AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017232.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017232.01.T01 MTR_3g103350 98.000 100 2 0 1 100 1 100 2.28e-69 209
MsG0380017232.01.T01 MTR_3g103350 98.000 100 2 0 1 100 1 100 1.09e-68 208
MsG0380017232.01.T01 MTR_3g103350 98.000 100 2 0 1 100 1 100 6.36e-68 208
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017232.01.T01 AT1G59520 64.000 100 36 0 1 100 1 100 2.63e-40 135
MsG0380017232.01.T01 AT1G59520 64.000 100 36 0 1 100 1 100 2.63e-40 135
MsG0380017232.01.T01 AT1G59520 64.000 100 36 0 1 100 1 100 6.49e-40 135
MsG0380017232.01.T01 AT1G59520 64.000 100 36 0 1 100 1 100 1.04e-39 135
MsG0380017232.01.T01 AT1G59520 64.000 100 36 0 1 100 1 100 1.17e-39 135
MsG0380017232.01.T01 AT1G59520 64.000 100 36 0 1 100 1 100 1.39e-39 135

Find 16 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGCAGGTTTCTCGAGTTTC+TGG 0.149268 3:+93836374 MsG0380017232.01.T01:intron
TTGAAATGGATATGAAATTT+TGG 0.207384 3:+93835893 MsG0380017232.01.T01:CDS
AAGAAGCACTCAAACTTAAT+TGG 0.259747 3:+93835835 MsG0380017232.01.T01:CDS
GCCCACCTGCGTACAAAATA+AGG 0.297730 3:-93836425 None:intergenic
TAGATATGAATTGTTGAGTA+TGG 0.351632 3:+93835810 MsG0380017232.01.T01:intron
TTCATATCCATTTCAACATC+AGG 0.362331 3:-93835886 None:intergenic
AAATAAGGATCAACACTCTC+TGG 0.443748 3:-93836410 None:intergenic
AGATGCTCCTGATGTTGAAA+TGG 0.468987 3:+93835879 MsG0380017232.01.T01:CDS
TATTGAATTTAAATTACCTC+AGG 0.486218 3:-93836449 None:intergenic
GAATAATGAATGTACCTTGA+TGG 0.498369 3:-93835705 None:intergenic
AATAATGAATGTACCTTGAT+GGG 0.499604 3:-93835704 None:intergenic
AGCATCTTGCTCTTCAACAA+CGG 0.519180 3:-93835863 None:intergenic
TGTACGCAGGTGGGCACCTG+AGG 0.571914 3:+93836433 MsG0380017232.01.T01:CDS
ATGGTGGAGAAACCCCATCA+AGG 0.637719 3:+93835691 MsG0380017232.01.T01:CDS
GTTCGCGGTAAAGAGTCTAG+AGG 0.647921 3:+93835940 MsG0380017232.01.T01:CDS
ATAATGAATGTACCTTGATG+GGG 0.703469 3:-93835703 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAATAATTCTTATAAAAAA+GGG - Chr3:93836328-93836347 None:intergenic 10.0%
!! GACAATAATTCTTATAAAAA+AGG - Chr3:93836329-93836348 None:intergenic 15.0%
!!! TTTTCAATTACGAAATTTTA+CGG - Chr3:93835659-93835678 None:intergenic 15.0%
!! AAAATAGTGGTAAAATAACT+CGG - Chr3:93836249-93836268 None:intergenic 20.0%
!! ACATAAAAATCCAAAAATAG+TGG - Chr3:93836262-93836281 None:intergenic 20.0%
