AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027325.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027325.01.T01 MTR_5g054910 89.720 214 22 0 5 218 125 338 3.85e-139 393
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027325.01.T01 AT3G25805 68.095 210 67 0 5 214 119 328 2.47e-105 307

Find 51 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTCCTCTTGTTGGACTTAT+TGG 0.159460 5:-58446741 MsG0580027325.01.T01:CDS
GGTCGAATGGATGCAAATTT+TGG 0.266469 5:-58446678 MsG0580027325.01.T01:CDS
CCCCAAAGTTATACCTCTTT+AGG 0.301184 5:+58446441 None:intergenic
TATGTCTTATATCTCTATTA+TGG 0.311106 5:-58446710 MsG0580027325.01.T01:CDS
GATGGCTTATCTTCTTTGCT+TGG 0.329179 5:-58446466 MsG0580027325.01.T01:CDS
ACAGAATGTTCAGCAAAATA+AGG 0.336442 5:-58446532 MsG0580027325.01.T01:CDS
TGTGCCGGTTGTTGGCTTGA+TGG 0.336815 5:-58446484 MsG0580027325.01.T01:CDS
CTTAGTTATGTGCCGGTTGT+TGG 0.337739 5:-58446492 MsG0580027325.01.T01:CDS
GGCTGGCTTACGCGTTCATA+TGG 0.355259 5:-58446605 MsG0580027325.01.T01:CDS
GAGTACTTGGTTGGTTATCT+TGG 0.361713 5:-58446636 MsG0580027325.01.T01:CDS
GGGGTCTCTTGATGTACTTT+GGG 0.363608 5:-58447500 MsG0580027325.01.T01:CDS
TACGATCTGTGAACAGTAAA+GGG 0.363648 5:+58447539 None:intergenic
GGACTATTCAACTTTGTGAT+TGG 0.372455 5:-58447580 MsG0580027325.01.T01:CDS
ACACTTACAGGATGAAGAAC+TGG 0.392869 5:+58447700 None:intergenic
AGGGGTCTCTTGATGTACTT+TGG 0.396202 5:-58447501 MsG0580027325.01.T01:CDS
TATTCAACTTTGTGATTGGA+TGG 0.402697 5:-58447576 MsG0580027325.01.T01:CDS
TTCATTCGGATAGCCATGTA+TGG 0.404808 5:+58446828 None:intergenic
CTCTTGTTGGACTTATTGGC+GGG 0.411567 5:-58446737 MsG0580027325.01.T01:CDS
AATTAATATATACACTGTTC+TGG 0.412504 5:-58447810 None:intergenic
ATGTCTTATATCTCTATTAT+GGG 0.419516 5:-58446709 MsG0580027325.01.T01:CDS
CATCGTCGGCATTATTCATT+CGG 0.431641 5:+58446814 None:intergenic
ACAAATGGTGCTCCTCTTGT+TGG 0.439251 5:-58446750 MsG0580027325.01.T01:CDS
CCTCTTGTTGGACTTATTGG+CGG 0.451207 5:-58446738 MsG0580027325.01.T01:CDS
TTATCTTGGTTCAGAAAGGC+TGG 0.452225 5:-58446622 MsG0580027325.01.T01:CDS
TTGGGTTCTGTTATGACAAA+TGG 0.470703 5:-58446765 MsG0580027325.01.T01:CDS
TAAGCCATCAAGCCAACAAC+CGG 0.481994 5:+58446480 None:intergenic
AGTAGACAGATGGGAGTACT+TGG 0.483792 5:-58446649 MsG0580027325.01.T01:CDS
TTACGATCTGTGAACAGTAA+AGG 0.489239 5:+58447538 None:intergenic
TCTTTGCTTGGAGCCTAAAG+AGG 0.497337 5:-58446454 MsG0580027325.01.T01:CDS
TTGGTTATCTTGGTTCAGAA+AGG 0.499395 5:-58446626 MsG0580027325.01.T01:CDS
CACTTACAGGATGAAGAACT+GGG 0.507713 5:+58447701 None:intergenic
