AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006401.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006401.01.T01 MTR_2g007640 98.611 72 1 0 4 75 177 248 1.10e-45 146
MsG0280006401.01.T01 MTR_2g007300 69.444 72 22 0 4 75 172 243 3.58e-34 116
MsG0280006401.01.T01 MTR_2g007640 100.000 49 0 0 4 52 177 225 4.41e-28 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006401.01.T01 AT3G26070 62.857 70 26 0 6 75 173 242 6.45e-28 100
MsG0280006401.01.T01 AT3G26080 60.563 71 27 1 6 75 164 234 5.59e-24 90.5
MsG0280006401.01.T01 AT3G26080 43.000 100 27 2 6 75 164 263 7.41e-18 74.7

Find 27 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTATTTGGATGAAGATTTA+AGG 0.167214 2:+1372286 MsG0280006401.01.T01:CDS
TCAATTGGAAATTACGTATT+TGG 0.195162 2:+1372272 MsG0280006401.01.T01:CDS
CTTCTTCAAAATTGCTAGTT+TGG 0.233095 2:+1371822 MsG0280006401.01.T01:CDS
GAATTTAAATTAAATAATTT+AGG 0.258097 2:-1372801 None:intergenic
CAACTTGTTTATCTTGAAAA+TGG 0.275931 2:+1372539 MsG0280006401.01.T01:CDS
TTGAAGCACTCGCATCAAAT+AGG 0.280438 2:-1372582 None:intergenic
AGGTTTGAATTTGTTTATAA+AGG 0.307601 2:-1372644 None:intergenic
TGAGTTAAGTGGCACTAAAT+TGG 0.333704 2:-1371776 None:intergenic
TCAAGATTTGCTGCTGGTTG+TGG 0.350138 2:+1372601 MsG0280006401.01.T01:three_prime_UTR
CAGATACCTATAAAATCATC+TGG 0.373103 2:+1372237 MsG0280006401.01.T01:intron
TTTAATTAGTTAAATGCTTA+GGG 0.386991 2:+1372714 MsG0280006401.01.T01:three_prime_UTR
TGGGAGTGGTCGTGGTCAAT+TGG 0.414725 2:+1372257 MsG0280006401.01.T01:CDS
TGAAGCACTCGCATCAAATA+GGG 0.432639 2:-1372581 None:intergenic
TGGGTTATGGATACTTACTA+TGG 0.454575 2:-1372760 None:intergenic
GCTACCCTTCTTGAGTTAAG+TGG 0.467062 2:-1371787 None:intergenic
TAGTGCCACTTAACTCAAGA+AGG 0.474795 2:+1371782 MsG0280006401.01.T01:CDS
AGAATATCAAGAGGTAATAG+AGG 0.493006 2:+1372516 MsG0280006401.01.T01:intron
GATTTGCTGCTGGTTGTGGA+TGG 0.502175 2:+1372605 MsG0280006401.01.T01:three_prime_UTR
GCATCAAATAGGGACTCTAT+AGG 0.504016 2:-1372571 None:intergenic
AGTGCTTCAAGATTTGCTGC+TGG 0.520856 2:+1372595 MsG0280006401.01.T01:three_prime_UTR
AAATCATCTGGGAGTGGTCG+TGG 0.522383 2:+1372249 MsG0280006401.01.T01:CDS
CAAATAGGGACTCTATAGGA+TGG 0.578281 2:-1372567 None:intergenic
CCTATAAAATCATCTGGGAG+TGG 0.588827 2:+1372243 MsG0280006401.01.T01:CDS
AAGTGGCACTAAATTGGCAG+TGG 0.602208 2:-1371770 None:intergenic
AGTGCCACTTAACTCAAGAA+GGG 0.619471 2:+1371783 MsG0280006401.01.T01:CDS
AGATACCTATAAAATCATCT+GGG 0.643096 2:+1372238 MsG0280006401.01.T01:intron
GAACCTGACAGAATATCAAG+AGG 0.650729 2:+1372507 MsG0280006401.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAATTAGTTAAATGCTTA+GGG + Chr2:1372714-1372733 MsG0280006401.01.T01:three_prime_UTR 15.0%
!!! TTTTAATTAGTTAAATGCTT+AGG + Chr2:1372713-1372732 MsG0280006401.01.T01:three_prime_UTR 15.0%
!! GAAAATTGAAAAGTTAATAC+TGG - Chr2:1371857-1371876 None:intergenic 20.0%
!! GTAAAAAAAATAAAACAGAG+AGG - Chr2:1372667-1372686 None:intergenic 20.0%
!!! AGGTTTGAATTTGTTTATAA+AGG - Chr2:1372647-1372666 None:intergenic 20.0%
