AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005542.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005542.01.T01 MTR_1g102510 95.556 225 10 0 2 226 3 227 2.82e-150 419
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005542.01.T01 AT5G51680 29.568 301 127 9 3 222 10 306 1.27e-14 72.8

Find 52 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAAAGGAAGAAACATATT+AGG 0.221068 1:-93058790 MsG0180005542.01.T01:CDS
CACCTTCAATTCCTTTCATT+TGG 0.224391 1:-93058763 MsG0180005542.01.T01:CDS
TATGTCAATAAACGTTTCTT+TGG 0.247864 1:-93058108 MsG0180005542.01.T01:CDS
TTGCCTCAATTCCCTTTGTT+TGG 0.279099 1:-93058655 MsG0180005542.01.T01:CDS
TGAAAAGTTAAGTTCAAGTT+TGG 0.340393 1:-93058297 MsG0180005542.01.T01:CDS
ACTGGAAGGTCAAGTTTAAC+TGG 0.341492 1:-93058395 MsG0180005542.01.T01:CDS
ACCTTCAATTCCTTTCATTT+GGG 0.345813 1:-93058762 MsG0180005542.01.T01:CDS
TATCAAAACTAAATGATTCT+AGG 0.360427 1:+93058561 None:intergenic
TGCCTCAATTCCCTTTGTTT+GGG 0.372035 1:-93058654 MsG0180005542.01.T01:CDS
CCTTTGTTTCCACCAAAGTC+TGG 0.375252 1:-93058347 MsG0180005542.01.T01:CDS
AAGCAACTCAAATGAACAAA+TGG 0.378323 1:-93058160 MsG0180005542.01.T01:CDS
TTCAAGTTTGGTGGAACTAA+AGG 0.388380 1:-93058285 MsG0180005542.01.T01:CDS
AACTGAGTTAAATGATTCAT+TGG 0.396407 1:+93058538 None:intergenic
AGTATAAGCAGCTATGAAAC+TGG 0.406907 1:-93058413 MsG0180005542.01.T01:CDS
AAACTAGGGAGGGGTATTCC+AGG 0.409764 1:+93058623 None:intergenic
TTCTAGGTCCAAGCTAGTTA+TGG 0.418005 1:+93058577 None:intergenic
AGAAAGGAAGAAACATATTA+GGG 0.423493 1:-93058789 MsG0180005542.01.T01:CDS
ATGGAACAAGTTACCTTTGG+TGG 0.430078 1:+93058134 None:intergenic
TCAAGTTTGGTGGAACTAAA+GGG 0.439502 1:-93058284 MsG0180005542.01.T01:CDS
AAAATGGAACAAGTTACCTT+TGG 0.440214 1:+93058131 None:intergenic
CAGGCATTCCTATAAAAGAT+TGG 0.447195 1:-93058730 MsG0180005542.01.T01:CDS
AAAGTTAAGTTCAAGTTTGG+TGG 0.448826 1:-93058294 MsG0180005542.01.T01:CDS
CTCTCCAGCTTCGTCGGAGA+TGG 0.451790 1:-93058441 MsG0180005542.01.T01:CDS
CTTTCAAGAAAACCAGACTT+TGG 0.465296 1:+93058335 None:intergenic
TTCCCAAACAAAGGGAATTG+AGG 0.478406 1:+93058652 None:intergenic
AGAGAGTTTGCAAGTAAAGA+AGG 0.480592 1:+93058515 None:intergenic
CTATCCATCTCCGACGAAGC+TGG 0.483008 1:+93058437 None:intergenic
TCCCAAATGAAAGGAATTGA+AGG 0.504204 1:+93058761 None:intergenic
AGCAACTCAAATGAACAAAT+GGG 0.509084 1:-93058159 MsG0180005542.01.T01:CDS
TCATCAACATGTGAGAAACT+AGG 0.514045 1:+93058608 None:intergenic
TCAAGAAAACCAGACTTTGG+TGG 0.518874 1:+93058338 None:intergenic
TCCGACGAAGCTGGAGAGGA+TGG 0.522845 1:+93058446 None:intergenic
ATAATTAACTCTCCAAGTGT+TGG 0.527351 1:+93058212 None:intergenic
GAGGATGGAGTTTGCTGTAG+TGG 0.531543 1:+93058461 None:intergenic
