AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038495.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038495.01.T01 MTR_7g056410 100.000 60 0 0 7 66 128 187 5.36e-35 117
MsG0780038495.01.T01 MTR_8g013640 76.364 55 12 1 2 56 133 186 3.00e-19 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038495.01.T01 AT3G24100 83.333 48 6 2 1 48 1 46 6.28e-18 70.1

Find 45 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAGGTGGGAAACTTTATT+TGG 0.221487 7:-47672184 None:intergenic
TGCATTCTCTCTCTTTAATC+AGG 0.299464 7:+47672253 MsG0780038495.01.T01:five_prime_UTR
ATAATTGGTGTTTCCTTGAA+TGG 0.333364 7:+47673276 MsG0780038495.01.T01:three_prime_UTR
AACCTTTCTCTACGTTGTTC+AGG 0.342009 7:-47672754 None:intergenic
ATATTCTAGTCGTCTTCTTT+TGG 0.352227 7:+47673205 MsG0780038495.01.T01:three_prime_UTR
GTCAACCCATCATTCTTTCC+CGG 0.368288 7:-47672730 None:intergenic
GAACAAATAGACATAAAATA+AGG 0.380566 7:-47672129 None:intergenic
ACTTGTATTGTATCTTTGTT+TGG 0.393839 7:+47673325 MsG0780038495.01.T01:three_prime_UTR
TTTCACGATCTTTCTCTCTC+TGG 0.407296 7:-47672672 None:intergenic
GGGGTAACTCAACAAATAAT+TGG 0.414690 7:+47673261 MsG0780038495.01.T01:three_prime_UTR
ACCTTTCTCTACGTTGTTCA+GGG 0.422756 7:-47672753 None:intergenic
AACAGCTAAGAAAGCAGGTC+AGG 0.430416 7:+47673051 MsG0780038495.01.T01:CDS
TAATTGGTGTTTCCTTGAAT+GGG 0.439319 7:+47673277 MsG0780038495.01.T01:three_prime_UTR
TGAAAGGGCTGCAGCTAGAG+TGG 0.451547 7:+47672690 MsG0780038495.01.T01:CDS
TCCTTGAATGGGATTGATGT+TGG 0.464881 7:+47673288 MsG0780038495.01.T01:three_prime_UTR
TCCAACATCAATCCCATTCA+AGG 0.466939 7:-47673289 None:intergenic
TAGGGATGCAAAGGCACTGC+AGG 0.480602 7:+47673024 MsG0780038495.01.T01:intron
AGAAGAAATTATAGAGAGAG+AGG 0.486152 7:-47672201 None:intergenic
GGAGCTTGATAACGTGTTGT+TGG 0.487077 7:+47673143 MsG0780038495.01.T01:three_prime_UTR
GCTAGAGTGGGTGGTTCTAA+AGG 0.489038 7:+47672703 MsG0780038495.01.T01:CDS
AAGAAAGCAGGTCAGGATGC+AGG 0.489533 7:+47673058 MsG0780038495.01.T01:CDS
GAAATTATAGAGAGAGAGGT+GGG 0.495148 7:-47672197 None:intergenic
AGAGAGAGAAAGATCGTGAA+AGG 0.508023 7:+47672674 MsG0780038495.01.T01:CDS
GGAAAGCCGGGAAAGAATGA+TGG 0.515570 7:+47672724 MsG0780038495.01.T01:CDS
AGAAATTATAGAGAGAGAGG+TGG 0.526187 7:-47672198 None:intergenic
GGGTGGTTCTAAAGGAAAGC+CGG 0.534530 7:+47672711 MsG0780038495.01.T01:CDS
GAGAGAGAAAGATCGTGAAA+GGG 0.539461 7:+47672675 MsG0780038495.01.T01:CDS
TGTGTTTATTATTGTCATGT+GGG 0.545196 7:+47673241 MsG0780038495.01.T01:three_prime_UTR
GAGAAAACAGCTAAGAAAGC+AGG 0.550224 7:+47673046 MsG0780038495.01.T01:CDS
CCCCTGAACAACGTAGAGAA+AGG 0.554850 7:+47672752 MsG0780038495.01.T01:CDS
ATGTGTTTATTATTGTCATG+TGG 0.555615 7:+47673240 MsG0780038495.01.T01:three_prime_UTR
AAAGATACAATACAAGTCAC+TGG 0.556311 7:-47673319 None:intergenic
TTGAAGATTCGTGAACAGCT+TGG 0.569282 7:-47672158 None:intergenic
GGTGGTTCTAAAGGAAAGCC+GGG 0.571546 7:+47672712 MsG0780038495.01.T01:CDS
ATTGATTCTTCAACAACGAA+GGG 0.579697 7:-47672394 None:intergenic
