AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045488.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045488.01.T01 MTR_8g077115 82.222 45 8 0 2 46 176 220 6.69e-16 71.2
MsG0880045488.01.T01 MTR_8g077120 83.721 43 5 1 10 52 178 218 8.93e-14 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATCTTGTGGTATTGATTA+TGG 0.128436 8:+59927391 MsG0880045488.01.T01:CDS
GGTCAGAATCGTTGTTATTT+TGG 0.139850 8:+59927452 MsG0880045488.01.T01:CDS
TTTGGCATTTGGTTCTTATT+TGG 0.171210 8:+59926479 MsG0880045488.01.T01:CDS
AGTTGTTTGGCTTTGGCATT+TGG 0.288675 8:+59926468 MsG0880045488.01.T01:CDS
TACCAGCAGTTGTTTGGCTT+TGG 0.320403 8:+59926461 MsG0880045488.01.T01:CDS
TTGTTTGTTGGAGCTGTTGT+AGG 0.332186 8:+59927357 MsG0880045488.01.T01:CDS
CACCATTACCAGCAGTTGTT+TGG 0.352388 8:+59926455 MsG0880045488.01.T01:CDS
GGGTCTGCCGTACTTTGCTT+AGG 0.405724 8:+59927474 MsG0880045488.01.T01:CDS
TTCATTCGTCTTTAAGCCAA+TGG 0.484767 8:-59927518 None:intergenic
AGCCAAACAACTGCTGGTAA+TGG 0.486744 8:-59926457 None:intergenic
TGAGCCAAGTGGTTGTTTGT+TGG 0.493738 8:+59927345 MsG0880045488.01.T01:CDS
TGTTTCTTTGGTGATCATGC+AGG 0.500053 8:+59926405 MsG0880045488.01.T01:CDS
TGCCAAAGCCAAACAACTGC+TGG 0.514847 8:-59926463 None:intergenic
AAGAAAACCTAAGCAAAGTA+CGG 0.563885 8:-59927481 None:intergenic
AGCTCCAACAAACAACCACT+TGG 0.567748 8:-59927349 None:intergenic
TGTTTGTTGGAGCTGTTGTA+GGG 0.569289 8:+59927358 MsG0880045488.01.T01:CDS
AACGATTCTGACCCACAAAG+AGG 0.600535 8:-59927442 None:intergenic
ACTTCATACAGTGAGCCAAG+TGG 0.707082 8:+59927334 MsG0880045488.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATACTTCTAATTAAAATA+TGG + Chr8:59927155-59927174 MsG0880045488.01.T01:intron 10.0%
!! AATAAATTATGTGCACTAAA+TGG - Chr8:59927022-59927041 None:intergenic 20.0%
!!! ATTTTTTCTAAGATCGTTTA+CGG + Chr8:59927101-59927120 MsG0880045488.01.T01:intron 20.0%
! AAAATTATTAAATGTCCCCA+AGG + Chr8:59926852-59926871 MsG0880045488.01.T01:intron 25.0%
! ACATAAATTTGATCTCATAC+AGG + Chr8:59926668-59926687 MsG0880045488.01.T01:intron 25.0%
! CATAAATTTGATCTCATACA+GGG + Chr8:59926669-59926688 MsG0880045488.01.T01:intron 25.0%
! GACATACTAGTAAACTAAAT+TGG - Chr8:59926521-59926540 None:intergenic 25.0%
! TGAGAATAAACACTTAACAT+TGG - Chr8:59927271-59927290 None:intergenic 25.0%
AAGAAAACCTAAGCAAAGTA+CGG - Chr8:59927484-59927503 None:intergenic 30.0%
CTAGTTGTCGTATATTATGT+TGG - Chr8:59926941-59926960 None:intergenic 30.0%
TAACAAAGTTCTTGTGAAGA+GGG - Chr8:59926708-59926727 None:intergenic 30.0%
! AAGACTATGATGGAAAGTTA+AGG - Chr8:59926614-59926633 None:intergenic 30.0%