TCCATCCTCTCCAGCTTCGT+CGG 0.537624 1:-93058447 MsG0180005542.01.T01:CDS
TTCATTTGGGAAACAAAACC+AGG 0.538522 1:-93058749 MsG0180005542.01.T01:CDS
TCAAGGAAGCAACCAACACT+TGG 0.542435 1:-93058224 MsG0180005542.01.T01:CDS
TTGCTTCCTTGACATATCAC+AGG 0.543111 1:+93058235 None:intergenic
CCAGACTTTGGTGGAAACAA+AGG 0.545773 1:+93058347 None:intergenic
CATCAACATGTGAGAAACTA+GGG 0.549198 1:+93058609 None:intergenic
ATTATACCTGTGATATGTCA+AGG 0.573360 1:-93058241 MsG0180005542.01.T01:CDS
GAGTGAAACCATAACTAGCT+TGG 0.574998 1:-93058585 MsG0180005542.01.T01:CDS
TGACAAAATGATGAGTCCAC+TGG 0.586915 1:+93058704 None:intergenic
CATCTCCGACGAAGCTGGAG+AGG 0.596381 1:+93058442 None:intergenic
TGGAGTTTGCTGTAGTGGCA+TGG 0.598354 1:+93058466 None:intergenic
CAAATGAAAGGAATTGAAGG+TGG 0.607064 1:+93058764 None:intergenic
GAACAAATGGGATCCACCAA+AGG 0.609336 1:-93058147 MsG0180005542.01.T01:CDS
ACATGTGAGAAACTAGGGAG+GGG 0.616121 1:+93058614 None:intergenic
TAAGCAGCTATGAAACTGGA+AGG 0.618972 1:-93058409 MsG0180005542.01.T01:CDS
TATAAAAGATTGGAAGCCAG+TGG 0.619766 1:-93058720 MsG0180005542.01.T01:CDS
AACATGTGAGAAACTAGGGA+GGG 0.639709 1:+93058613 None:intergenic
CAACATGTGAGAAACTAGGG+AGG 0.699559 1:+93058612 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACGTTTATTGACATAAAAA+TGG + Chr1:93058758-93058777 None:intergenic 20.0%
!! TATCAAAACTAAATGATTCT+AGG + Chr1:93058312-93058331 None:intergenic 20.0%
! AACTGAGTTAAATGATTCAT+TGG + Chr1:93058335-93058354 None:intergenic 25.0%
! AAGAAAGGAAGAAACATATT+AGG - Chr1:93058080-93058099 MsG0180005542.01.T01:CDS 25.0%
! AGAAAGGAAGAAACATATTA+GGG - Chr1:93058081-93058100 MsG0180005542.01.T01:CDS 25.0%
! TATGTCAATAAACGTTTCTT+TGG - Chr1:93058762-93058781 MsG0180005542.01.T01:CDS 25.0%
!! TGAAAAGTTAAGTTCAAGTT+TGG - Chr1:93058573-93058592 MsG0180005542.01.T01:CDS 25.0%
!!! ATTTGTTTTAGTGGAGTTTT+TGG + Chr1:93058196-93058215 None:intergenic 25.0%
AAAATGGAACAAGTTACCTT+TGG + Chr1:93058742-93058761 None:intergenic 30.0%
AAGCAACTCAAATGAACAAA+TGG - Chr1:93058710-93058729 MsG0180005542.01.T01:CDS 30.0%
ACCTTCAATTCCTTTCATTT+GGG - Chr1:93058108-93058127 MsG0180005542.01.T01:CDS 30.0%
AGCAACTCAAATGAACAAAT+GGG - Chr1:93058711-93058730 MsG0180005542.01.T01:CDS 30.0%
ATAATTAACTCTCCAAGTGT+TGG + Chr1:93058661-93058680 None:intergenic 30.0%
ATTATACCTGTGATATGTCA+AGG - Chr1:93058629-93058648 MsG0180005542.01.T01:CDS 30.0%
! AAAGTTAAGTTCAAGTTTGG+TGG - Chr1:93058576-93058595 MsG0180005542.01.T01:CDS 30.0%
!!! AAAGTCTGGTTTTCTTGAAA+GGG - Chr1:93058537-93058556 MsG0180005542.01.T01:CDS 30.0%
!!! ATTGAGGCAATTTGTTTTAG+TGG + Chr1:93058205-93058224 None:intergenic 30.0%