GATTGATTCTTCAACAACGA+AGG 0.585641 7:-47672395 None:intergenic
GATGCAGGAGGGAATAATGC+AGG 0.589253 7:+47673073 MsG0780038495.01.T01:CDS
GAAAGGGCTGCAGCTAGAGT+GGG 0.604267 7:+47672691 MsG0780038495.01.T01:CDS
GAAAGCCGGGAAAGAATGAT+GGG 0.606309 7:+47672725 MsG0780038495.01.T01:CDS
GTGTTTATTATTGTCATGTG+GGG 0.621451 7:+47673242 MsG0780038495.01.T01:three_prime_UTR
AGGGCTGCAGCTAGAGTGGG+TGG 0.622633 7:+47672694 MsG0780038495.01.T01:CDS
AAAGCAGGTCAGGATGCAGG+AGG 0.647782 7:+47673061 MsG0780038495.01.T01:CDS
CCTTTCTCTACGTTGTTCAG+GGG 0.652678 7:-47672752 None:intergenic
AAGCAGGTCAGGATGCAGGA+GGG 0.655111 7:+47673062 MsG0780038495.01.T01:CDS
GCAGGAGGGAATAATGCAGG+TGG 0.659216 7:+47673076 MsG0780038495.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATTATTATTATTATTGATA+TGG + Chr7:47673122-47673141 MsG0780038495.01.T01:three_prime_UTR 10.0%
!! AGAATTAAACGAAAATTAAA+AGG - Chr7:47672439-47672458 None:intergenic 15.0%
!! CATTAATTCTCGTTAATTTA+GGG + Chr7:47672460-47672479 MsG0780038495.01.T01:intron 20.0%
!! GAACAAATAGACATAAAATA+AGG - Chr7:47672132-47672151 None:intergenic 20.0%
!! TCATTAATTCTCGTTAATTT+AGG + Chr7:47672459-47672478 MsG0780038495.01.T01:intron 20.0%
!! TTATGATTTGAATCTGTTAT+GGG + Chr7:47672613-47672632 MsG0780038495.01.T01:intron 20.0%
!! TTTATGATTTGAATCTGTTA+TGG + Chr7:47672612-47672631 MsG0780038495.01.T01:intron 20.0%
!!! GTCTTTTTCCTTATTTTTTA+GGG + Chr7:47673006-47673025 MsG0780038495.01.T01:intron 20.0%
!!! TAGACATAAAATAAGGTTTT+AGG - Chr7:47672125-47672144 None:intergenic 20.0%
!!! TCATTTTCTGAAGTTATTAT+CGG + Chr7:47672899-47672918 MsG0780038495.01.T01:intron 20.0%
!!! TGTCTTTTTCCTTATTTTTT+AGG + Chr7:47673005-47673024 MsG0780038495.01.T01:intron 20.0%
! ACTTGTATTGTATCTTTGTT+TGG + Chr7:47673325-47673344 MsG0780038495.01.T01:three_prime_UTR 25.0%
! ATGTGTTTATTATTGTCATG+TGG + Chr7:47673240-47673259 MsG0780038495.01.T01:three_prime_UTR 25.0%
! ATTGAATAATGTAAAGACAC+CGG - Chr7:47672942-47672961 None:intergenic 25.0%
! TGTGTTTATTATTGTCATGT+GGG + Chr7:47673241-47673260 MsG0780038495.01.T01:three_prime_UTR 25.0%
! TTTATTGTTGCAGAGAAAAA+AGG - Chr7:47672572-47672591 None:intergenic 25.0%
!! GTTTCTGTTTTCAATTTTCT+AGG + Chr7:47672350-47672369 MsG0780038495.01.T01:intron 25.0%
AAAAGTGGAAAATTGAGAAG+AGG - Chr7:47672292-47672311 None:intergenic 30.0%
AAAGATACAATACAAGTCAC+TGG - Chr7:47673322-47673341 None:intergenic 30.0%
AGAAGAAATTATAGAGAGAG+AGG - Chr7:47672204-47672223 None:intergenic 30.0%
CTTTGCATCCCTAAAAAATA+AGG - Chr7:47673017-47673036 None:intergenic 30.0%
GTGTTTATTATTGTCATGTG+GGG + Chr7:47673242-47673261 MsG0780038495.01.T01:three_prime_UTR 30.0%
TAGCGAATTAAAGAGAAAAG+TGG - Chr7:47672307-47672326 None:intergenic 30.0%
TTTGAATCTGTTATGGGTAT+TGG + Chr7:47672619-47672638 MsG0780038495.01.T01:intron 30.0%
! ATAATTGGTGTTTCCTTGAA+TGG + Chr7:47673276-47673295 MsG0780038495.01.T01:three_prime_UTR 30.0%
! ATATTCTAGTCGTCTTCTTT+TGG + Chr7:47673205-47673224 MsG0780038495.01.T01:three_prime_UTR 30.0%