! CTTAGGTTTTCTTTTACATG+TGG + Chr8:59927491-59927510 MsG0880045488.01.T01:CDS 30.0%
! TTTTGTGTACTTCATGACAT+TGG + Chr8:59926585-59926604 MsG0880045488.01.T01:intron 30.0%
!! CGTATATTATGTTGGTAGTT+AGG - Chr8:59926933-59926952 None:intergenic 30.0%
!! CTATCTTGTGGTATTGATTA+TGG + Chr8:59927391-59927410 MsG0880045488.01.T01:CDS 30.0%
!! TTTGGCATTTGGTTCTTATT+TGG + Chr8:59926479-59926498 MsG0880045488.01.T01:CDS 30.0%
!!! CTTTTTTATTCTCGTATCCT+TGG + Chr8:59926540-59926559 MsG0880045488.01.T01:intron 30.0%
!!! GTCAGAATCGTTGTTATTTT+GGG + Chr8:59927453-59927472 MsG0880045488.01.T01:CDS 30.0%
!!! TCAGAATCGTTGTTATTTTG+GGG + Chr8:59927454-59927473 MsG0880045488.01.T01:CDS 30.0%
ACACAAAAAAGCAGAGAGTA+AGG - Chr8:59926573-59926592 None:intergenic 35.0%
GGTAGTAACTAAGACTATGA+TGG - Chr8:59926624-59926643 None:intergenic 35.0%
GTAACAAAGTTCTTGTGAAG+AGG - Chr8:59926709-59926728 None:intergenic 35.0%
TAGTTACTACCTCATCCATT+AGG + Chr8:59926633-59926652 MsG0880045488.01.T01:intron 35.0%
TGTAAACATGATGCACCTAA+TGG - Chr8:59926651-59926670 None:intergenic 35.0%
! AGACTTTGAAAAGGAGATCT+AGG + Chr8:59926899-59926918 MsG0880045488.01.T01:intron 35.0%
! ATGCTTTTGTATCCTCTTTG+TGG + Chr8:59927430-59927449 MsG0880045488.01.T01:CDS 35.0%
! GACATCCAAAGACTTTGAAA+AGG + Chr8:59926890-59926909 MsG0880045488.01.T01:intron 35.0%
! GACTTTGAAAAGGAGATCTA+GGG + Chr8:59926900-59926919 MsG0880045488.01.T01:intron 35.0%
! GATCTCCTTTTCAAAGTCTT+TGG - Chr8:59926898-59926917 None:intergenic 35.0%
! TGCTTTTGTATCCTCTTTGT+GGG + Chr8:59927431-59927450 MsG0880045488.01.T01:CDS 35.0%
!! TTTGTTTTCAGTCATACCTG+CGG + Chr8:59927300-59927319 MsG0880045488.01.T01:intron 35.0%
!!! GGTCAGAATCGTTGTTATTT+TGG + Chr8:59927452-59927471 MsG0880045488.01.T01:CDS 35.0%
!!! TGAGCTTGTTACTTTTGTCA+TGG + Chr8:59927208-59927227 MsG0880045488.01.T01:intron 35.0%
! TGTTTCTTTGGTGATCATGC+AGG + Chr8:59926405-59926424 MsG0880045488.01.T01:CDS 40.0%
! TGTTTGTTGGAGCTGTTGTA+GGG + Chr8:59927358-59927377 MsG0880045488.01.T01:CDS 40.0%
! TTGTTTGTTGGAGCTGTTGT+AGG + Chr8:59927357-59927376 MsG0880045488.01.T01:CDS 40.0%
! TTGTTTTCAGTCATACCTGC+GGG + Chr8:59927301-59927320 MsG0880045488.01.T01:intron 40.0%
! TTTTACATGTGGTTCGCCAT+TGG + Chr8:59927502-59927521 MsG0880045488.01.T01:CDS 40.0%
!! AGTTGTTTGGCTTTGGCATT+TGG + Chr8:59926468-59926487 MsG0880045488.01.T01:CDS 40.0%
!! GGTCGATTTTCTCTATCTTG+TGG + Chr8:59927379-59927398 MsG0880045488.01.T01:CDS 40.0%
AACGATTCTGACCCACAAAG+AGG - Chr8:59927445-59927464 None:intergenic 45.0%
ACCACTTGAGCTATACCTTG+GGG - Chr8:59926870-59926889 None:intergenic 45.0%
