AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680034394.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034394.01.T01 MTR_6g065670 92.424 66 5 0 93 158 1 66 1.20e-37 129
MsG0680034394.01.T01 MTR_1g077160 46.622 148 71 3 19 158 163 310 1.67e-30 115
MsG0680034394.01.T01 MTR_1g077160 63.636 66 24 0 93 158 1 66 2.18e-22 92.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034394.01.T01 AT3G55620 75.758 66 16 0 93 158 1 66 2.34e-31 113
MsG0680034394.01.T01 AT2G39820 48.684 76 37 2 93 166 1 76 2.71e-16 73.9

Find 37 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACTATATTGAATGATTAT+TGG 0.191134 6:+86853319 MsG0680034394.01.T01:CDS
TTTGAGAATAATTGTGATAT+TGG 0.268648 6:+86853360 MsG0680034394.01.T01:CDS
CACTTCTGAGGAAAGGCATC+TGG 0.351472 6:-86852364 None:intergenic
AGTGTATTTGAATCTGAGTT+AGG 0.408530 6:+86853579 MsG0680034394.01.T01:intron
ATCGTTGGTCGTCTTTGTGC+TGG 0.443039 6:+86853645 MsG0680034394.01.T01:CDS
TAATCACATGTATCGGTGTC+AGG 0.457253 6:-86852229 None:intergenic
TGTCTTTGCTTCACAGCTGT+TGG 0.458292 6:+86852315 MsG0680034394.01.T01:CDS
TAACGAATCAATAGCAAATG+AGG 0.461086 6:-86853683 None:intergenic
GTGGTGAAGACATCTATTGC+TGG 0.480770 6:+86853615 MsG0680034394.01.T01:CDS
TATTGTATGGTTGCCATTGG+AGG 0.485440 6:+86853408 MsG0680034394.01.T01:CDS
ACTCACCAATGGCTATTGTA+TGG 0.495688 6:+86853395 MsG0680034394.01.T01:CDS
GAGGCTCTGAAAGCTTCTAC+AGG 0.505269 6:+86853427 MsG0680034394.01.T01:CDS
ACTTCTGAGGAAAGGCATCT+GGG 0.507962 6:-86852363 None:intergenic
GCAATAGATGTCTTCACCAC+AGG 0.510708 6:-86853612 None:intergenic
CTTTAACCCAGGTACACAAA+AGG 0.513066 6:-86853188 None:intergenic
GGCTATTGTATGGTTGCCAT+TGG 0.513966 6:+86853405 MsG0680034394.01.T01:CDS
TTCAATGTAATCACATGTAT+CGG 0.524783 6:-86852236 None:intergenic
ATTGCTGGCACTCGCATCGT+TGG 0.543075 6:+86853630 MsG0680034394.01.T01:CDS
TGACTTTCTCAAGATTTCAT+CGG 0.552572 6:+86852264 MsG0680034394.01.T01:CDS
GATGCCTTTCCTCAGAAGTG+TGG 0.556484 6:+86852367 MsG0680034394.01.T01:CDS
CCATGTCGGTGTTACTTCAG+AGG 0.556915 6:-86852179 None:intergenic
TATGCTCACCCACACTTCTG+AGG 0.578259 6:-86852376 None:intergenic
GGCAACCATACAATAGCCAT+TGG 0.578367 6:-86853400 None:intergenic
ATGCCTTTCCTCAGAAGTGT+GGG 0.581061 6:+86852368 MsG0680034394.01.T01:CDS
CTTCTGAGGAAAGGCATCTG+GGG 0.598999 6:-86852362 None:intergenic
CAATAGATGTCTTCACCACA+GGG 0.605043 6:-86853611 None:intergenic
TGAAGTAACACCGACATGGA+AGG 0.605680 6:+86852183 MsG0680034394.01.T01:CDS
