AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024782.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024782.01.T01 MTR_5g016450 77.124 153 22 4 14 160 2 147 1.09e-70 211
MsG0580024782.01.T01 MTR_5g016450 77.124 153 22 4 14 160 2 147 1.24e-70 211
MsG0580024782.01.T01 MTR_5g016450 77.124 153 22 4 14 160 2 147 1.37e-70 211
MsG0580024782.01.T01 MTR_3g462220 39.695 131 60 6 21 143 6 125 7.90e-18 76.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024782.01.T01 AT4G37300 45.890 146 68 4 17 156 1 141 5.74e-30 107

Find 46 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCGCTTCTGTTGGGTTTGA+TGG 0.233826 5:+9636799 None:intergenic
CATCAAATTGAGCTTTGATT+TGG 0.344538 5:+9636840 None:intergenic
TAGAGACATTCACTGTGTTT+TGG 0.359225 5:-9636064 MsG0580024782.01.T01:three_prime_UTR
CCAACATCAACATGGCTTGC+AGG 0.374328 5:+9636437 None:intergenic
ACTTTCCTCAAAGGGATTAG+TGG 0.385821 5:-9636678 MsG0580024782.01.T01:CDS
TGATTCAGGTTCGCTTCTGT+TGG 0.390338 5:+9636790 None:intergenic
CTAGGTGCTCTCGCTCCTAT+TGG 0.391250 5:+9636163 None:intergenic
TGCATCCACTAATCCCTTTG+AGG 0.405061 5:+9636673 None:intergenic
GCAACCCTGCCACAAATGAT+TGG 0.408560 5:-9636390 MsG0580024782.01.T01:exon
TGTTGGTGAAAACAAATTAG+AGG 0.414599 5:-9636420 MsG0580024782.01.T01:CDS
GTAGTGATCTTGATTTGTTC+CGG 0.414656 5:+9636862 None:intergenic
CTGTTTGGTGTATACTGAAT+GGG 0.415171 5:+9636946 None:intergenic
TCCTACATGATGTTGCTGTT+TGG 0.416375 5:+9636931 None:intergenic
CGAGAGCACCTAGATCTTGC+TGG 0.420928 5:-9636153 MsG0580024782.01.T01:three_prime_UTR
TCGCTTCTGTTGGGTTTGAT+GGG 0.437632 5:+9636800 None:intergenic
TAACCTTGATCATGAACATC+TGG 0.442683 5:-9636363 MsG0580024782.01.T01:intron
GTTAAAGAAGGAGGTGGAAG+TGG 0.449369 5:-9636476 MsG0580024782.01.T01:CDS
TATTAGTATTAGTATCATAA+AGG 0.457244 5:-9635990 MsG0580024782.01.T01:three_prime_UTR
CTGTGAAAATAGACAGGAAG+TGG 0.460529 5:-9636512 MsG0580024782.01.T01:intron
AGGACCCAATCATTTGTGGC+AGG 0.460693 5:+9636385 None:intergenic
GCTGTTTGGTGTATACTGAA+TGG 0.461852 5:+9636945 None:intergenic
CAGACTATACTTTCCTCAAA+GGG 0.469094 5:-9636686 MsG0580024782.01.T01:CDS
TTTATAAAAGCGGTTAAAGA+AGG 0.472057 5:-9636488 MsG0580024782.01.T01:CDS
TATGTCTCGTCTAAGCCAAT+AGG 0.479066 5:-9636178 MsG0580024782.01.T01:three_prime_UTR
CATGCAAATAAAAGCAAAGA+TGG 0.484834 5:+9636106 None:intergenic
TATCAATAGAAAACAACTCT+TGG 0.485925 5:+9636621 None:intergenic
GATTCAGGTTCGCTTCTGTT+GGG 0.489259 5:+9636791 None:intergenic
AGATGTTCATGATCAAGGTT+AGG 0.495165 5:+9636365 None:intergenic
CAACCCTGCCACAAATGATT+GGG 0.498457 5:-9636389 MsG0580024782.01.T01:exon
