AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007610.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007610.01.T01 MTR_2g028830 96.667 30 1 0 1 30 1 30 3.72e-14 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 19 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATAGATGTGGCTAAGTATT+AGG 0.196357 2:-18031766 None:intergenic
AGTACCTGTTTGTGAGTAAA+TGG 0.303204 2:-18031974 None:intergenic
TTATATTGTGTGAGAGAGTT+TGG 0.339974 2:-18031866 None:intergenic
GAAAGTGAGAATGGAGTTAG+AGG 0.361074 2:+18033301 MsG0280007610.01.T01:CDS
GATGAAGAGATCAAAGAATA+GGG 0.364006 2:+18033395 MsG0280007610.01.T01:CDS
AGATGAAGAGATCAAAGAAT+AGG 0.368367 2:+18033394 MsG0280007610.01.T01:CDS
GTATGGTTTGTGAGATTTAG+AGG 0.373193 2:-18031834 None:intergenic
GAGTTTGGTTTGGTTTGGTA+TGG 0.375273 2:-18031851 None:intergenic
ATGAATGATGATGAAGATTC+AGG 0.388506 2:-18031736 None:intergenic
TGAGAGAGTTTGGTTTGGTT+TGG 0.420662 2:-18031856 None:intergenic
ATAGATGTGGCTAAGTATTA+GGG 0.422835 2:-18031765 None:intergenic
CTAGCCATTTACTCACAAAC+AGG 0.450456 2:+18031970 MsG0280007610.01.T01:CDS
ACAGAATGAGAAAGTGAGAA+TGG 0.452277 2:+18033292 MsG0280007610.01.T01:intron
AGTTCAACATTTGTTGCTGT+TGG 0.486483 2:-18032360 None:intergenic
AATGAAAGAAGAGAATAAGA+AGG 0.510715 2:-18031809 None:intergenic
TTGTGTGAGAGAGTTTGGTT+TGG 0.530762 2:-18031861 None:intergenic
AATGAGGCAATCAAGGATGT+TGG 0.559955 2:+18033331 MsG0280007610.01.T01:CDS
TTTGTGAGTAAATGGCTAGA+AGG 0.583293 2:-18031966 None:intergenic
AAGAGAGCATGCAATAGATG+TGG 0.641776 2:-18031778 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATAAATAAATTATATT+TGG + Chr2:18033039-18033058 MsG0280007610.01.T01:intron 0.0%
!! AAAATAAATAAATTATATTT+GGG + Chr2:18033040-18033059 MsG0280007610.01.T01:intron 0.0%
!! AATTAAAAATAAATAAAAAA+CGG - Chr2:18032914-18032933 None:intergenic 0.0%
!!! TTTTTATTTATTTTTAATTA+TGG + Chr2:18032915-18032934 MsG0280007610.01.T01:intron 0.0%
!!! AATTTAAGTTTTTTTTAACA+TGG + Chr2:18032969-18032988 MsG0280007610.01.T01:intron 10.0%
!!! ATATTTTTGCTAATATTTTA+TGG + Chr2:18033181-18033200 MsG0280007610.01.T01:intron 10.0%
!!! ATTTAAGTTTTTTTTAACAT+GGG + Chr2:18032970-18032989 MsG0280007610.01.T01:intron 10.0%
!!! TAAAAAAATAATCGTTTTAA+AGG - Chr2:18032260-18032279 None:intergenic 10.0%
!!! TATTTTTATGATAATCAAAA+CGG - Chr2:18033026-18033045 None:intergenic 10.0%
!!! TTTTGATTTTTTTTTATACA+GGG + Chr2:18032305-18032324 MsG0280007610.01.T01:intron 10.0%
!!! TTTTTGATTTTTTTTTATAC+AGG + Chr2:18032304-18032323 MsG0280007610.01.T01:intron 10.0%
!! ACTTTGAATGAAAATATTAA+TGG + Chr2:18032860-18032879 MsG0280007610.01.T01:intron 15.0%
!! ATAAACTAATAGTCTATAAA+AGG + Chr2:18033072-18033091 MsG0280007610.01.T01:intron 15.0%
!! CTTTGAATGAAAATATTAAT+GGG + Chr2:18032861-18032880 MsG0280007610.01.T01:intron 15.0%
!! TTTGAATGAAAATATTAATG+GGG + Chr2:18032862-18032881 MsG0280007610.01.T01:intron 15.0%
!!! ATTTATTTTTAATTATGGAG+TGG + Chr2:18032920-18032939 MsG0280007610.01.T01:intron 15.0%
!!! GTACTATATTTTTATCTTTA+AGG + Chr2:18031992-18032011 MsG0280007610.01.T01:intron 15.0%
!!! TTTAAGTTTTTTTTAACATG+GGG + Chr2:18032971-18032990 MsG0280007610.01.T01:intron 15.0%