!!! AGTTATTTTACCACTATTTT+TGG + Chr3:93836249-93836268 MsG0380017232.01.T01:intron 20.0%
!!! TCATTTTTCAAATTATAAGC+AGG - Chr3:93836120-93836139 None:intergenic 20.0%
!!! TTGAAATGGATATGAAATTT+TGG + Chr3:93835893-93835912 MsG0380017232.01.T01:CDS 20.0%
!!! TTGGATTTTTATGTTGTTTA+TGG + Chr3:93836268-93836287 MsG0380017232.01.T01:intron 20.0%
! AATAATGAATGTACCTTGAT+GGG - Chr3:93835707-93835726 None:intergenic 25.0%
! AATTGAACATAATCACATGT+TGG + Chr3:93836071-93836090 MsG0380017232.01.T01:intron 25.0%
! TAGATATGAATTGTTGAGTA+TGG + Chr3:93835810-93835829 MsG0380017232.01.T01:intron 25.0%
! TGTTTGATAGGAAATGAAAA+AGG - Chr3:93836012-93836031 None:intergenic 25.0%
!! AAAAAGGAGATACCAATTTT+CGG - Chr3:93835996-93836015 None:intergenic 25.0%
!!! TTTGATTTGTATTTTGTTCG+CGG + Chr3:93835925-93835944 MsG0380017232.01.T01:CDS 25.0%
ATAATGAATGTACCTTGATG+GGG - Chr3:93835706-93835725 None:intergenic 30.0%
GAATAATGAATGTACCTTGA+TGG - Chr3:93835708-93835727 None:intergenic 30.0%
GTTGACATCGCTTATAAAAA+TGG + Chr3:93836045-93836064 MsG0380017232.01.T01:intron 30.0%
TCGTAATTGAAAAAGATGCT+TGG + Chr3:93835666-93835685 MsG0380017232.01.T01:exon 30.0%
TTCATATCCATTTCAACATC+AGG - Chr3:93835889-93835908 None:intergenic 30.0%
!! AAGAAGCACTCAAACTTAAT+TGG + Chr3:93835835-93835854 MsG0380017232.01.T01:CDS 30.0%
AAATAAGGATCAACACTCTC+TGG - Chr3:93836413-93836432 None:intergenic 35.0%
AATTCGATTCATGCAACATG+CGG + Chr3:93835768-93835787 MsG0380017232.01.T01:intron 35.0%
ACACCTTCTATCATAAGTGT+TGG + Chr3:93836218-93836237 MsG0380017232.01.T01:intron 35.0%
! CGTTTTCTTTGTCCGAAAAT+TGG + Chr3:93835981-93836000 MsG0380017232.01.T01:CDS 35.0%
!!! TTGATCCTTATTTTGTACGC+AGG + Chr3:93836420-93836439 MsG0380017232.01.T01:CDS 35.0%
AGATGCTCCTGATGTTGAAA+TGG + Chr3:93835879-93835898 MsG0380017232.01.T01:CDS 40.0%
AGCATCTTGCTCTTCAACAA+CGG - Chr3:93835866-93835885 None:intergenic 40.0%
GCACCAACACTTATGATAGA+AGG - Chr3:93836224-93836243 None:intergenic 40.0%
GTAATCACATGTGTTAGTGC+TGG + Chr3:93836155-93836174 MsG0380017232.01.T01:intron 40.0%
TTGAAAAAGATGCTTGGCGA+TGG + Chr3:93835672-93835691 MsG0380017232.01.T01:exon 40.0%
! CTTATGATAGAAGGTGTGTC+TGG - Chr3:93836215-93836234 None:intergenic 40.0%
!!! ATCCTTATTTTGTACGCAGG+TGG + Chr3:93836423-93836442 MsG0380017232.01.T01:CDS 40.0%
!!! TCCTTATTTTGTACGCAGGT+GGG + Chr3:93836424-93836443 MsG0380017232.01.T01:CDS 40.0%
AAAAAGATGCTTGGCGATGG+TGG + Chr3:93835675-93835694 MsG0380017232.01.T01:exon 45.0%