TTCTTGCTTCAGATGTCAGA+AGG 0.519583 5:-58447601 MsG0580027325.01.T01:intron
TTGGTGGCATAGTAGACAGA+TGG 0.519695 5:-58446659 MsG0580027325.01.T01:CDS
GAAGTATCTTAGTTATGTGC+CGG 0.540046 5:-58446499 MsG0580027325.01.T01:CDS
CTTGTTGGACTTATTGGCGG+GGG 0.548045 5:-58446735 MsG0580027325.01.T01:CDS
CGTAAGAGAGATAGATACAA+GGG 0.553150 5:-58447520 MsG0580027325.01.T01:CDS
GGGTCTCTTGATGTACTTTG+GGG 0.556478 5:-58447499 MsG0580027325.01.T01:CDS
GATTGGAGCATTGTCATCGT+CGG 0.563202 5:+58446800 None:intergenic
GACAGATGGGAGTACTTGGT+TGG 0.563907 5:-58446645 MsG0580027325.01.T01:CDS
GCTGGCTTACGCGTTCATAT+GGG 0.566231 5:-58446604 MsG0580027325.01.T01:CDS
TGGTGGCATAGTAGACAGAT+GGG 0.587147 5:-58446658 MsG0580027325.01.T01:CDS
ACAGAAATCATTGAAGTGCA+AGG 0.587498 5:+58447768 None:intergenic
TCTTGTTGGACTTATTGGCG+GGG 0.588167 5:-58446736 MsG0580027325.01.T01:CDS
TCATTCGGATAGCCATGTAT+GGG 0.588241 5:+58446829 None:intergenic
TCGTAAGAGAGATAGATACA+AGG 0.594101 5:-58447521 MsG0580027325.01.T01:CDS
CCGCCAATAAGTCCAACAAG+AGG 0.662853 5:+58446738 None:intergenic
ACGATCTGTGAACAGTAAAG+GGG 0.671682 5:+58447540 None:intergenic
TAGGAAACATACTATTCGTG+AGG 0.675684 5:+58447464 None:intergenic
GTAAGAGAGATAGATACAAG+GGG 0.727954 5:-58447519 MsG0580027325.01.T01:CDS
AGGTTGTCACCAATCAACCA+AGG 0.739039 5:+58446555 None:intergenic
ACTTACAGGATGAAGAACTG+GGG 0.768615 5:+58447702 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGTCTTATATCTCTATTAT+GGG - Chr5:58447536-58447555 MsG0580027325.01.T01:CDS 20.0%
!! CCAATCAAAAATTCAAAATT+GGG - Chr5:58447462-58447481 MsG0580027325.01.T01:intron 20.0%
!! TATGTCTTATATCTCTATTA+TGG - Chr5:58447535-58447554 MsG0580027325.01.T01:CDS 20.0%
!! TCCAATCAAAAATTCAAAAT+TGG - Chr5:58447461-58447480 MsG0580027325.01.T01:intron 20.0%
! ACAACAAATTTCATTCGAAA+TGG + Chr5:58447049-58447068 None:intergenic 25.0%
! AGAAATATACTCTTCTATGT+AGG + Chr5:58446838-58446857 None:intergenic 25.0%
! CAACAAATTTCATTCGAAAT+GGG + Chr5:58447048-58447067 None:intergenic 25.0%
! TGTACAAGTAACATATGATT+TGG - Chr5:58446571-58446590 MsG0580027325.01.T01:CDS 25.0%
!! CCCAATTTTGAATTTTTGAT+TGG + Chr5:58447465-58447484 None:intergenic 25.0%
!!! TACAAAGTATTGTCAAATAG+TGG - Chr5:58446943-58446962 MsG0580027325.01.T01:intron 25.0%
!!! TTCAATGATTTCTGTTTTGA+CGG - Chr5:58446485-58446504 MsG0580027325.01.T01:CDS 25.0%
!!! TTTATACAATTTTTCAGCCT+TGG - Chr5:58447673-58447692 MsG0580027325.01.T01:intron 25.0%
AAGAAAAATGTCCAACATCA+GGG + Chr5:58446629-58446648 None:intergenic 30.0%
