AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039822.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039822.01.T01 MTR_7g079970 97.987 149 3 0 1 149 54 202 1.57e-108 307
MsG0780039822.01.T01 MTR_5g085300 64.655 116 41 0 1 116 95 210 3.63e-55 172
MsG0780039822.01.T01 MTR_4g132810 64.348 115 41 0 2 116 73 187 3.99e-52 164
MsG0780039822.01.T01 MTR_5g085300 68.627 102 32 0 1 102 95 196 6.85e-51 161
MsG0780039822.01.T01 MTR_5g085300 64.179 67 24 0 1 67 95 161 2.17e-25 95.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039822.01.T01 AT3G02800 67.808 146 46 1 1 145 52 197 2.56e-74 221
MsG0780039822.01.T01 AT5G16480 65.132 152 48 2 1 147 51 202 3.86e-71 213
MsG0780039822.01.T01 AT1G05000 64.035 114 41 0 1 114 90 203 1.43e-50 161
MsG0780039822.01.T01 AT4G03960 58.621 116 48 0 1 116 66 181 8.94e-46 148
MsG0780039822.01.T01 AT1G05000 51.370 146 39 2 1 114 90 235 9.44e-45 147
MsG0780039822.01.T01 AT2G32960 46.405 153 48 1 2 120 99 251 1.72e-44 147
MsG0780039822.01.T01 AT5G16480 77.419 31 7 0 1 31 51 81 2.84e-11 57.4
MsG0780039822.01.T01 AT1G05000 66.667 42 12 1 1 42 90 129 9.80e-11 57.4

Find 41 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTTGCAATGAACCAAAAT+AGG 0.169489 7:-69452564 None:intergenic
TGTGAGAAATCACCCTATTT+TGG 0.209389 7:+69452551 MsG0780039822.01.T01:CDS
ACCCTATCCCGAAGAGAATT+TGG 0.260001 7:+69451601 MsG0780039822.01.T01:CDS
AGAGAATTTGGAGTTCTTAA+AGG 0.262009 7:+69451613 MsG0780039822.01.T01:CDS
TGCTCTGAGGGATTCTATTA+TGG 0.312759 7:+69452382 MsG0780039822.01.T01:CDS
CATAGGACAGGTTGCCTTGT+TGG 0.318667 7:+69452705 MsG0780039822.01.T01:CDS
AAGAACTCCAAATTCTCTTC+GGG 0.335320 7:-69451608 None:intergenic
TTCTCTTCGGGATAGGGTTC+AGG 0.342295 7:-69451596 None:intergenic
GCTTCAGAAAGTTGCAGAAT+TGG 0.346755 7:+69452730 MsG0780039822.01.T01:CDS
GAGGAGTATCAGCGATTTGC+TGG 0.359295 7:+69452771 MsG0780039822.01.T01:CDS
GTTTGCAATGAACCAAAATA+GGG 0.378578 7:-69452563 None:intergenic
TAAGAACTCCAAATTCTCTT+CGG 0.390807 7:-69451609 None:intergenic
TCCAAATTCTCTTCGGGATA+GGG 0.404516 7:-69451602 None:intergenic
GTGTTTGTCTTCCGCGTTTG+AGG 0.428171 7:+69452752 MsG0780039822.01.T01:CDS
GATTTGCTGGTGTTAAATCC+AGG 0.432715 7:+69452784 MsG0780039822.01.T01:CDS
GGTTTGACCTCGTAAGTCTT+AGG 0.449851 7:+69452832 MsG0780039822.01.T01:CDS
GACTCTGTAAATTCTCATCT+TGG 0.454525 7:-69452917 None:intergenic
ATCTTTATGCAGCATAGGAC+AGG 0.458017 7:+69452693 MsG0780039822.01.T01:intron
CTCCAAATTCTCTTCGGGAT+AGG 0.463257 7:-69451603 None:intergenic
AAATGTTAAATCCGCTGCCC+TGG 0.469169 7:-69452802 None:intergenic
TCTTTGAAGCACCTTGGTAC+TGG 0.489070 7:-69452878 None:intergenic