ACTTCATACAGTGAGCCAAG+TGG + Chr8:59927334-59927353 MsG0880045488.01.T01:CDS 45.0%
AGCCAAACAACTGCTGGTAA+TGG - Chr8:59926460-59926479 None:intergenic 45.0%
AGCTCCAACAAACAACCACT+TGG - Chr8:59927352-59927371 None:intergenic 45.0%
CAACTAGCATTCGCTCAGTA+TGG + Chr8:59926954-59926973 MsG0880045488.01.T01:intron 45.0%
CACCACTTGAGCTATACCTT+GGG - Chr8:59926871-59926890 None:intergenic 45.0%
CACCATTACCAGCAGTTGTT+TGG + Chr8:59926455-59926474 MsG0880045488.01.T01:CDS 45.0%
CTCAGTATGGATCGAGTGAT+AGG + Chr8:59926967-59926986 MsG0880045488.01.T01:intron 45.0%
TCACCACTTGAGCTATACCT+TGG - Chr8:59926872-59926891 None:intergenic 45.0%
TGAGCCAAGTGGTTGTTTGT+TGG + Chr8:59927345-59927364 MsG0880045488.01.T01:CDS 45.0%
TTATTCTCGTATCCTTGGCG+TGG + Chr8:59926545-59926564 MsG0880045488.01.T01:intron 45.0%
! CATGATGCACCTAATGGATG+AGG - Chr8:59926645-59926664 None:intergenic 45.0%
! TACCAGCAGTTGTTTGGCTT+TGG + Chr8:59926461-59926480 MsG0880045488.01.T01:CDS 45.0%
GGATCGAGTGATAGGTGACT+TGG + Chr8:59926975-59926994 MsG0880045488.01.T01:intron 50.0%
TCCCCAAGGTATAGCTCAAG+TGG + Chr8:59926866-59926885 MsG0880045488.01.T01:intron 50.0%
TGCCAAAGCCAAACAACTGC+TGG - Chr8:59926466-59926485 None:intergenic 50.0%
! GAAGTTTTTGTGACACCCGC+AGG - Chr8:59927319-59927338 None:intergenic 50.0%
GGGTCTGCCGTACTTTGCTT+AGG + Chr8:59927474-59927493 MsG0880045488.01.T01:CDS 55.0%
! GAGAGTAAGGTACCACGCCA+AGG - Chr8:59926560-59926579 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 59926396 59927529 59926396 ID=MsG0880045488.01;Name=MsG0880045488.01
Chr8 mRNA 59926396 59927529 59926396 ID=MsG0880045488.01.T01;Parent=MsG0880045488.01;Name=MsG0880045488.01.T01;_AED=0.39;_eAED=0.71;_QI=0|0|0|1|0|0|2|0|107
Chr8 exon 59926396 59926500 59926396 ID=MsG0880045488.01.T01:exon:12369;Parent=MsG0880045488.01.T01
Chr8 exon 59927311 59927529 59927311 ID=MsG0880045488.01.T01:exon:12370;Parent=MsG0880045488.01.T01
Chr8 CDS 59926396 59926500 59926396 ID=MsG0880045488.01.T01:cds;Parent=MsG0880045488.01.T01
Chr8 CDS 59927311 59927529 59927311 ID=MsG0880045488.01.T01:cds;Parent=MsG0880045488.01.T01
Gene Sequence

>MsG0880045488.01.T01

ATTTTTATATGTTTCTTTGGTGATCATGCAGGTGTTGAATTGTTAAGTATCAATGCACTCACCATTACCAGCAGTTGTTTGGCTTTGGCATTTGGTTCTTATTTGTCATACCTGCGGGTGTCACAAAAACTTCATACAGTGAGCCAAGTGGTTGTTTGTTGGAGCTGTTGTAGGGTCGATTTTCTCTATCTTGTGGTATTGATTATGGAATGCATTTGTGCTAGATGCTTTTGTATCCTCTTTGTGGGTCAGAATCGTTGTTATTTTGGGGTCTGCCGTACTTTGCTTAGGTTTTCTTTTACATGTGGTTCGCCATTGGCTTAA
Protein sequence

>MsG0880045488.01.T01

IFICFFGDHAGVELLSINALTITSSCLALAFGSYLSYLRVSQKLHTVSQVVVCWSCCRVDFLYLVVLIMECICARCFCILFVGQNRCYFGVCRTLLRFSFTCGSPLA*