ACAGAATGTTCAGCAAAATA+AGG - Chr5:58447713-58447732 MsG0580027325.01.T01:CDS 30.0%
AGGGAAATTGTTTCATCAAA+TGG + Chr5:58446610-58446629 None:intergenic 30.0%
CATCATAGATTGTAGTATAG+CGG - Chr5:58447278-58447297 MsG0580027325.01.T01:intron 30.0%
GAAATGGGATTATGAAGAAA+GGG + Chr5:58447033-58447052 None:intergenic 30.0%
TATACTACAATCTATGATGC+AGG + Chr5:58447277-58447296 None:intergenic 30.0%
TATTCAACTTTGTGATTGGA+TGG - Chr5:58446669-58446688 MsG0580027325.01.T01:CDS 30.0%
TGTTGTCAATTTGAGAATCA+CGG + Chr5:58447325-58447344 None:intergenic 30.0%
! TATTTTGCTGAACATTCTGT+AGG + Chr5:58447713-58447732 None:intergenic 30.0%
!!! AGCATTTTTTATCCCATACA+TGG - Chr5:58447404-58447423 MsG0580027325.01.T01:intron 30.0%
ACAGAAATCATTGAAGTGCA+AGG + Chr5:58446480-58446499 None:intergenic 35.0%
CAAGAAAAATGTCCAACATC+AGG + Chr5:58446630-58446649 None:intergenic 35.0%
CGAAATGGGATTATGAAGAA+AGG + Chr5:58447034-58447053 None:intergenic 35.0%
CGTAAGAGAGATAGATACAA+GGG - Chr5:58446725-58446744 MsG0580027325.01.T01:CDS 35.0%
CTAGAAATATATCTCGTACC+CGG - Chr5:58447244-58447263 MsG0580027325.01.T01:intron 35.0%
GGACTATTCAACTTTGTGAT+TGG - Chr5:58446665-58446684 MsG0580027325.01.T01:CDS 35.0%
GTAAGAGAGATAGATACAAG+GGG - Chr5:58446726-58446745 MsG0580027325.01.T01:CDS 35.0%
TACGATCTGTGAACAGTAAA+GGG + Chr5:58446709-58446728 None:intergenic 35.0%
TAGGAAACATACTATTCGTG+AGG + Chr5:58446784-58446803 None:intergenic 35.0%
TAGTCGAGCAAAAGAGTTAT+AGG + Chr5:58446803-58446822 None:intergenic 35.0%
TCGTAAGAGAGATAGATACA+AGG - Chr5:58446724-58446743 MsG0580027325.01.T01:CDS 35.0%
TGAAACAATTTCCCTGATGT+TGG - Chr5:58446615-58446634 MsG0580027325.01.T01:CDS 35.0%
TTACGATCTGTGAACAGTAA+AGG + Chr5:58446710-58446729 None:intergenic 35.0%
TTGGGTTCTGTTATGACAAA+TGG - Chr5:58447480-58447499 MsG0580027325.01.T01:CDS 35.0%
TTGGTTATCTTGGTTCAGAA+AGG - Chr5:58447619-58447638 MsG0580027325.01.T01:intron 35.0%
! GAAGTATCTTAGTTATGTGC+CGG - Chr5:58447746-58447765 MsG0580027325.01.T01:CDS 35.0%
! TCTCTATTATGGGCTCTTTT+TGG - Chr5:58447546-58447565 MsG0580027325.01.T01:CDS 35.0%
!! ATTTTTCAGCCTTGGTTGAT+TGG - Chr5:58447681-58447700 MsG0580027325.01.T01:intron 35.0%
!!! GATTTCTGTTTTGACGGTTT+TGG - Chr5:58446491-58446510 MsG0580027325.01.T01:CDS 35.0%
ACACTTACAGGATGAAGAAC+TGG + Chr5:58446548-58446567 None:intergenic 40.0%
ACGATCTGTGAACAGTAAAG+GGG + Chr5:58446708-58446727 None:intergenic 40.0%
ACTTACAGGATGAAGAACTG+GGG + Chr5:58446546-58446565 None:intergenic 40.0%
ACTTGTACAGTGACACTTAC+AGG + Chr5:58446560-58446579 None:intergenic 40.0%
CACTTACAGGATGAAGAACT+GGG + Chr5:58446547-58446566 None:intergenic 40.0%