AACGAATCAATAGCAAATGA+GGG 0.612612 6:-86853682 None:intergenic
TCACCCACACTTCTGAGGAA+AGG 0.626380 6:-86852371 None:intergenic
CCTCTGAAGTAACACCGACA+TGG 0.630763 6:+86852179 MsG0680034394.01.T01:CDS
GTGTTCTCTAAACTCACCAA+TGG 0.639959 6:+86853384 MsG0680034394.01.T01:CDS
GAAGCTTTCAGAGCCTCCAA+TGG 0.650732 6:-86853421 None:intergenic
TCAGGCACAAGCACAAACAC+AGG 0.654395 6:-86852211 None:intergenic
ACAGGATACGCCTTCCATGT+CGG 0.675351 6:-86852193 None:intergenic
GTATTTGAATCTGAGTTAGG+TGG 0.687187 6:+86853582 MsG0680034394.01.T01:CDS
ACAGCTGTGAAGCAAAGACA+CGG 0.710684 6:-86852312 None:intergenic
GTTAGGTGGTGTTATCCCTG+TGG 0.725866 6:+86853596 MsG0680034394.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTATTTGCATTTAATTA+TGG + Chr6:86853119-86853138 MsG0680034394.01.T01:intron 10.0%
!! ACAAGTGATTATATATTATT+AGG + Chr6:86853075-86853094 MsG0680034394.01.T01:intron 15.0%
!! ACTAAATGAATAAAGTAATA+TGG + Chr6:86853546-86853565 MsG0680034394.01.T01:intron 15.0%
!! TTACTATATTGAATGATTAT+TGG + Chr6:86853319-86853338 MsG0680034394.01.T01:CDS 15.0%
!!! TTTTTGAATTTGCTTATTTT+GGG - Chr6:86852522-86852541 None:intergenic 15.0%
!! AAATTCAAAAACTAAACAAG+AGG + Chr6:86852531-86852550 MsG0680034394.01.T01:intron 20.0%
!! AACTAATGAAAATAAGTTCT+TGG + Chr6:86853466-86853485 MsG0680034394.01.T01:intron 20.0%
!! ACTAATGAAAATAAGTTCTT+GGG + Chr6:86853467-86853486 MsG0680034394.01.T01:intron 20.0%
!! ATAATTACGTAACATACTTA+TGG + Chr6:86852925-86852944 MsG0680034394.01.T01:intron 20.0%
!! TAATTACGTAACATACTTAT+GGG + Chr6:86852926-86852945 MsG0680034394.01.T01:intron 20.0%
!! TTTGAGAATAATTGTGATAT+TGG + Chr6:86853360-86853379 MsG0680034394.01.T01:CDS 20.0%
!!! CAATTTAAGTTACTTGAATT+TGG + Chr6:86853491-86853510 MsG0680034394.01.T01:intron 20.0%
!!! GTTTTTGAATTTGCTTATTT+TGG - Chr6:86852523-86852542 None:intergenic 20.0%
!!! TTGTTTTCTAATTAGAATTC+TGG + Chr6:86853151-86853170 MsG0680034394.01.T01:intron 20.0%
! ACTTCTTGCTTTATAGTATA+AGG + Chr6:86853008-86853027 MsG0680034394.01.T01:intron 25.0%
! AGTTCTATTTGTACTGAATA+TGG + Chr6:86852809-86852828 MsG0680034394.01.T01:intron 25.0%
! TAAAAGAATAAATGATGCCT+CGG - Chr6:86852762-86852781 None:intergenic 25.0%
! TTCAATGTAATCACATGTAT+CGG - Chr6:86852239-86852258 None:intergenic 25.0%
!! GAATTTGATTTCATTATTGC+TGG + Chr6:86852560-86852579 MsG0680034394.01.T01:intron 25.0%
!!! AATGATTATTGGTTTTCTTC+AGG + Chr6:86853330-86853349 MsG0680034394.01.T01:CDS 25.0%
