AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020784

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020784 MtrunA17_Chr4g0031161 91.848 184 11 2 1 182 1 182 1.04e-120 338
MsaG020784 MtrunA17_Chr1g0187701 50.820 183 58 7 2 182 4 156 9.46e-46 148
MsaG020784 MtrunA17_Chr1g0187511 36.932 176 67 5 13 182 8 145 8.55e-23 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACATTGGTCTAGGAAAATT+TGG 0.153978 4:+58488433 None:intergenic
CATCATTCATTTGGAGGATT+GGG 0.267883 4:+58488209 None:intergenic
GAGATAATGAATCTGGAGTT+AGG 0.322546 4:-58488085 MsaT020784.1:CDS
CCTCCACTTCATCATTCATT+TGG 0.329405 4:+58488200 None:intergenic
GCACACACATTGTTATCAAT+TGG 0.381957 4:+58488130 None:intergenic
GTACTCTCTGAGAATTGATA+TGG 0.384800 4:+58488464 None:intergenic
TCATCATTCATTTGGAGGAT+TGG 0.386899 4:+58488208 None:intergenic
CAATGATGAGATAATGAATC+TGG 0.397042 4:-58488092 MsaT020784.1:CDS
GGAACTGATGGAAACTTTGC+TGG 0.399043 4:-58488403 MsaT020784.1:CDS
CCACTTCATCATTCATTTGG+AGG 0.419015 4:+58488203 None:intergenic
AACCTCCTATGCCATCTTTG+AGG 0.444477 4:-58488273 MsaT020784.1:CDS
TTGACATTATTCCTCAAAGA+TGG 0.471350 4:+58488262 None:intergenic
CCATGCATCAACATTGGTCT+AGG 0.477010 4:+58488424 None:intergenic
TTTGAAAATTGATTGACTCT+TGG 0.495953 4:+58488328 None:intergenic
ATCATTCATTTGGAGGATTG+GGG 0.500678 4:+58488210 None:intergenic
CCTAGACCAATGTTGATGCA+TGG 0.508674 4:-58488424 MsaT020784.1:CDS
AACAAAGCTTGTTGTTGTTG+TGG 0.508962 4:+58488361 None:intergenic
AGATAATGAATCTGGAGTTA+GGG 0.518844 4:-58488084 MsaT020784.1:CDS
ATTGGAAGTTGGTGAAAACT+TGG 0.520173 4:+58488548 None:intergenic
AAGGGAATATATCAATCAGT+TGG 0.520628 4:-58488158 MsaT020784.1:CDS
AAGAAAACCTTGCCATGAGA+AGG 0.528076 4:-58488492 MsaT020784.1:CDS
TTGGTCTAGGAAAATTTGGT+TGG 0.530130 4:+58488437 None:intergenic
GAAGCAACAACCTGAAAGCT+AGG 0.549216 4:+58488304 None:intergenic
TTCCTCAAAGATGGCATAGG+AGG 0.553084 4:+58488271 None:intergenic
GGTTAAGCCTTCTCATGGCA+AGG 0.554134 4:+58488485 None:intergenic
TGTCTTCAATCGATGGAACA+AGG 0.554290 4:-58488177 MsaT020784.1:CDS
ATGTTGATGCATGGAACTGA+TGG 0.559405 4:-58488415 MsaT020784.1:CDS
GATATGGTTAAGCCTTCTCA+TGG 0.566137 4:+58488480 None:intergenic
GATGGAAACAATGGTGGCCA+TGG 0.572847 4:+58488606 None:intergenic
GTGGAGGTGTCTTCAATCGA+TGG 0.579808 4:-58488184 MsaT020784.1:CDS
CCTCCAAATGAATGATGAAG+TGG 0.585053 4:-58488203 MsaT020784.1:CDS
TTGATTGAAGATGGAAACAA+TGG 0.598253 4:+58488597 None:intergenic
TTATTCCTCAAAGATGGCAT+AGG 0.612129 4:+58488268 None:intergenic
TCATTCATTTGGAGGATTGG+GGG 0.612363 4:+58488211 None:intergenic
TCAGTTCCATGCATCAACAT+TGG 0.614582 4:+58488418 None:intergenic
GTCTTCAATCGATGGAACAA+GGG 0.630717 4:-58488176 MsaT020784.1:CDS
CCAAATGAATGATGAAGTGG+AGG 0.678966 4:-58488200 MsaT020784.1:CDS
ATTGAAGATGGAAACAATGG+TGG 0.738543 4:+58488600 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 58488078 58488626 58488078 ID=MsaG020784
Chr4 mRNA 58488078 58488626 58488078 ID=MsaT020784.1;Parent=MsaG020784
Chr4 exon 58488078 58488626 58488078 ID=MsaT020784.1.exon1;Parent=MsaT020784.1
Chr4 CDS 58488078 58488626 58488078 ID=cds.MsaT020784.1;Parent=MsaT020784.1
Gene Sequence

>MsaT020784.1

ATGGCCACCATTGTTTCCATCTTCAATCAACTTTTTTTTGCATGCAAATTTTGCAACCAAGTTTTCACCAACTTCCAATTGTTCAAAACACATCATGATTCTCATTTTGTTCAAGAAAACCTTGCCATGAGAAGGCTTAACCATATCAATTCTCAGAGAGTACTTCACCAACCAAATTTTCCTAGACCAATGTTGATGCATGGAACTGATGGAAACTTTGCTGGAAACAGAACTTTTCAGGAACCACAACAACAACAAGCTTTGTTGATCTCTCAACCAAGAGTCAATCAATTTTCAAATCCTAGCTTTCAGGTTGTTGCTTCACAATCACAACCTCCTATGCCATCTTTGAGGAATAATGTCAATGTTACGAACATGACATCATCTGTAGCTCCCCCAATCCTCCAAATGAATGATGAAGTGGAGGTGTCTTCAATCGATGGAACAAGGGAATATATCAATCAGTTGGATAAACCAATTGATAACAATGTGTGTGCTAATTCTGCTAATATCAATGATGAGATAATGAATCTGGAGTTAGGGCTCTAG
Protein sequence

>MsaT020784.1

MATIVSIFNQLFFACKFCNQVFTNFQLFKTHHDSHFVQENLAMRRLNHINSQRVLHQPNFPRPMLMHGTDGNFAGNRTFQEPQQQQALLISQPRVNQFSNPSFQVVASQSQPPMPSLRNNVNVTNMTSSVAPPILQMNDEVEVSSIDGTREYINQLDKPIDNNVCANSANINDEIMNLELGL*