsaT006187.1:CDS
TTGACGCTGGTAGCGGTCGA+TGG 0.592302 2:+2632212 MsaT006187.1:CDS
CCTTAATGCGGAAGGTTCAG+AGG 0.595778 2:+2631669 MsaT006187.1:CDS
CCGATAGGAAAGAGAAGCGA+AGG 0.596686 2:+2632147 MsaT006187.1:intron
GGATGCAACCTTAATGCGGA+AGG 0.614546 2:+2631661 MsaT006187.1:CDS
AGGGAATGCTACCTGCACAT+AGG 0.625271 2:+2632290 MsaT006187.1:CDS
GCGAAGGCAACTAGTAGGTG+TGG 0.627445 2:+2632163 MsaT006187.1:CDS
AATACCAAATGAAAATGATG+AGG 0.636392 2:+2632332 MsaT006187.1:CDS
AAACCATAGATGCGTGACGT+AGG 0.642746 2:-2632367 None:intergenic
CAACGAGCAATTCAAGAACA+GGG 0.647223 2:+2632447 MsaT006187.1:CDS
GTCTTCGACATCTTCATCCG+AGG 0.652680 2:-2631855 None:intergenic
ATTCAAGTACACGTTGACGC+TGG 0.666323 2:+2632199 MsaT006187.1:CDS
CAATGTAAGCGACATAACTG+GGG 0.679402 2:+2631639 MsaT006187.1:CDS
AATGTAAGCGACATAACTGG+GGG 0.709527 2:+2631640 MsaT006187.1:CDS
GTGCAACTTTGTGATGAAAG+CGG 0.715711 2:+2631898 MsaT006187.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 2631601 2632537 2631601 ID=MsaG006187
Chr2 mRNA 2631601 2632537 2631601 ID=MsaT006187.1;Parent=MsaG006187
Chr2 exon 2631601 2631696 2631601 ID=MsaT006187.1.exon1;Parent=MsaT006187.1
Chr2 CDS 2631601 2631696 2631601 ID=cds.MsaT006187.1;Parent=MsaT006187.1
Chr2 exon 2631815 2631931 2631815 ID=MsaT006187.1.exon2;Parent=MsaT006187.1
Chr2 CDS 2631815 2631931 2631815 ID=cds.MsaT006187.1;Parent=MsaT006187.1
Chr2 exon 2632154 2632537 2632154 ID=MsaT006187.1.exon3;Parent=MsaT006187.1
Chr2 CDS 2632154 2632537 2632154 ID=cds.MsaT006187.1;Parent=MsaT006187.1
Gene Sequence

>MsaT006187.1

ATGGATATTCATGAAATTCTAGAAATTTTCGGAATTCCCAATGTAAGCGACATAACTGGGGGATGCAACCTTAATGCGGAAGGTTCAGAGGTAGAGGACATGGACAATAGCTCTTGTTCGGAGAGTGATGTATGTTCCTCGGATGAAGATGTCGAAGACATGTACAGTTCGTTGTATGGGTGCAACTTTGTGATGAAAGCGGTTGATTGCATGGAAAGAGAAGCGAAGGCAACTAGTAGGTGTGGTTGCATGGCAAAAATTCAAGTACACGTTGACGCTGGTAGCGGTCGATGGTACATAAAATCTGTTGACGATATTCACAATCACACCTTTTTGGATGGGAAGTATGAGGGAATGCTACCTGCACATAGGAAGATGAGCGATTATGACAAATACCAAATGAAAATGATGAGGAAAGCTGGCATTCCTACGTCACGCATCTATGGTTTTTTTGCTTCACAGGCTGGTGGATTTAAAAATCTTGGATATACAAGAAGAGACATGTACAACGAGCAATTCAAGAACAGGGAGAGGAAGAGTCTGGATGAGAGGATGCAATTGATTTCCTTAAGGGTTTGTGTAGTACGGATGATATGA

Protein sequence

>MsaT006187.1

MDIHEILEIFGIPNVSDITGGCNLNAEGSEVEDMDNSSCSESDVCSSDEDVEDMYSSLYGCNFVMKAVDCMEREAKATSRCGCMAKIQVHVDAGSGRWYIKSVDDIHNHTFLDGKYEGMLPAHRKMSDYDKYQMKMMRKAGIPTSRIYGFFASQAGGFKNLGYTRRDMYNEQFKNRERKSLDERMQLISLRVCVVRMI*