GCAGCTAAAATGATGTCAGC+CGG 0.526267 7:-69452941 None:intergenic
CGGATTTAACATTTATAGAG+AGG 0.527211 7:+69452811 MsG0780039822.01.T01:CDS
GGTTCATTGCAAACAAGGAA+AGG 0.528428 7:+69452572 MsG0780039822.01.T01:CDS
CAGCTAAAATGATGTCAGCC+GGG 0.536546 7:-69452940 None:intergenic
AGAATCCCTCAGAGCAGGTA+AGG 0.540312 7:-69452375 None:intergenic
AGTTTCCTTACCTGCTCTGA+GGG 0.541367 7:+69452370 MsG0780039822.01.T01:CDS
ATAATAGAATCCCTCAGAGC+AGG 0.553968 7:-69452380 None:intergenic
ATTTGGAATCGAGGGCAAAA+CGG 0.561591 7:+69451658 MsG0780039822.01.T01:CDS
ATGAGAATTTACAGAGTCCC+CGG 0.562012 7:+69452922 MsG0780039822.01.T01:CDS
TGCGCTTCTTTGAAGCACCT+TGG 0.567421 7:-69452884 None:intergenic
TCTGAGGGATTCTATTATGG+AGG 0.578245 7:+69452385 MsG0780039822.01.T01:CDS
TGGTGTTAAATCCAGGGCAG+CGG 0.584305 7:+69452791 MsG0780039822.01.T01:CDS
ATTTGCTGGTGTTAAATCCA+GGG 0.594403 7:+69452785 MsG0780039822.01.T01:CDS
ACTTTCTGAAGCAGCCAACA+AGG 0.599002 7:-69452719 None:intergenic
AAGGTGCTTCAAAGAAGCGC+AGG 0.614369 7:+69452886 MsG0780039822.01.T01:CDS
AAGTTTCCTTACCTGCTCTG+AGG 0.620871 7:+69452369 MsG0780039822.01.T01:CDS
AGCTAAAATGATGTCAGCCG+GGG 0.678842 7:-69452939 None:intergenic
AGCATCATCTACCAGTACCA+AGG 0.693429 7:+69452867 MsG0780039822.01.T01:CDS
GACACTGCCTAAGACTTACG+AGG 0.727290 7:-69452839 None:intergenic
TCGCTGATACTCCTCAAACG+CGG 0.736711 7:-69452763 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATAAAAACATAAAATTAGA+AGG - Chr7:69452639-69452658 None:intergenic 10.0%
!! CATTAGAATTATAGAATTAT+AGG - Chr7:69452663-69452682 None:intergenic 15.0%
!!! CACTTTTTTACTTTTAATTT+TGG + Chr7:69451811-69451830 MsG0780039822.01.T01:intron 15.0%
!! TTTGAAGGAAATTAGATTAT+GGG + Chr7:69451967-69451986 MsG0780039822.01.T01:intron 20.0%
!!! AATATTCGTCTTTTTCAATT+TGG + Chr7:69451641-69451660 MsG0780039822.01.T01:CDS 20.0%
!!! GTTTTGTGATTAATTGAAAT+AGG + Chr7:69451746-69451765 MsG0780039822.01.T01:intron 20.0%
!!! TAAATTTTCCTTAAAAAGTC+CGG - Chr7:69451896-69451915 None:intergenic 20.0%
!!! TGTTTGTAACTTTATTCTTT+TGG + Chr7:69451848-69451867 MsG0780039822.01.T01:intron 20.0%
! ACTAGTTAAGAAAACTAATC+TGG + Chr7:69452052-69452071 MsG0780039822.01.T01:intron 25.0%
! ATGTATTATTTGCAATTTGC+AGG + Chr7:69452346-69452365 MsG0780039822.01.T01:intron 25.0%
! GGTTTATCATAAATATGAGT+TGG + Chr7:69452219-69452238 MsG0780039822.01.T01:intron 25.0%
! GTCATTAACTCAAATAATGA+AGG - Chr7:69452323-69452342 None:intergenic 25.0%
! GTTTGAAGGAAATTAGATTA+TGG + Chr7:69451966-69451985 MsG0780039822.01.T01:intron 25.0%
! TTAGATTATGGGTTTATGTT+TGG + Chr7:69451978-69451997 MsG0780039822.01.T01:intron 25.0%
! TTGCAAATTTATCATCTCAT+TGG + Chr7:69452606-69452625 MsG0780039822.01.T01:intron 25.0%