AGGATCGACGTGTAAGTGTA+TGG - Chr3:93836100-93836119 None:intergenic 45.0%
TTTGGACACTGACACGTGTA+AGG + Chr3:93836187-93836206 MsG0380017232.01.T01:intron 45.0%
! CATGTGTTAGTGCTGGAGTT+TGG + Chr3:93836162-93836181 MsG0380017232.01.T01:intron 45.0%
! TAGTGCTGGAGTTTGGAGTT+TGG + Chr3:93836169-93836188 MsG0380017232.01.T01:intron 45.0%
!! TGTCAGTGTCGGTGTTTGAT+AGG - Chr3:93836024-93836043 None:intergenic 45.0%
!!! TGCAGAAGTTTTTTTCGCGC+AGG + Chr3:93836358-93836377 MsG0380017232.01.T01:intron 45.0%
CGATGTCAACGTGTCAGTGT+CGG - Chr3:93836035-93836054 None:intergenic 50.0%
GCCCACCTGCGTACAAAATA+AGG - Chr3:93836428-93836447 None:intergenic 50.0%
GTTCGCGGTAAAGAGTCTAG+AGG + Chr3:93835940-93835959 MsG0380017232.01.T01:CDS 50.0%
! ATGGTGGAGAAACCCCATCA+AGG + Chr3:93835691-93835710 MsG0380017232.01.T01:CDS 50.0%
GCGCAGGTTTCTCGAGTTTC+TGG + Chr3:93836374-93836393 MsG0380017232.01.T01:intron 55.0%
TGTACGCAGGTGGGCACCTG+AGG + Chr3:93836433-93836452 MsG0380017232.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 93835653 93836463 93835653 ID=MsG0380017232.01;Name=MsG0380017232.01
Chr3 mRNA 93835653 93836463 93835653 ID=MsG0380017232.01.T01;Parent=MsG0380017232.01;Name=MsG0380017232.01.T01;_AED=0.48;_eAED=0.49;_QI=28|1|0.66|1|1|1|3|0|101
Chr3 exon 93835653 93835712 93835653 ID=MsG0380017232.01.T01:exon:1443;Parent=MsG0380017232.01.T01
Chr3 exon 93835813 93836002 93835813 ID=MsG0380017232.01.T01:exon:1444;Parent=MsG0380017232.01.T01
Chr3 exon 93836380 93836463 93836380 ID=MsG0380017232.01.T01:exon:1445;Parent=MsG0380017232.01.T01
Chr3 five_prime_UTR 93835653 93835680 93835653 ID=MsG0380017232.01.T01:five_prime_utr;Parent=MsG0380017232.01.T01
Chr3 CDS 93835681 93835712 93835681 ID=MsG0380017232.01.T01:cds;Parent=MsG0380017232.01.T01
Chr3 CDS 93835813 93836002 93835813 ID=MsG0380017232.01.T01:cds;Parent=MsG0380017232.01.T01
Chr3 CDS 93836380 93836463 93836380 ID=MsG0380017232.01.T01:cds;Parent=MsG0380017232.01.T01
Gene Sequence

>MsG0380017232.01.T01

ATGCTTGGCGATGGTGGAGAAACCCCATCAAGATATGAATTGTTGAGTATGGTGAAGAAGCACTCAAACTTAATTGGAAAAACCGTTGTTGAAGAGCAAGATGCTCCTGATGTTGAAATGGATATGAAATTTTGGCATGATGTCTTTGATTTGTATTTTGTTCGCGGTAAAGAGTCTAGAGGACGACAAGATGATGATCTCGTTTTCTTTGTCCGAAAATTGGTTTCTCGAGTTTCTGGTTCGAATAATGATCCAGAGAGTGTTGATCCTTATTTTGTACGCAGGTGGGCACCTGAGGTAATTTAA

Protein sequence

>MsG0380017232.01.T01

MLGDGGETPSRYELLSMVKKHSNLIGKTVVEEQDAPDVEMDMKFWHDVFDLYFVRGKESRGRQDDDLVFFVRKLVSRVSGSNNDPESVDPYFVRRWAPEVI*