!!! GAAACATGCGAATTTTTTAA+TGG + Chr6:86852720-86852739 MsG0680034394.01.T01:intron 25.0%
ACTTTGACACACTCAATAAA+AGG - Chr6:86853047-86853066 None:intergenic 30.0%
AGTGTATTTGAATCTGAGTT+AGG + Chr6:86853579-86853598 MsG0680034394.01.T01:intron 30.0%
CTTTGACACACTCAATAAAA+GGG - Chr6:86853046-86853065 None:intergenic 30.0%
TGACTTTCTCAAGATTTCAT+CGG + Chr6:86852264-86852283 MsG0680034394.01.T01:CDS 30.0%
! AATTTCCCTATTGAGTCTTT+TGG - Chr6:86852687-86852706 None:intergenic 30.0%
! CGAACAGTTTGAAATTGTTA+TGG + Chr6:86853517-86853536 MsG0680034394.01.T01:intron 30.0%
! TCAATAGGGAAATTGTTTTC+AGG + Chr6:86852693-86852712 MsG0680034394.01.T01:intron 30.0%
!!! ATAGGATCTGTTTGTTTTGA+GGG + Chr6:86852595-86852614 MsG0680034394.01.T01:intron 30.0%
AAGACTGTTCTATGAGAGTT+GGG + Chr6:86852860-86852879 MsG0680034394.01.T01:intron 35.0%
AAGTTGCCAAAAGACTCAAT+AGG + Chr6:86852678-86852697 MsG0680034394.01.T01:intron 35.0%
ACACTCAATAAAAGGGTAAC+AGG - Chr6:86853039-86853058 None:intergenic 35.0%
AGTTGCCAAAAGACTCAATA+GGG + Chr6:86852679-86852698 MsG0680034394.01.T01:intron 35.0%
ATTATTGCTGGAGTCATTGT+AGG + Chr6:86852572-86852591 MsG0680034394.01.T01:intron 35.0%
GTATTTGAATCTGAGTTAGG+TGG + Chr6:86853582-86853601 MsG0680034394.01.T01:CDS 35.0%
TGTAAGTGCTTCGTAGTTAT+GGG + Chr6:86852461-86852480 MsG0680034394.01.T01:intron 35.0%
! ATAACCATTGCTATTGCTTG+TGG + Chr6:86852627-86852646 MsG0680034394.01.T01:intron 35.0%
! TAACCATTGCTATTGCTTGT+GGG + Chr6:86852628-86852647 MsG0680034394.01.T01:intron 35.0%
!! CATGTGTGTGTGTTACTTAA+TGG + Chr6:86853272-86853291 MsG0680034394.01.T01:intron 35.0%
!! TTGAGTTGGATGTTTCTATG+TGG + Chr6:86852655-86852674 MsG0680034394.01.T01:intron 35.0%
!!! GATAGGATCTGTTTGTTTTG+AGG + Chr6:86852594-86852613 MsG0680034394.01.T01:intron 35.0%
AAACCCACAAGCAATAGCAA+TGG - Chr6:86852634-86852653 None:intergenic 40.0%
ACTCACCAATGGCTATTGTA+TGG + Chr6:86853395-86853414 MsG0680034394.01.T01:CDS 40.0%
ATTTGTGACAGTCTCAACCA+TGG + Chr6:86853211-86853230 MsG0680034394.01.T01:intron 40.0%
CAAGACTGTTCTATGAGAGT+TGG + Chr6:86852859-86852878 MsG0680034394.01.T01:intron 40.0%
CAATAGATGTCTTCACCACA+GGG - Chr6:86853614-86853633 None:intergenic 40.0%
CTGTCACAAATCTTTAACCC+AGG - Chr6:86853202-86853221 None:intergenic 40.0%
CTTTAACCCAGGTACACAAA+AGG - Chr6:86853191-86853210 None:intergenic 40.0%
GTGTAAGTGCTTCGTAGTTA+TGG + Chr6:86852460-86852479 MsG0680034394.01.T01:intron 40.0%
GTGTTCTCTAAACTCACCAA+TGG + Chr6:86853384-86853403 MsG0680034394.01.T01:CDS 40.0%