CATCGTCGGCATTATTCATT+CGG + Chr5:58447434-58447453 None:intergenic 40.0%
GATGGCTTATCTTCTTTGCT+TGG - Chr5:58447779-58447798 MsG0580027325.01.T01:CDS 40.0%
TCATTCGGATAGCCATGTAT+GGG + Chr5:58447419-58447438 None:intergenic 40.0%
TTATCTTGGTTCAGAAAGGC+TGG - Chr5:58447623-58447642 MsG0580027325.01.T01:intron 40.0%
TTCATTCGGATAGCCATGTA+TGG + Chr5:58447420-58447439 None:intergenic 40.0%
TTCTTGCTTCAGATGTCAGA+AGG - Chr5:58446644-58446663 MsG0580027325.01.T01:CDS 40.0%
! CGAATGGATGCAAATTTTGG+TGG - Chr5:58447570-58447589 MsG0580027325.01.T01:CDS 40.0%
! GAGTACTTGGTTGGTTATCT+TGG - Chr5:58447609-58447628 MsG0580027325.01.T01:intron 40.0%
! GGTCGAATGGATGCAAATTT+TGG - Chr5:58447567-58447586 MsG0580027325.01.T01:CDS 40.0%
!! CATTGTATCCTCTGAAGCAT+GGG - Chr5:58446983-58447002 MsG0580027325.01.T01:intron 40.0%
ACAAATGGTGCTCCTCTTGT+TGG - Chr5:58447495-58447514 MsG0580027325.01.T01:CDS 45.0%
AGGGGTCTCTTGATGTACTT+TGG - Chr5:58446744-58446763 MsG0580027325.01.T01:CDS 45.0%
AGGTTGTCACCAATCAACCA+AGG + Chr5:58447693-58447712 None:intergenic 45.0%
CCTCTTGTTGGACTTATTGG+CGG - Chr5:58447507-58447526 MsG0580027325.01.T01:CDS 45.0%
CTATGATGCAGGTACAGTAC+CGG + Chr5:58447266-58447285 None:intergenic 45.0%
CTCTTGTTGGACTTATTGGC+GGG - Chr5:58447508-58447527 MsG0580027325.01.T01:CDS 45.0%
GCTCCTCTTGTTGGACTTAT+TGG - Chr5:58447504-58447523 MsG0580027325.01.T01:CDS 45.0%
GGGGTCTCTTGATGTACTTT+GGG - Chr5:58446745-58446764 MsG0580027325.01.T01:CDS 45.0%
GGGTCTCTTGATGTACTTTG+GGG - Chr5:58446746-58446765 MsG0580027325.01.T01:CDS 45.0%
TAAGCCATCAAGCCAACAAC+CGG + Chr5:58447768-58447787 None:intergenic 45.0%
TATGATGCAGGTACAGTACC+GGG + Chr5:58447265-58447284 None:intergenic 45.0%
TCTTGTTGGACTTATTGGCG+GGG - Chr5:58447509-58447528 MsG0580027325.01.T01:CDS 45.0%
TCTTTGCTTGGAGCCTAAAG+AGG - Chr5:58447791-58447810 MsG0580027325.01.T01:CDS 45.0%
TGGTGGCATAGTAGACAGAT+GGG - Chr5:58447587-58447606 MsG0580027325.01.T01:CDS 45.0%
! TTGGTGGCATAGTAGACAGA+TGG - Chr5:58447586-58447605 MsG0580027325.01.T01:CDS 45.0%
!! AGTAGACAGATGGGAGTACT+TGG - Chr5:58447596-58447615 MsG0580027325.01.T01:intron 45.0%
!! ATGGGCTCTTTTTGGTCGAA+TGG - Chr5:58447554-58447573 MsG0580027325.01.T01:CDS 45.0%
!! CTTAGTTATGTGCCGGTTGT+TGG - Chr5:58447753-58447772 MsG0580027325.01.T01:CDS 45.0%
!! GATTGGAGCATTGTCATCGT+CGG + Chr5:58447448-58447467 None:intergenic 45.0%
!! GCATTGTATCCTCTGAAGCA+TGG - Chr5:58446982-58447001 MsG0580027325.01.T01:intron 45.0%
CCGCCAATAAGTCCAACAAG+AGG + Chr5:58447510-58447529 None:intergenic 50.0%