!!! TTTAACTGGTTCTGCTTTTT+TGG - Chr1:93058489-93058508 MsG0180005542.01.T01:CDS 30.0%
AGAGAGTTTGCAAGTAAAGA+AGG + Chr1:93058358-93058377 None:intergenic 35.0%
AGTATAAGCAGCTATGAAAC+TGG - Chr1:93058457-93058476 MsG0180005542.01.T01:CDS 35.0%
CAAATGAAAGGAATTGAAGG+TGG + Chr1:93058109-93058128 None:intergenic 35.0%
CACCTTCAATTCCTTTCATT+TGG - Chr1:93058107-93058126 MsG0180005542.01.T01:CDS 35.0%
CAGGCATTCCTATAAAAGAT+TGG - Chr1:93058140-93058159 MsG0180005542.01.T01:CDS 35.0%
CATCAACATGTGAGAAACTA+GGG + Chr1:93058264-93058283 None:intergenic 35.0%
CTTTCAAGAAAACCAGACTT+TGG + Chr1:93058538-93058557 None:intergenic 35.0%
TATAAAAGATTGGAAGCCAG+TGG - Chr1:93058150-93058169 MsG0180005542.01.T01:CDS 35.0%
TCATCAACATGTGAGAAACT+AGG + Chr1:93058265-93058284 None:intergenic 35.0%
TCCCAAATGAAAGGAATTGA+AGG + Chr1:93058112-93058131 None:intergenic 35.0%
TTCATTTGGGAAACAAAACC+AGG - Chr1:93058121-93058140 MsG0180005542.01.T01:CDS 35.0%
TTTGTTTGGGAAGAAAAACC+TGG - Chr1:93058229-93058248 MsG0180005542.01.T01:CDS 35.0%
! AGGTTTTTCTTCCCAAACAA+AGG + Chr1:93058230-93058249 None:intergenic 35.0%
! CAATCTTTTATAGGAATGCC+TGG + Chr1:93058142-93058161 None:intergenic 35.0%
! GGTTTTCTTGAAAGGGATAT+TGG - Chr1:93058544-93058563 MsG0180005542.01.T01:CDS 35.0%
! GGTTTTTCTTCCCAAACAAA+GGG + Chr1:93058229-93058248 None:intergenic 35.0%
! TCAAGTTTGGTGGAACTAAA+GGG - Chr1:93058586-93058605 MsG0180005542.01.T01:CDS 35.0%
! TTCAAGTTTGGTGGAACTAA+AGG - Chr1:93058585-93058604 MsG0180005542.01.T01:CDS 35.0%
!! ACTGGCTTCCAATCTTTTAT+AGG + Chr1:93058151-93058170 None:intergenic 35.0%
!!! CAAAGTCTGGTTTTCTTGAA+AGG - Chr1:93058536-93058555 MsG0180005542.01.T01:CDS 35.0%
!!! GGTTTTGTTTCCCAAATGAA+AGG + Chr1:93058121-93058140 None:intergenic 35.0%
AACATGTGAGAAACTAGGGA+GGG + Chr1:93058260-93058279 None:intergenic 40.0%
ACTGGAAGGTCAAGTTTAAC+TGG - Chr1:93058475-93058494 MsG0180005542.01.T01:CDS 40.0%
ATGGAACAAGTTACCTTTGG+TGG + Chr1:93058739-93058758 None:intergenic 40.0%
GAGTGAAACCATAACTAGCT+TGG - Chr1:93058285-93058304 MsG0180005542.01.T01:CDS 40.0%
TAAGCAGCTATGAAACTGGA+AGG - Chr1:93058461-93058480 MsG0180005542.01.T01:CDS 40.0%
TCAAGAAAACCAGACTTTGG+TGG + Chr1:93058535-93058554 None:intergenic 40.0%
TGACAAAATGATGAGTCCAC+TGG + Chr1:93058169-93058188 None:intergenic 40.0%
TTCCCAAACAAAGGGAATTG+AGG + Chr1:93058221-93058240 None:intergenic 40.0%
TTCTAGGTCCAAGCTAGTTA+TGG + Chr1:93058296-93058315 None:intergenic 40.0%
TTGCCTCAATTCCCTTTGTT+TGG - Chr1:93058215-93058234 MsG0180005542.01.T01:CDS 40.0%
TTGCTTCCTTGACATATCAC+AGG + Chr1:93058638-93058657 None:intergenic 40.0%
! TGCCTCAATTCCCTTTGTTT+GGG - Chr1:93058216-93058235 MsG0180005542.01.T01:CDS 40.0%