TATTGTATGGTTGCCATTGG+AGG + Chr6:86853408-86853427 MsG0680034394.01.T01:CDS 40.0%
TGACCAACACTTCTGATAGA+AGG - Chr6:86852406-86852425 None:intergenic 40.0%
! AGATCTTCCTTTTGTGTACC+TGG + Chr6:86853181-86853200 MsG0680034394.01.T01:CDS 40.0%
! GATCTTCCTTTTGTGTACCT+GGG + Chr6:86853182-86853201 MsG0680034394.01.T01:CDS 40.0%
! TAATCACATGTATCGGTGTC+AGG - Chr6:86852232-86852251 None:intergenic 40.0%
!!! TGCTTGTGGGTTTTTTGAGT+TGG + Chr6:86852641-86852660 MsG0680034394.01.T01:intron 40.0%
AAGCACTTACACACACGACA+CGG - Chr6:86852452-86852471 None:intergenic 45.0%
ACAGCTGTGAAGCAAAGACA+CGG - Chr6:86852315-86852334 None:intergenic 45.0%
GCAATAGATGTCTTCACCAC+AGG - Chr6:86853615-86853634 None:intergenic 45.0%
GGCAACCATACAATAGCCAT+TGG - Chr6:86853403-86853422 None:intergenic 45.0%
GGCTATTGTATGGTTGCCAT+TGG + Chr6:86853405-86853424 MsG0680034394.01.T01:CDS 45.0%
GTCTCACTTACTAGTTGCCA+TGG - Chr6:86853231-86853250 None:intergenic 45.0%
GTGGTGAAGACATCTATTGC+TGG + Chr6:86853615-86853634 MsG0680034394.01.T01:CDS 45.0%
GTTGAGTGAGTTAATAGCCG+AGG + Chr6:86852742-86852761 MsG0680034394.01.T01:intron 45.0%
TGAAGTAACACCGACATGGA+AGG + Chr6:86852183-86852202 MsG0680034394.01.T01:CDS 45.0%
TGCTGGAGTCATTGTAGGAT+AGG + Chr6:86852577-86852596 MsG0680034394.01.T01:intron 45.0%
TGTCTTTGCTTCACAGCTGT+TGG + Chr6:86852315-86852334 MsG0680034394.01.T01:CDS 45.0%
! AAGCATTCCATTTTGCACGC+AGG - Chr6:86852901-86852920 None:intergenic 45.0%
! ACGCCTTCTATCAGAAGTGT+TGG + Chr6:86852400-86852419 MsG0680034394.01.T01:intron 45.0%
! AGCATTCCATTTTGCACGCA+GGG - Chr6:86852900-86852919 None:intergenic 45.0%
! ATGCCTTTCCTCAGAAGTGT+GGG + Chr6:86852368-86852387 MsG0680034394.01.T01:CDS 45.0%
!! ACTTCTGAGGAAAGGCATCT+GGG - Chr6:86852366-86852385 None:intergenic 45.0%
ACAGGATACGCCTTCCATGT+CGG - Chr6:86852196-86852215 None:intergenic 50.0%
ATCGTTGGTCGTCTTTGTGC+TGG + Chr6:86853645-86853664 MsG0680034394.01.T01:CDS 50.0%
GAAGCTTTCAGAGCCTCCAA+TGG - Chr6:86853424-86853443 None:intergenic 50.0%
GATGCCTTTCCTCAGAAGTG+TGG + Chr6:86852367-86852386 MsG0680034394.01.T01:CDS 50.0%
TATGCTCACCCACACTTCTG+AGG - Chr6:86852379-86852398 None:intergenic 50.0%
TCAGGCACAAGCACAAACAC+AGG - Chr6:86852214-86852233 None:intergenic 50.0%
TCTTACCCCTGCGTGCAAAA+TGG + Chr6:86852891-86852910 MsG0680034394.01.T01:intron 50.0%
! GCATTCCATTTTGCACGCAG+GGG - Chr6:86852899-86852918 None:intergenic 50.0%
! TCACCCACACTTCTGAGGAA+AGG - Chr6:86852374-86852393 None:intergenic 50.0%