! ACAAAAAAATTGTTGGGTTA+TGG - Chr2:1372776-1372795 None:intergenic 25.0%
! AGATACCTATAAAATCATCT+GGG + Chr2:1372238-1372257 MsG0280006401.01.T01:intron 25.0%
! GCAACAACAAAAAAATTGTT+GGG - Chr2:1372782-1372801 None:intergenic 25.0%
! GTGCTATAAAATATTAAGTC+TGG + Chr2:1372079-1372098 MsG0280006401.01.T01:intron 25.0%
! TCAATTGGAAATTACGTATT+TGG + Chr2:1372272-1372291 MsG0280006401.01.T01:CDS 25.0%
!! CAACTTGTTTATCTTGAAAA+TGG + Chr2:1372539-1372558 MsG0280006401.01.T01:CDS 25.0%
!! TCAGGAAAACATATTTTTCA+GGG - Chr2:1372193-1372212 None:intergenic 25.0%
!!! AAACATATTTTTCAGGGATT+TGG - Chr2:1372187-1372206 None:intergenic 25.0%
ACTTCAAAATCAGCAGTATA+TGG + Chr2:1372388-1372407 MsG0280006401.01.T01:intron 30.0%
AGAATATCAAGAGGTAATAG+AGG + Chr2:1372516-1372535 MsG0280006401.01.T01:intron 30.0%
ATATGCACATATAAGTGATC+AGG + Chr2:1372439-1372458 MsG0280006401.01.T01:intron 30.0%
ATATTCATACTCAATCAGCA+TGG - Chr2:1372474-1372493 None:intergenic 30.0%
CAGATACCTATAAAATCATC+TGG + Chr2:1372237-1372256 MsG0280006401.01.T01:intron 30.0%
CGTATTTGGATGAAGATTTA+AGG + Chr2:1372286-1372305 MsG0280006401.01.T01:CDS 30.0%
CTTCTTCAAAATTGCTAGTT+TGG + Chr2:1371822-1371841 MsG0280006401.01.T01:CDS 30.0%
GGCAACAACAAAAAAATTGT+TGG - Chr2:1372783-1372802 None:intergenic 30.0%
GTTAAAAGACGATGACAAAT+AGG - Chr2:1371888-1371907 None:intergenic 30.0%
TATGCACATATAAGTGATCA+GGG + Chr2:1372440-1372459 MsG0280006401.01.T01:intron 30.0%
! AAAATATTAAGTCTGGAACC+AGG + Chr2:1372086-1372105 MsG0280006401.01.T01:intron 30.0%
! GTCAGGAAAACATATTTTTC+AGG - Chr2:1372194-1372213 None:intergenic 30.0%
!! GCATTTGAGTTGTTAATTAC+TGG + Chr2:1371918-1371937 MsG0280006401.01.T01:intron 30.0%
!! TTTGTTTCTGGAATTCAACA+TGG + Chr2:1372360-1372379 MsG0280006401.01.T01:intron 30.0%
ATCACAAATCAACACATTCG+CGG + Chr2:1371987-1372006 MsG0280006401.01.T01:intron 35.0%
GCATTGTACACTTATTTGTC+AGG - Chr2:1372211-1372230 None:intergenic 35.0%
TGAGTTAAGTGGCACTAAAT+TGG - Chr2:1371779-1371798 None:intergenic 35.0%
TGGGTTATGGATACTTACTA+TGG - Chr2:1372763-1372782 None:intergenic 35.0%
TTACCTCTTGATATTCTGTC+AGG - Chr2:1372513-1372532 None:intergenic 35.0%
! GATGAAGATTTAAGGTGAGT+TGG + Chr2:1372294-1372313 MsG0280006401.01.T01:intron 35.0%
CAAATAGGGACTCTATAGGA+TGG - Chr2:1372570-1372589 None:intergenic 40.0%
CCTATAAAATCATCTGGGAG+TGG + Chr2:1372243-1372262 MsG0280006401.01.T01:CDS 40.0%
CTTGATATTCTGTCAGGTTC+AGG - Chr2:1372507-1372526 None:intergenic 40.0%
GAACCTGACAGAATATCAAG+AGG + Chr2:1372507-1372526 MsG0280006401.01.T01:intron 40.0%
GATCACAGCTCATTTGTTTC+TGG + Chr2:1372348-1372367 MsG0280006401.01.T01:intron 40.0%
GATTAAAGATCAGACAGTCC+TGG - Chr2:1372107-1372126 None:intergenic 40.0%
GCATCAAATAGGGACTCTAT+AGG - Chr2:1372574-1372593 None:intergenic 40.0%
! ATGGTTTGTGTCATGGAGAA+TGG + Chr2:1371948-1371967 MsG0280006401.01.T01:intron 40.0%
! CCACTCCCAGATGATTTTAT+AGG - Chr2:1372246-1372265 None:intergenic 40.0%
! GTTAATTACTGGCTACGTCA+TGG + Chr2:1371929-1371948 MsG0280006401.01.T01:intron 40.0%