GGTTAGGACCCAATCATTTG+TGG 0.507173 5:+9636381 None:intergenic
ATACCAGATGTTCATGATCA+AGG 0.509861 5:+9636360 None:intergenic
TATTGATAAACAGCATCATA+CGG 0.530019 5:-9636606 MsG0580024782.01.T01:intron
AAAGCGGTTAAAGAAGGAGG+TGG 0.552729 5:-9636482 MsG0580024782.01.T01:CDS
AAAACCTCGTCACTACGACT+TGG 0.560143 5:+9636890 None:intergenic
GGATGCACAAGATGAATTTG+TGG 0.562932 5:-9636657 MsG0580024782.01.T01:CDS
TCAGACTATACTTTCCTCAA+AGG 0.574625 5:-9636687 MsG0580024782.01.T01:CDS
ATAAAAGCGGTTAAAGAAGG+AGG 0.575083 5:-9636485 MsG0580024782.01.T01:CDS
CCTGCAAGCCATGTTGATGT+TGG 0.587170 5:-9636437 MsG0580024782.01.T01:CDS
GGACCCAATCATTTGTGGCA+GGG 0.596610 5:+9636386 None:intergenic
AGGAAGTGGGTTTATAAAAG+CGG 0.597067 5:-9636498 MsG0580024782.01.T01:CDS
TATTATAAGTTACAACAACA+TGG 0.657222 5:+9636011 None:intergenic
TGTGAAAATAGACAGGAAGT+GGG 0.658962 5:-9636511 MsG0580024782.01.T01:intron
TGTTTGGTGTATACTGAATG+GGG 0.660581 5:+9636947 None:intergenic
TATACTGAATGGGGCCAAAG+TGG 0.663557 5:+9636956 None:intergenic
ACCAAACAGCAACATCATGT+AGG 0.668839 5:-9636932 MsG0580024782.01.T01:CDS
AAAACCAAGTCGTAGTGACG+AGG 0.696472 5:-9636894 MsG0580024782.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTAGTTTTTGTTTTTT+TGG - Chr5:9636375-9636394 MsG0580024782.01.T01:exon 10.0%
!! TATTAGTATTAGTATCATAA+AGG - Chr5:9636927-9636946 MsG0580024782.01.T01:CDS 15.0%
!! TATTATAAGTTACAACAACA+TGG + Chr5:9636909-9636928 None:intergenic 20.0%
! TATCAATAGAAAACAACTCT+TGG + Chr5:9636299-9636318 None:intergenic 25.0%
! TATTGATAAACAGCATCATA+CGG - Chr5:9636311-9636330 MsG0580024782.01.T01:intron 25.0%
! TTTATAAAAGCGGTTAAAGA+AGG - Chr5:9636429-9636448 MsG0580024782.01.T01:CDS 25.0%
!!! ATAGATTGTGATTTGTTAAC+AGG - Chr5:9636714-9636733 MsG0580024782.01.T01:CDS 25.0%
ATTGAACTGTGAAAATAGAC+AGG - Chr5:9636399-9636418 MsG0580024782.01.T01:CDS 30.0%
CATGCAAATAAAAGCAAAGA+TGG + Chr5:9636814-9636833 None:intergenic 30.0%
TAGATCTTGCTGGAAAAAAA+AGG - Chr5:9636774-9636793 MsG0580024782.01.T01:CDS 30.0%
! CATCAAATTGAGCTTTGATT+TGG + Chr5:9636080-9636099 None:intergenic 30.0%
! TGTTGGTGAAAACAAATTAG+AGG - Chr5:9636497-9636516 MsG0580024782.01.T01:CDS 30.0%
!!! TTTTTTTTCCAGCAAGATCT+AGG + Chr5:9636775-9636794 None:intergenic 30.0%
AATGTTGCGTGAAGAAAAAG+TGG + Chr5:9636172-9636191 None:intergenic 35.0%
AGATGTTCATGATCAAGGTT+AGG + Chr5:9636555-9636574 None:intergenic 35.0%
ATAAAAGCGGTTAAAGAAGG+AGG - Chr5:9636432-9636451 MsG0580024782.01.T01:CDS 35.0%
ATACCAGATGTTCATGATCA+AGG + Chr5:9636560-9636579 None:intergenic 35.0%