ACATGTGAGAAACTAGGGAG+GGG + Chr1:93058259-93058278 None:intergenic 45.0%
CAACATGTGAGAAACTAGGG+AGG + Chr1:93058261-93058280 None:intergenic 45.0%
CCAGACTTTGGTGGAAACAA+AGG + Chr1:93058526-93058545 None:intergenic 45.0%
GAACAAATGGGATCCACCAA+AGG - Chr1:93058723-93058742 MsG0180005542.01.T01:CDS 45.0%
TCAAGGAAGCAACCAACACT+TGG - Chr1:93058646-93058665 MsG0180005542.01.T01:CDS 45.0%
! CCTTTGTTTCCACCAAAGTC+TGG - Chr1:93058523-93058542 MsG0180005542.01.T01:CDS 45.0%
!! AAACTAGGGAGGGGTATTCC+AGG + Chr1:93058250-93058269 None:intergenic 50.0%
!! GAGGATGGAGTTTGCTGTAG+TGG + Chr1:93058412-93058431 None:intergenic 50.0%
!! TGGAGTTTGCTGTAGTGGCA+TGG + Chr1:93058407-93058426 None:intergenic 50.0%
CTATCCATCTCCGACGAAGC+TGG + Chr1:93058436-93058455 None:intergenic 55.0%
TCCATCCTCTCCAGCTTCGT+CGG - Chr1:93058423-93058442 MsG0180005542.01.T01:CDS 55.0%
CATCTCCGACGAAGCTGGAG+AGG + Chr1:93058431-93058450 None:intergenic 60.0%
CTCTCCAGCTTCGTCGGAGA+TGG - Chr1:93058429-93058448 MsG0180005542.01.T01:CDS 60.0%
TCCGACGAAGCTGGAGAGGA+TGG + Chr1:93058427-93058446 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 93058073 93058819 93058073 ID=MsG0180005542.01;Name=MsG0180005542.01
Chr1 mRNA 93058073 93058819 93058073 ID=MsG0180005542.01.T01;Parent=MsG0180005542.01;Name=MsG0180005542.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|248
Chr1 exon 93058073 93058819 93058073 ID=MsG0180005542.01.T01:exon:19044;Parent=MsG0180005542.01.T01
Chr1 CDS 93058073 93058819 93058073 ID=MsG0180005542.01.T01:cds;Parent=MsG0180005542.01.T01
Gene Sequence

>MsG0180005542.01.T01

ATGAAAAAAGAAAGGAAGAAACATATTAGGGAACCACCTTCAATTCCTTTCATTTGGGAAACAAAACCAGGCATTCCTATAAAAGATTGGAAGCCAGTGGACTCATCATTTTGTCAATTACCAAAAACTCCACTAAAACAAATTGCCTCAATTCCCTTTGTTTGGGAAGAAAAACCTGGAATACCCCTCCCTAGTTTCTCACATGTTGATGAGAGTGAAACCATAACTAGCTTGGACCTAGAATCATTTAGTTTTGATACCAATGAATCATTTAACTCAGTTCCTTCTTTACTTGCAAACTCTCTTGTATCATCAACTAAACTCTCTACAGCCATGCCACTACAGCAAACTCCATCCTCTCCAGCTTCGTCGGAGATGGATAGTAGTATAAGCAGCTATGAAACTGGAAGGTCAAGTTTAACTGGTTCTGCTTTTTTGGAATGTCTATTTCCTTTGTTTCCACCAAAGTCTGGTTTTCTTGAAAGGGATATTGGTTACAATGAAAAGTTAAGTTCAAGTTTGGTGGAACTAAAGGGAAATGATTTTGAGAATGAAGATTATACCTGTGATATGTCAAGGAAGCAACCAACACTTGGAGAGTTAATTATGATGAGCAGAAGAAGAAGCTGCATAAGAAAAGCAACTCAAATGAACAAATGGGATCCACCAAAGGTAACTTGTTCCATTTTTATGTCAATAAACGTTTCTTTGGATTATGTTCAACATTTTTTATGTCATATAATCTAA

Protein sequence

>MsG0180005542.01.T01

MKKERKKHIREPPSIPFIWETKPGIPIKDWKPVDSSFCQLPKTPLKQIASIPFVWEEKPGIPLPSFSHVDESETITSLDLESFSFDTNESFNSVPSLLANSLVSSTKLSTAMPLQQTPSSPASSEMDSSISSYETGRSSLTGSAFLECLFPLFPPKSGFLERDIGYNEKLSSSLVELKGNDFENEDYTCDMSRKQPTLGELIMMSRRRSCIRKATQMNKWDPPKVTCSIFMSINVSLDYVQHFLCHII*