! TGAAGCACTCGCATCAAATA+GGG - Chr2:1372584-1372603 None:intergenic 40.0%
! TGTGTCATGGAGAATGGATT+TGG + Chr2:1371954-1371973 MsG0280006401.01.T01:intron 40.0%
! TTGAAGCACTCGCATCAAAT+AGG - Chr2:1372585-1372604 None:intergenic 40.0%
!! AGTGCCACTTAACTCAAGAA+GGG + Chr2:1371783-1371802 MsG0280006401.01.T01:CDS 40.0%
!! TAGTGCCACTTAACTCAAGA+AGG + Chr2:1371782-1371801 MsG0280006401.01.T01:CDS 40.0%
AAGTGGCACTAAATTGGCAG+TGG - Chr2:1371773-1371792 None:intergenic 45.0%
ATCTCACACATTCACGCAGT+CGG - Chr2:1372147-1372166 None:intergenic 45.0%
CATTCGCGGAGTTAACACAA+TGG + Chr2:1372001-1372020 MsG0280006401.01.T01:intron 45.0%
GAGCTGTGATCATGTGAGAA+GGG - Chr2:1372339-1372358 None:intergenic 45.0%
GCTACCCTTCTTGAGTTAAG+TGG - Chr2:1371790-1371809 None:intergenic 45.0%
TGAGCTGTGATCATGTGAGA+AGG - Chr2:1372340-1372359 None:intergenic 45.0%
! CTACGTCATGGTTTGTGTCA+TGG + Chr2:1371941-1371960 MsG0280006401.01.T01:intron 45.0%
!! AGTGCTTCAAGATTTGCTGC+TGG + Chr2:1372595-1372614 MsG0280006401.01.T01:three_prime_UTR 45.0%
!! TCAAGATTTGCTGCTGGTTG+TGG + Chr2:1372601-1372620 MsG0280006401.01.T01:three_prime_UTR 45.0%
!! GAATTTAAATTAAATAATTT+AGG - Chr2:1372804-1372823 None:intergenic 5.0%
AAATCATCTGGGAGTGGTCG+TGG + Chr2:1372249-1372268 MsG0280006401.01.T01:CDS 50.0%
TCACGCAGTCGGCATATTGA+TGG - Chr2:1372136-1372155 None:intergenic 50.0%
! GTCGGCATATTGATGGCAGA+TGG - Chr2:1372129-1372148 None:intergenic 50.0%
!! GATTTGCTGCTGGTTGTGGA+TGG + Chr2:1372605-1372624 MsG0280006401.01.T01:three_prime_UTR 50.0%
TGGGAGTGGTCGTGGTCAAT+TGG + Chr2:1372257-1372276 MsG0280006401.01.T01:CDS 55.0%
TGGCAGTGGCCTGCAACAAC+AGG - Chr2:1371759-1371778 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 1371757 1372828 1371757 ID=MsG0280006401.01;Name=MsG0280006401.01
Chr2 mRNA 1371757 1372828 1371757 ID=MsG0280006401.01.T01;Parent=MsG0280006401.01;Name=MsG0280006401.01.T01;_AED=0.48;_eAED=0.49;_QI=0|1|0.66|1|1|1|3|238|75
Chr2 exon 1371757 1371843 1371757 ID=MsG0280006401.01.T01:exon:48;Parent=MsG0280006401.01.T01
Chr2 exon 1372240 1372307 1372240 ID=MsG0280006401.01.T01:exon:49;Parent=MsG0280006401.01.T01
Chr2 exon 1372518 1372828 1372518 ID=MsG0280006401.01.T01:exon:50;Parent=MsG0280006401.01.T01
Chr2 CDS 1371757 1371843 1371757 ID=MsG0280006401.01.T01:cds;Parent=MsG0280006401.01.T01
Chr2 CDS 1372240 1372307 1372240 ID=MsG0280006401.01.T01:cds;Parent=MsG0280006401.01.T01
Chr2 CDS 1372518 1372590 1372518 ID=MsG0280006401.01.T01:cds;Parent=MsG0280006401.01.T01
Chr2 three_prime_UTR 1372591 1372828 1372591 ID=MsG0280006401.01.T01:three_prime_utr;Parent=MsG0280006401.01.T01
Gene Sequence

>MsG0280006401.01.T01

CTGTTGTTGCAGGCCACTGCCAATTTAGTGCCACTTAACTCAAGAAGGGTAGCTGTCAAGTTTGACTTCTTCAAAATTGCTAGTTTGATACCTATAAAATCATCTGGGAGTGGTCGTGGTCAATTGGAAATTACGTATTTGGATGAAGATTTAAGAATATCAAGAGGTAATAGAGGCAACTTGTTTATCTTGAAAATGGTAGATCCATCCTATAGAGTCCCTATTTGA

Protein sequence

>MsG0280006401.01.T01

LLLQATANLVPLNSRRVAVKFDFFKIASLIPIKSSGSGRGQLEITYLDEDLRISRGNRGNLFILKMVDPSYRVPI*