!!! TTTATTTTTAATTATGGAGT+GGG + Chr2:18032921-18032940 MsG0280007610.01.T01:intron 15.0%
!! ATTGTGTTGAAAAAGAAAAA+AGG + Chr2:18032760-18032779 MsG0280007610.01.T01:intron 20.0%
!! TAAATTGAGTAACTGATAAA+GGG + Chr2:18032821-18032840 MsG0280007610.01.T01:intron 20.0%
!! TAATTACACATAAATAGTAC+AGG - Chr2:18033249-18033268 None:intergenic 20.0%
!!! TTATTTTTAATTATGGAGTG+GGG + Chr2:18032922-18032941 MsG0280007610.01.T01:intron 20.0%
! AAAAAATTACATGATGAGCT+AGG - Chr2:18032675-18032694 None:intergenic 25.0%
! AATGAAAGAAGAGAATAAGA+AGG - Chr2:18031812-18031831 None:intergenic 25.0%
! AGAGATAATTAAACAAGTGA+AGG - Chr2:18032700-18032719 None:intergenic 25.0%
! ATGGGGAAAAAACTTAAATA+GGG + Chr2:18032988-18033007 MsG0280007610.01.T01:intron 25.0%
! CAAACATTGGATTGATAAAA+TGG - Chr2:18032456-18032475 None:intergenic 25.0%
! CTAAATTGAGTAACTGATAA+AGG + Chr2:18032820-18032839 MsG0280007610.01.T01:intron 25.0%
! TGAATTATACAATGTTCAGA+TGG + Chr2:18032384-18032403 MsG0280007610.01.T01:intron 25.0%
!! ATTACTCTATTCTTTTGATG+AGG - Chr2:18032571-18032590 None:intergenic 25.0%
!!! ACAAAAGATGCTTTTTGATA+AGG - Chr2:18031912-18031931 None:intergenic 25.0%
!!! TATTTTTAATTATGGAGTGG+GGG + Chr2:18032923-18032942 MsG0280007610.01.T01:intron 25.0%
!!! TCAAAAAGCATCTTTTGTTA+TGG + Chr2:18031914-18031933 MsG0280007610.01.T01:exon 25.0%
!!! TGGGGTGTTTATATTTTAAA+AGG + Chr2:18032880-18032899 MsG0280007610.01.T01:intron 25.0%
AACAAAAAATGAGGCAATCA+AGG + Chr2:18033324-18033343 MsG0280007610.01.T01:CDS 30.0%
AATAGATGTGGCTAAGTATT+AGG - Chr2:18031769-18031788 None:intergenic 30.0%
AATGATTAAGTGTCTGTGTT+TGG - Chr2:18032192-18032211 None:intergenic 30.0%
AGATGAAGAGATCAAAGAAT+AGG + Chr2:18033394-18033413 MsG0280007610.01.T01:CDS 30.0%
AGTTAGAGGAACAAAAAATG+AGG + Chr2:18033315-18033334 MsG0280007610.01.T01:CDS 30.0%
ATAGATGTGGCTAAGTATTA+GGG - Chr2:18031768-18031787 None:intergenic 30.0%
ATAGATTCATGCATTGTTGT+TGG - Chr2:18032429-18032448 None:intergenic 30.0%
CAGTTAAAACTACACTTTGT+AGG + Chr2:18032117-18032136 MsG0280007610.01.T01:intron 30.0%
CATGGGGAAAAAACTTAAAT+AGG + Chr2:18032987-18033006 MsG0280007610.01.T01:intron 30.0%
TAATCATTAGAATCCATCGA+CGG + Chr2:18032204-18032223 MsG0280007610.01.T01:intron 30.0%
TTATATTGTGTGAGAGAGTT+TGG - Chr2:18031869-18031888 None:intergenic 30.0%
! CAAGAGATTTTCAACTGAAT+TGG + Chr2:18032535-18032554 MsG0280007610.01.T01:intron 30.0%
!! AGATGCTTTTTGATAAGGTA+AGG - Chr2:18031907-18031926 None:intergenic 30.0%
ACAGAATGAGAAAGTGAGAA+TGG + Chr2:18033292-18033311 MsG0280007610.01.T01:intron 35.0%
AGTACCTGTTTGTGAGTAAA+TGG - Chr2:18031977-18031996 None:intergenic 35.0%
TCTGTTTGGATCACAAACAT+TGG - Chr2:18032469-18032488 None:intergenic 35.0%
TTTGTGAGTAAATGGCTAGA+AGG - Chr2:18031969-18031988 None:intergenic 35.0%
! ACTCTATTCTTTTGATGAGG+TGG - Chr2:18032568-18032587 None:intergenic 35.0%
! AGTTCAACATTTGTTGCTGT+TGG - Chr2:18032363-18032382 None:intergenic 35.0%
! GTATGGTTTGTGAGATTTAG+AGG - Chr2:18031837-18031856 None:intergenic 35.0%
!! CTTGAACGTTTTCTTTGAAG+AGG - Chr2:18032519-18032538 None:intergenic 35.0%