!! AAACTAATCTGGAAATTTTC+AGG + Chr7:69452063-69452082 MsG0780039822.01.T01:intron 25.0%
!! ATTATGAAGTTTAAAGCATG+TGG + Chr7:69452269-69452288 MsG0780039822.01.T01:intron 25.0%
!! TTTTCTTAACTAGTGTTCAT+TGG + Chr7:69452156-69452175 MsG0780039822.01.T01:intron 25.0%
ATTATGGGTTTATGTTTGGT+TGG + Chr7:69451982-69452001 MsG0780039822.01.T01:intron 30.0%
CGGATTTAACATTTATAGAG+AGG + Chr7:69452811-69452830 MsG0780039822.01.T01:CDS 30.0%
GTTTGCAATGAACCAAAATA+GGG - Chr7:69452566-69452585 None:intergenic 30.0%
TAAGAACTCCAAATTCTCTT+CGG - Chr7:69451612-69451631 None:intergenic 30.0%
TAGTGTGATTGTTTGTTTGA+AGG + Chr7:69451952-69451971 MsG0780039822.01.T01:intron 30.0%
TGTTTGCAATGAACCAAAAT+AGG - Chr7:69452567-69452586 None:intergenic 30.0%
TTTAGTTATTGTCGTGTTTG+TGG + Chr7:69452243-69452262 MsG0780039822.01.T01:intron 30.0%
! AGAGAATTTGGAGTTCTTAA+AGG + Chr7:69451613-69451632 MsG0780039822.01.T01:CDS 30.0%
! TATGTTTGGTTGGCTATTTA+GGG + Chr7:69451992-69452011 MsG0780039822.01.T01:intron 30.0%
! TCTGAAAGCACACAAAATTA+AGG - Chr7:69452531-69452550 None:intergenic 30.0%
! TTATGTTTGGTTGGCTATTT+AGG + Chr7:69451991-69452010 MsG0780039822.01.T01:intron 30.0%
! TTTTCATCTTTATGCAGCAT+AGG + Chr7:69452688-69452707 MsG0780039822.01.T01:intron 30.0%
!!! ATTTTGGTTCATTGCAAACA+AGG + Chr7:69452567-69452586 MsG0780039822.01.T01:CDS 30.0%
!!! CTTTTTCAATTTGGAATCGA+GGG + Chr7:69451650-69451669 MsG0780039822.01.T01:CDS 30.0%
!!! TCTTTTTCAATTTGGAATCG+AGG + Chr7:69451649-69451668 MsG0780039822.01.T01:CDS 30.0%
AAATTTCCCTTTCCTTTACC+GGG - Chr7:69452197-69452216 None:intergenic 35.0%
AAGAACTCCAAATTCTCTTC+GGG - Chr7:69451611-69451630 None:intergenic 35.0%
CAAATTTCCCTTTCCTTTAC+CGG - Chr7:69452198-69452217 None:intergenic 35.0%
GACTCTGTAAATTCTCATCT+TGG - Chr7:69452920-69452939 None:intergenic 35.0%
GGTAAAGGAAAGGGAAATTT+GGG + Chr7:69452197-69452216 MsG0780039822.01.T01:intron 35.0%
GTAAAGGAAAGGGAAATTTG+GGG + Chr7:69452198-69452217 MsG0780039822.01.T01:intron 35.0%
! ATTTGCTGGTGTTAAATCCA+GGG + Chr7:69452785-69452804 MsG0780039822.01.T01:CDS 35.0%
! TGTGAGAAATCACCCTATTT+TGG + Chr7:69452551-69452570 MsG0780039822.01.T01:CDS 35.0%
!! ATCTGGAAATTTTCAGGAAG+TGG + Chr7:69452069-69452088 MsG0780039822.01.T01:intron 35.0%
!!! GAGGCTTTGAAAGTTTTAGT+TGG + Chr7:69452404-69452423 MsG0780039822.01.T01:CDS 35.0%
AAGTTAACATGACCCGGTAA+AGG + Chr7:69452182-69452201 MsG0780039822.01.T01:intron 40.0%
AGGCAGACAAAACCAAAACT+CGG - Chr7:69452303-69452322 None:intergenic 40.0%
AGTTATTGTCGTGTTTGTGG+AGG + Chr7:69452246-69452265 MsG0780039822.01.T01:intron 40.0%