CAGACTATACTTTCCTCAAA+GGG - Chr5:9636231-9636250 MsG0580024782.01.T01:intron 35.0%
GTCAAAGTTCTTTACACGAT+CGG - Chr5:9636660-9636679 MsG0580024782.01.T01:CDS 35.0%
TAACCTTGATCATGAACATC+TGG - Chr5:9636554-9636573 MsG0580024782.01.T01:intron 35.0%
TCAGACTATACTTTCCTCAA+AGG - Chr5:9636230-9636249 MsG0580024782.01.T01:intron 35.0%
TGAAGAAAAAGTGGAGTCAA+CGG + Chr5:9636163-9636182 None:intergenic 35.0%
TGTGAAAATAGACAGGAAGT+GGG - Chr5:9636406-9636425 MsG0580024782.01.T01:CDS 35.0%
! AGGAAGTGGGTTTATAAAAG+CGG - Chr5:9636419-9636438 MsG0580024782.01.T01:CDS 35.0%
! TAGAGACATTCACTGTGTTT+TGG - Chr5:9636853-9636872 MsG0580024782.01.T01:CDS 35.0%
! TGTTTTCACCAACATCAACA+TGG + Chr5:9636491-9636510 None:intergenic 35.0%
!! CTGTTTGGTGTATACTGAAT+GGG + Chr5:9635974-9635993 None:intergenic 35.0%
!! GTAGTGATCTTGATTTGTTC+CGG + Chr5:9636058-9636077 None:intergenic 35.0%
!! TGTTTGGTGTATACTGAATG+GGG + Chr5:9635973-9635992 None:intergenic 35.0%
!!! GATTGAAGTTTTTCAAGCTC+TGG + Chr5:9636195-9636214 None:intergenic 35.0%
AAGAAAAAGTGGAGTCAACG+GGG + Chr5:9636161-9636180 None:intergenic 40.0%
ACCAAACAGCAACATCATGT+AGG - Chr5:9635985-9636004 MsG0580024782.01.T01:three_prime_UTR 40.0%
ACTTTCCTCAAAGGGATTAG+TGG - Chr5:9636239-9636258 MsG0580024782.01.T01:intron 40.0%
CTGTGAAAATAGACAGGAAG+TGG - Chr5:9636405-9636424 MsG0580024782.01.T01:CDS 40.0%
GAAGAAAAAGTGGAGTCAAC+GGG + Chr5:9636162-9636181 None:intergenic 40.0%
GGATGCACAAGATGAATTTG+TGG - Chr5:9636260-9636279 MsG0580024782.01.T01:intron 40.0%
TATGTCTCGTCTAAGCCAAT+AGG - Chr5:9636739-9636758 MsG0580024782.01.T01:CDS 40.0%
! TCCTACATGATGTTGCTGTT+TGG + Chr5:9635989-9636008 None:intergenic 40.0%
!! GCTGTTTGGTGTATACTGAA+TGG + Chr5:9635975-9635994 None:intergenic 40.0%
!! TTGGGTTTGATGGGTCTTTT+AGG + Chr5:9636111-9636130 None:intergenic 40.0%
!!! GACATTCACTGTGTTTTGGT+TGG - Chr5:9636857-9636876 MsG0580024782.01.T01:CDS 40.0%
AAAACCAAGTCGTAGTGACG+AGG - Chr5:9636023-9636042 MsG0580024782.01.T01:three_prime_UTR 45.0%
AAAACCTCGTCACTACGACT+TGG + Chr5:9636030-9636049 None:intergenic 45.0%
AAAGCGGTTAAAGAAGGAGG+TGG - Chr5:9636435-9636454 MsG0580024782.01.T01:CDS 45.0%
CAACCCTGCCACAAATGATT+GGG - Chr5:9636528-9636547 MsG0580024782.01.T01:intron 45.0%
GGTTAGGACCCAATCATTTG+TGG + Chr5:9636539-9636558 None:intergenic 45.0%
GTTAAAGAAGGAGGTGGAAG+TGG - Chr5:9636441-9636460 MsG0580024782.01.T01:CDS 45.0%
TCGCTTCTGTTGGGTTTGAT+GGG + Chr5:9636120-9636139 None:intergenic 45.0%
TGCATCCACTAATCCCTTTG+AGG + Chr5:9636247-9636266 None:intergenic 45.0%
TTCGCTTCTGTTGGGTTTGA+TGG + Chr5:9636121-9636140 None:intergenic 45.0%