!! CACTTCTGAGGAAAGGCATC+TGG - Chr6:86852367-86852386 None:intergenic 50.0%
!! CCATGTCGGTGTTACTTCAG+AGG - Chr6:86852182-86852201 None:intergenic 50.0%
!! CCTCTGAAGTAACACCGACA+TGG + Chr6:86852179-86852198 MsG0680034394.01.T01:CDS 50.0%
!! CTTCTGAGGAAAGGCATCTG+GGG - Chr6:86852365-86852384 None:intergenic 50.0%
!! GAGGCTCTGAAAGCTTCTAC+AGG + Chr6:86853427-86853446 MsG0680034394.01.T01:CDS 50.0%
!! GTTAGGTGGTGTTATCCCTG+TGG + Chr6:86853596-86853615 MsG0680034394.01.T01:CDS 50.0%
ATTGCTGGCACTCGCATCGT+TGG + Chr6:86853630-86853649 MsG0680034394.01.T01:CDS 55.0%
TACACACACGACACGGACAC+TGG - Chr6:86852445-86852464 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 86852175 86853698 86852175 ID=MsG0680034394.01;Name=MsG0680034394.01
Chr6 mRNA 86852175 86853698 86852175 ID=MsG0680034394.01.T01;Parent=MsG0680034394.01;Name=MsG0680034394.01.T01;_AED=0.45;_eAED=0.78;_QI=0|0.33|0|1|0.66|0.75|4|0|166
Chr6 exon 86852175 86852389 86852175 ID=MsG0680034394.01.T01:exon:13144;Parent=MsG0680034394.01.T01
Chr6 exon 86853166 86853203 86853166 ID=MsG0680034394.01.T01:exon:13145;Parent=MsG0680034394.01.T01
Chr6 exon 86853319 86853448 86853319 ID=MsG0680034394.01.T01:exon:13146;Parent=MsG0680034394.01.T01
Chr6 exon 86853581 86853698 86853581 ID=MsG0680034394.01.T01:exon:13147;Parent=MsG0680034394.01.T01
Chr6 CDS 86852175 86852389 86852175 ID=MsG0680034394.01.T01:cds;Parent=MsG0680034394.01.T01
Chr6 CDS 86853166 86853203 86853166 ID=MsG0680034394.01.T01:cds;Parent=MsG0680034394.01.T01
Chr6 CDS 86853319 86853448 86853319 ID=MsG0680034394.01.T01:cds;Parent=MsG0680034394.01.T01
Chr6 CDS 86853581 86853698 86853581 ID=MsG0680034394.01.T01:cds;Parent=MsG0680034394.01.T01
Gene Sequence

>MsG0680034394.01.T01

ATGGCCTCTGAAGTAACACCGACATGGAAGGCGTATCCTGTGTTTGTGCTTGTGCCTGACACCGATACATGTGATTACATTGAATTATATGACTTTCTCAAGATTTCATCGGTGTCAAACATGTTAGTGTCTTGTATCCGTGTCTTTGCTTCACAGCTGTTGGTATCATACACTGACATGTGTCAGACCCCAGATGCCTTTCCTCAGAAGTGTGGAATTCTGGTTCTTGTAGATCTTCCTTTTGTGTACCTGGTTACTATATTGAATGATTATTGGTTTTCTTCAGGACTTCAGTTTGAGAATAATTGTGATATTGGAGTGTTCTCTAAACTCACCAATGGCTATTGTATGGTTGCCATTGGAGGCTCTGAAAGCTTCTACAGTGTATTTGAATCTGAGTTAGGTGGTGTTATCCCTGTGGTGAAGACATCTATTGCTGGCACTCGCATCGTTGGTCGTCTTTGTGCTGGTAAAGCTTTTCTTACCCTCATTTGCTATTGA
Protein sequence

>MsG0680034394.01.T01

MASEVTPTWKAYPVFVLVPDTDTCDYIELYDFLKISSVSNMLVSCIRVFASQLLVSYTDMCQTPDAFPQKCGILVLVDLPFVYLVTILNDYWFSSGLQFENNCDIGVFSKLTNGYCMVAIGGSESFYSVFESELGGVIPVVKTSIAGTRIVGRLCAGKAFLTLICY*