ATAATAGAATCCCTCAGAGC+AGG - Chr7:69452383-69452402 None:intergenic 40.0%
ATCTTTATGCAGCATAGGAC+AGG + Chr7:69452693-69452712 MsG0780039822.01.T01:intron 40.0%
ATGAGAATTTACAGAGTCCC+CGG + Chr7:69452922-69452941 MsG0780039822.01.T01:CDS 40.0%
CGGTAAAGGAAAGGGAAATT+TGG + Chr7:69452196-69452215 MsG0780039822.01.T01:intron 40.0%
GCTTCAGAAAGTTGCAGAAT+TGG + Chr7:69452730-69452749 MsG0780039822.01.T01:CDS 40.0%
GGTTCATTGCAAACAAGGAA+AGG + Chr7:69452572-69452591 MsG0780039822.01.T01:CDS 40.0%
TCCAAATTCTCTTCGGGATA+GGG - Chr7:69451605-69451624 None:intergenic 40.0%
TCTGAGGGATTCTATTATGG+AGG + Chr7:69452385-69452404 MsG0780039822.01.T01:CDS 40.0%
TGGTACAAGTTAACATGACC+CGG + Chr7:69452176-69452195 MsG0780039822.01.T01:intron 40.0%
TTTCAGGAAGTGGTGAAAAG+TGG + Chr7:69452079-69452098 MsG0780039822.01.T01:intron 40.0%
! AATGCTAAAAAGTGCACCTG+AGG + Chr7:69452028-69452047 MsG0780039822.01.T01:intron 40.0%
! ATTTGGAATCGAGGGCAAAA+CGG + Chr7:69451658-69451677 MsG0780039822.01.T01:CDS 40.0%
! CTTGTCTTTTATCTTCGTGC+CGG + Chr7:69451874-69451893 MsG0780039822.01.T01:intron 40.0%
! GGTTGGCTATTTAGGGTTTA+GGG + Chr7:69451999-69452018 MsG0780039822.01.T01:intron 40.0%
! GTTTTCTTAACTAGTGCCTC+AGG - Chr7:69452047-69452066 None:intergenic 40.0%
! TGGTTGGCTATTTAGGGTTT+AGG + Chr7:69451998-69452017 MsG0780039822.01.T01:intron 40.0%
!! GATTTGCTGGTGTTAAATCC+AGG + Chr7:69452784-69452803 MsG0780039822.01.T01:CDS 40.0%
!! TGCTCTGAGGGATTCTATTA+TGG + Chr7:69452382-69452401 MsG0780039822.01.T01:CDS 40.0%
AAATGTTAAATCCGCTGCCC+TGG - Chr7:69452805-69452824 None:intergenic 45.0%
AACATGACCCGGTAAAGGAA+AGG + Chr7:69452187-69452206 MsG0780039822.01.T01:intron 45.0%
AAGTTTCCTTACCTGCTCTG+AGG + Chr7:69452369-69452388 MsG0780039822.01.T01:CDS 45.0%
ACATGACCCGGTAAAGGAAA+GGG + Chr7:69452188-69452207 MsG0780039822.01.T01:intron 45.0%
ACCCTATCCCGAAGAGAATT+TGG + Chr7:69451601-69451620 MsG0780039822.01.T01:CDS 45.0%
AGCATCATCTACCAGTACCA+AGG + Chr7:69452867-69452886 MsG0780039822.01.T01:CDS 45.0%
AGTTTCCTTACCTGCTCTGA+GGG + Chr7:69452370-69452389 MsG0780039822.01.T01:CDS 45.0%
CTCCAAATTCTCTTCGGGAT+AGG - Chr7:69451606-69451625 None:intergenic 45.0%
GGTTTGACCTCGTAAGTCTT+AGG + Chr7:69452832-69452851 MsG0780039822.01.T01:CDS 45.0%
! GGCTATTTAGGGTTTAGGGA+TGG + Chr7:69452003-69452022 MsG0780039822.01.T01:intron 45.0%
! GTGGATTCTTGACCGAGTTT+TGG + Chr7:69452288-69452307 MsG0780039822.01.T01:intron 45.0%
! TCTTCGTGCCGGACTTTTTA+AGG + Chr7:69451885-69451904 MsG0780039822.01.T01:intron 45.0%
!! ACTTTCTGAAGCAGCCAACA+AGG - Chr7:69452722-69452741 None:intergenic 45.0%
!! TCTTTGAAGCACCTTGGTAC+TGG - Chr7:69452881-69452900 None:intergenic 45.0%