! GATTCAGGTTCGCTTCTGTT+GGG + Chr5:9636129-9636148 None:intergenic 45.0%
! TGATTCAGGTTCGCTTCTGT+TGG + Chr5:9636130-9636149 None:intergenic 45.0%
!!! ACGGGGTTTTGTTGTGATTC+AGG + Chr5:9636144-9636163 None:intergenic 45.0%
!!! AGTGACGAGGTTTTGAACAC+CGG - Chr5:9636036-9636055 MsG0580024782.01.T01:three_prime_UTR 45.0%
AGGACCCAATCATTTGTGGC+AGG + Chr5:9636535-9636554 None:intergenic 50.0%
CCTGCAAGCCATGTTGATGT+TGG - Chr5:9636480-9636499 MsG0580024782.01.T01:CDS 50.0%
GCAACCCTGCCACAAATGAT+TGG - Chr5:9636527-9636546 MsG0580024782.01.T01:intron 50.0%
GGACCCAATCATTTGTGGCA+GGG + Chr5:9636534-9636553 None:intergenic 50.0%
! CCAACATCAACATGGCTTGC+AGG + Chr5:9636483-9636502 None:intergenic 50.0%
CTAGGTGCTCTCGCTCCTAT+TGG + Chr5:9636757-9636776 None:intergenic 55.0%
!! CGAGAGCACCTAGATCTTGC+TGG - Chr5:9636764-9636783 MsG0580024782.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 9635964 9636975 9635964 ID=MsG0580024782.01;Name=MsG0580024782.01
Chr5 mRNA 9635964 9636975 9635964 ID=MsG0580024782.01.T01;Parent=MsG0580024782.01;Name=MsG0580024782.01.T01;_AED=0.26;_eAED=0.26;_QI=0|1|0.66|1|0.5|0.33|3|270|165
Chr5 exon 9635964 9636203 9635964 ID=MsG0580024782.01.T01:exon:19555;Parent=MsG0580024782.01.T01
Chr5 exon 9636364 9636522 9636364 ID=MsG0580024782.01.T01:exon:19554;Parent=MsG0580024782.01.T01
Chr5 exon 9636607 9636975 9636607 ID=MsG0580024782.01.T01:exon:19553;Parent=MsG0580024782.01.T01
Chr5 CDS 9636607 9636975 9636607 ID=MsG0580024782.01.T01:cds;Parent=MsG0580024782.01.T01
Chr5 CDS 9636394 9636522 9636394 ID=MsG0580024782.01.T01:cds;Parent=MsG0580024782.01.T01
Chr5 three_prime_UTR 9636364 9636393 9636364 ID=MsG0580024782.01.T01:three_prime_utr;Parent=MsG0580024782.01.T01
Chr5 three_prime_UTR 9635964 9636203 9635964 ID=MsG0580024782.01.T01:three_prime_utr;Parent=MsG0580024782.01.T01
Gene Sequence

>MsG0580024782.01.T01

CTTTGGCCCCATTCAGTATACACCAAACAGCAACATCATGTAGGACAGTTGACAACTACAAAACCAAGTCGTAGTGACGAGGTTTTGAACACCGGAACAAATCAAGATCACTACCAAATCAAAGCTCAATTTGATGCTTTAACACCTAAAAGACCCATCAAACCCAACAGAAGCGAACCTGAATCACAACAAAACCCCGTTGACTCCACTTTTTCTTCACGCAACATTCCAGAGCTTGAAAAACTTCAATCTCTTCAATCAAATTCTCAGACTATACTTTCCTCAAAGGGATTAGTGGATGCACAAGATGAATTTGTGGAAACAAAGTATTACCAAGAGTTGTTTTCTATTGATAAACAGCATCATACGACAGGAAGTGGGTTTATAAAAGCGGTTAAAGAAGGAGGTGGAAGTGGATATGAGATTGAGTTACCTGCAAGCCATGTTGATGTTGGTGAAAACAAATTAGAGGCTATAAAGCAACCCTGCCACAAATGA

Protein sequence

>MsG0580024782.01.T01

LWPHSVYTKQQHHVGQLTTTKPSRSDEVLNTGTNQDHYQIKAQFDALTPKRPIKPNRSEPESQQNPVDSTFSSRNIPELEKLQSLQSNSQTILSSKGLVDAQDEFVETKYYQELFSIDKQHHTTGSGFIKAVKEGGGSGYEIELPASHVDVGENKLEAIKQPCHK*