CTTGTTGGACTTATTGGCGG+GGG - Chr5:58447510-58447529 MsG0580027325.01.T01:CDS 50.0%
! GCTGGCTTACGCGTTCATAT+GGG - Chr5:58447641-58447660 MsG0580027325.01.T01:intron 50.0%
!! GACAGATGGGAGTACTTGGT+TGG - Chr5:58447600-58447619 MsG0580027325.01.T01:intron 50.0%
!! GACGGTTTTGGCAGAGTAGT+TGG - Chr5:58446503-58446522 MsG0580027325.01.T01:CDS 50.0%
CTGAAGCATGGGTACGCGTA+CGG - Chr5:58446994-58447013 MsG0580027325.01.T01:intron 55.0%
TACGCGTACCCATGCTTCAG+AGG + Chr5:58446994-58447013 None:intergenic 55.0%
!! GGCTGGCTTACGCGTTCATA+TGG - Chr5:58447640-58447659 MsG0580027325.01.T01:intron 55.0%
!! TGTGCCGGTTGTTGGCTTGA+TGG - Chr5:58447761-58447780 MsG0580027325.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 58446449 58447818 58446449 ID=MsG0580027325.01;Name=MsG0580027325.01
Chr5 mRNA 58446449 58447818 58446449 ID=MsG0580027325.01.T01;Parent=MsG0580027325.01;Name=MsG0580027325.01.T01;_AED=0.42;_eAED=0.43;_QI=0|0|0|1|1|1|3|0|219
Chr5 exon 58447708 58447818 58447708 ID=MsG0580027325.01.T01:exon:21910;Parent=MsG0580027325.01.T01
Chr5 exon 58447476 58447611 58447476 ID=MsG0580027325.01.T01:exon:21909;Parent=MsG0580027325.01.T01
Chr5 exon 58446449 58446861 58446449 ID=MsG0580027325.01.T01:exon:21908;Parent=MsG0580027325.01.T01
Chr5 CDS 58447708 58447818 58447708 ID=MsG0580027325.01.T01:cds;Parent=MsG0580027325.01.T01
Chr5 CDS 58447476 58447611 58447476 ID=MsG0580027325.01.T01:cds;Parent=MsG0580027325.01.T01
Chr5 CDS 58446449 58446861 58446449 ID=MsG0580027325.01.T01:cds;Parent=MsG0580027325.01.T01
Gene Sequence

>MsG0580027325.01.T01

CTGTTCTGGTTTTTGAAGAAAATTATTGCCTTGCACTTCAATGATTTCTGTTTTGACGGTTTTGGCAGAGTAGTTGGCATTCGTCTGATTGATGCCCCAGTTCTTCATCCTATGTCAGAAGGACTATTCAACTTTGTGATTGGATGGACATTCATGTTTGCCCCTTTACTGTTCACAGATCGTAAGAGAGATAGATACAAGGGGTCTCTTGATGTACTTTGGGGACTGCAAATGTTCCTCACGAATACATTTTTTATCCCATACATGGCTATCCGAATGAATAATGCCGACGATGACAATGCTCCAATCAAAAATTCAAAATTGGGTTCTGTTATGACAAATGGTGCTCCTCTTGTTGGACTTATTGGCGGGGGTGTATGTCTTATATCTCTATTATGGGCTCTTTTTGGTCGAATGGATGCAAATTTTGGTGGCATAGTAGACAGATGGGAGTACTTGGTTGGTTATCTTGGTTCAGAAAGGCTGGCTTACGCGTTCATATGGGATATATGTCTTTATACAATTTTTCAGCCTTGGTTGATTGGTGACAACCTACAGAATGTTCAGCAAAATAAGGTTGCAGTAGTGAAGTATCTTAGTTATGTGCCGGTTGTTGGCTTGATGGCTTATCTTCTTTGCTTGGAGCCTAAAGAGGTATAA

Protein sequence

>MsG0580027325.01.T01

LFWFLKKIIALHFNDFCFDGFGRVVGIRLIDAPVLHPMSEGLFNFVIGWTFMFAPLLFTDRKRDRYKGSLDVLWGLQMFLTNTFFIPYMAIRMNNADDDNAPIKNSKLGSVMTNGAPLVGLIGGGVCLISLLWALFGRMDANFGGIVDRWEYLVGYLGSERLAYAFIWDICLYTIFQPWLIGDNLQNVQQNKVAVVKYLSYVPVVGLMAYLLCLEPKEV*