!!! TTTTATATATTTTTTTAGTT+TGG + Chr7:69452476-69452495 MsG0780039822.01.T01:intron 5.0%
AGAATCCCTCAGAGCAGGTA+AGG - Chr7:69452378-69452397 None:intergenic 50.0%
CATAGGACAGGTTGCCTTGT+TGG + Chr7:69452705-69452724 MsG0780039822.01.T01:CDS 50.0%
GACACTGCCTAAGACTTACG+AGG - Chr7:69452842-69452861 None:intergenic 50.0%
GTGTTTGTCTTCCGCGTTTG+AGG + Chr7:69452752-69452771 MsG0780039822.01.T01:CDS 50.0%
TCGCTGATACTCCTCAAACG+CGG - Chr7:69452766-69452785 None:intergenic 50.0%
TTCTCTTCGGGATAGGGTTC+AGG - Chr7:69451599-69451618 None:intergenic 50.0%
! AAGGTGCTTCAAAGAAGCGC+AGG + Chr7:69452886-69452905 MsG0780039822.01.T01:CDS 50.0%
! TGGTGTTAAATCCAGGGCAG+CGG + Chr7:69452791-69452810 MsG0780039822.01.T01:CDS 50.0%
!! GAGGAGTATCAGCGATTTGC+TGG + Chr7:69452771-69452790 MsG0780039822.01.T01:CDS 50.0%
!! TGCGCTTCTTTGAAGCACCT+TGG - Chr7:69452887-69452906 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr7 gene 69451587 69452959 69451587 ID=MsG0780039822.01;Name=MsG0780039822.01
Chr7 mRNA 69451587 69452959 69451587 ID=MsG0780039822.01.T01;Parent=MsG0780039822.01;Name=MsG0780039822.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|0.75|4|0|149
Chr7 exon 69451587 69451679 69451587 ID=MsG0780039822.01.T01:exon:12505;Parent=MsG0780039822.01.T01
Chr7 exon 69452368 69452425 69452368 ID=MsG0780039822.01.T01:exon:12506;Parent=MsG0780039822.01.T01
Chr7 exon 69452550 69452593 69452550 ID=MsG0780039822.01.T01:exon:12507;Parent=MsG0780039822.01.T01
Chr7 exon 69452705 69452959 69452705 ID=MsG0780039822.01.T01:exon:12508;Parent=MsG0780039822.01.T01
Chr7 CDS 69451587 69451679 69451587 ID=MsG0780039822.01.T01:cds;Parent=MsG0780039822.01.T01
Chr7 CDS 69452368 69452425 69452368 ID=MsG0780039822.01.T01:cds;Parent=MsG0780039822.01.T01
Chr7 CDS 69452550 69452593 69452550 ID=MsG0780039822.01.T01:cds;Parent=MsG0780039822.01.T01
Chr7 CDS 69452705 69452959 69452705 ID=MsG0780039822.01.T01:cds;Parent=MsG0780039822.01.T01
Gene Sequence

>MsG0780039822.01.T01

TACTTGTGTCCTGAACCCTATCCCGAAGAGAATTTGGAGTTCTTAAAGGAGCAGAATATTCGTCTTTTTCAATTTGGAATCGAGGGCAAAACGGAAGTTTCCTTACCTGCTCTGAGGGATTCTATTATGGAGGCTTTGAAAGTTTTAGTTGATGTGAGAAATCACCCTATTTTGGTTCATTGCAAACAAGGAAAGCATAGGACAGGTTGCCTTGTTGGCTGCTTCAGAAAGTTGCAGAATTGGTGTTTGTCTTCCGCGTTTGAGGAGTATCAGCGATTTGCTGGTGTTAAATCCAGGGCAGCGGATTTAACATTTATAGAGAGGTTTGACCTCGTAAGTCTTAGGCAGTGTCTTTACAGCATCATCTACCAGTACCAAGGTGCTTCAAAGAAGCGCAGGTTGATGTACCAAGATGAGAATTTACAGAGTCCCCGGCTGACATCATTTTAG
Protein sequence

>MsG0780039822.01.T01

YLCPEPYPEENLEFLKEQNIRLFQFGIEGKTEVSLPALRDSIMEALKVLVDVRNHPILVHCKQGKHRTGCLVGCFRKLQNWCLSSAFEEYQRFAGVKSRAADLTFIERFDLVSLRQCLYSIIYQYQGASKKRRLMYQDENLQSPRLTSF*