!!! GTGTAGTTTTAACTGAACCA+CGG - Chr2:18032112-18032131 None:intergenic 35.0%
AATGAGGCAATCAAGGATGT+TGG + Chr2:18033331-18033350 MsG0280007610.01.T01:CDS 40.0%
CTAGCCATTTACTCACAAAC+AGG + Chr2:18031970-18031989 MsG0280007610.01.T01:CDS 40.0%
GAAAGTGAGAATGGAGTTAG+AGG + Chr2:18033301-18033320 MsG0280007610.01.T01:CDS 40.0%
TCGTTAGAAATATCCGTCGA+TGG - Chr2:18032220-18032239 None:intergenic 40.0%
TGAGTGCATGTTTGTATCGT+CGG + Chr2:18032017-18032036 MsG0280007610.01.T01:intron 40.0%
TGCGATCAATATCAGATTGC+TGG - Chr2:18032651-18032670 None:intergenic 40.0%
TTGTGTGAGAGAGTTTGGTT+TGG - Chr2:18031864-18031883 None:intergenic 40.0%
! AAGAGAGCATGCAATAGATG+TGG - Chr2:18031781-18031800 None:intergenic 40.0%
!! GAGTTTGGTTTGGTTTGGTA+TGG - Chr2:18031854-18031873 None:intergenic 40.0%
!! TGAGAGAGTTTGGTTTGGTT+TGG - Chr2:18031859-18031878 None:intergenic 40.0%
!!! TAGTTTTAACTGAACCACGG+TGG - Chr2:18032109-18032128 None:intergenic 40.0%
AGACCACTATCAGCTCTGTT+TGG - Chr2:18032483-18032502 None:intergenic 45.0%
ATTCTGACAACCCACCAACA+CGG - Chr2:18032071-18032090 None:intergenic 45.0%
GATCCAAACAGAGCTGATAG+TGG + Chr2:18032477-18032496 MsG0280007610.01.T01:intron 45.0%
!! AAATAAATAAATTATATTTG+GGG + Chr2:18033041-18033060 MsG0280007610.01.T01:intron 5.0%
AGAATCACGATGAACCACCG+TGG + Chr2:18032092-18032111 MsG0280007610.01.T01:intron 50.0%
TCATGATGAACCCACCGTGT+TGG + Chr2:18032054-18032073 MsG0280007610.01.T01:intron 50.0%
TGACAACCCACCAACACGGT+GGG - Chr2:18032067-18032086 None:intergenic 55.0%
TGATGAACCCACCGTGTTGG+TGG + Chr2:18032057-18032076 MsG0280007610.01.T01:intron 55.0%
! GATGAACCCACCGTGTTGGT+GGG + Chr2:18032058-18032077 MsG0280007610.01.T01:intron 55.0%
CTGACAACCCACCAACACGG+TGG - Chr2:18032068-18032087 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 18031739 18033415 18031739 ID=MsG0280007610.01;Name=MsG0280007610.01
Chr2 mRNA 18031739 18033415 18031739 ID=MsG0280007610.01.T01;Parent=MsG0280007610.01;Name=MsG0280007610.01.T01;_AED=0.28;_eAED=0.28;_QI=194|0.5|0.66|1|0|0|3|0|75
Chr2 exon 18031739 18031991 18031739 ID=MsG0280007610.01.T01:exon:10880;Parent=MsG0280007610.01.T01
Chr2 exon 18032326 18032374 18032326 ID=MsG0280007610.01.T01:exon:10881;Parent=MsG0280007610.01.T01
Chr2 exon 18033296 18033415 18033296 ID=MsG0280007610.01.T01:exon:10882;Parent=MsG0280007610.01.T01
Chr2 five_prime_UTR 18031739 18031932 18031739 ID=MsG0280007610.01.T01:five_prime_utr;Parent=MsG0280007610.01.T01
Chr2 CDS 18031933 18031991 18031933 ID=MsG0280007610.01.T01:cds;Parent=MsG0280007610.01.T01
Chr2 CDS 18032326 18032374 18032326 ID=MsG0280007610.01.T01:cds;Parent=MsG0280007610.01.T01
Chr2 CDS 18033296 18033415 18033296 ID=MsG0280007610.01.T01:cds;Parent=MsG0280007610.01.T01
Gene Sequence

>MsG0280007610.01.T01

ATGGCTGTTGATGCTAGTTACATGAATCTATTGCCTTCTAGCCATTTACTCACAAACAGGGAAATAATCAAATCTAATCAACATCATTATCAACCAACAGCAACAAATAATGAGAAAGTGAGAATGGAGTTAGAGGAACAAAAAATGAGGCAATCAAGGATGTTGGCGCATGATTCAAGAGACAATAGCAAAGAACTTAAAGAAAAAGATGAAGAGATCAAAGAATAG

Protein sequence

>MsG0280007610.01.T01

MAVDASYMNLLPSSHLLTNREIIKSNQHHYQPTATNNEKVRMELEEQKMRQSRMLAHDSRDNSKELKEKDEEIKE*