! ATTGATTCTTCAACAACGAA+GGG - Chr7:47672397-47672416 None:intergenic 30.0%
! GGTGTTTTCGAAAATATACT+TGG - Chr7:47672797-47672816 None:intergenic 30.0%
! TAATTGGTGTTTCCTTGAAT+GGG + Chr7:47673277-47673296 MsG0780038495.01.T01:three_prime_UTR 30.0%
!! ATTTAACTTTGAAGCTAACG+CGG + Chr7:47672646-47672665 MsG0780038495.01.T01:intron 30.0%
!!! CTTATTTTTTAGGGATGCAA+AGG + Chr7:47673015-47673034 MsG0780038495.01.T01:intron 30.0%
!!! TTGTTGGTTTTAGACATTTG+TGG + Chr7:47673159-47673178 MsG0780038495.01.T01:three_prime_UTR 30.0%
AGAAATTATAGAGAGAGAGG+TGG - Chr7:47672201-47672220 None:intergenic 35.0%
ATGACACCTACACATTTGAT+TGG + Chr7:47672865-47672884 MsG0780038495.01.T01:intron 35.0%
ATTGAGAAGAGGAAAAAGAG+AGG - Chr7:47672281-47672300 None:intergenic 35.0%
CTCAATCCAATCAAATGTGT+AGG - Chr7:47672874-47672893 None:intergenic 35.0%
GAAATTATAGAGAGAGAGGT+GGG - Chr7:47672200-47672219 None:intergenic 35.0%
GGGGTAACTCAACAAATAAT+TGG + Chr7:47673261-47673280 MsG0780038495.01.T01:three_prime_UTR 35.0%
TGCATTCTCTCTCTTTAATC+AGG + Chr7:47672253-47672272 MsG0780038495.01.T01:five_prime_UTR 35.0%
! ATGCATTCGATAAGAAGTGT+CGG - Chr7:47672818-47672837 None:intergenic 35.0%
! CAAATGTGTAGGTGTCATAT+CGG - Chr7:47672863-47672882 None:intergenic 35.0%
! GATTGATTCTTCAACAACGA+AGG - Chr7:47672398-47672417 None:intergenic 35.0%
!! AATCTGTTATGGGTATTGGT+TGG + Chr7:47672623-47672642 MsG0780038495.01.T01:intron 35.0%
AACCTTTCTCTACGTTGTTC+AGG - Chr7:47672757-47672776 None:intergenic 40.0%
ACCTTTCTCTACGTTGTTCA+GGG - Chr7:47672756-47672775 None:intergenic 40.0%
AGAGAGAGAAAGATCGTGAA+AGG + Chr7:47672674-47672693 MsG0780038495.01.T01:CDS 40.0%
GAGAAAACAGCTAAGAAAGC+AGG + Chr7:47673046-47673065 MsG0780038495.01.T01:CDS 40.0%
GAGAGAGAAAGATCGTGAAA+GGG + Chr7:47672675-47672694 MsG0780038495.01.T01:CDS 40.0%
GAGAGGTGGGAAACTTTATT+TGG - Chr7:47672187-47672206 None:intergenic 40.0%
TCCAACATCAATCCCATTCA+AGG - Chr7:47673292-47673311 None:intergenic 40.0%
TCCTTGAATGGGATTGATGT+TGG + Chr7:47673288-47673307 MsG0780038495.01.T01:three_prime_UTR 40.0%
TGCAGGTGGAAGCAAAAAAT+AGG + Chr7:47673090-47673109 MsG0780038495.01.T01:CDS 40.0%
TTGAAGATTCGTGAACAGCT+TGG - Chr7:47672161-47672180 None:intergenic 40.0%
TTTCACGATCTTTCTCTCTC+TGG - Chr7:47672675-47672694 None:intergenic 40.0%
!! TGAAGTTATTATCGGTGTCG+TGG + Chr7:47672907-47672926 MsG0780038495.01.T01:intron 40.0%
AACAGCTAAGAAAGCAGGTC+AGG + Chr7:47673051-47673070 MsG0780038495.01.T01:CDS 45.0%
CCTTTCTCTACGTTGTTCAG+GGG - Chr7:47672755-47672774 None:intergenic 45.0%
GAAAGCCGGGAAAGAATGAT+GGG + Chr7:47672725-47672744 MsG0780038495.01.T01:CDS 45.0%
GTCAACCCATCATTCTTTCC+CGG - Chr7:47672733-47672752 None:intergenic 45.0%
!! GGAGCTTGATAACGTGTTGT+TGG + Chr7:47673143-47673162 MsG0780038495.01.T01:three_prime_UTR 45.0%
!! TATTATCGGTGTCGTGGTGT+CGG + Chr7:47672913-47672932 MsG0780038495.01.T01:intron 45.0%
!!! AAAAAAAAAGTTTTTTTTTT+GGG + Chr7:47672589-47672608 MsG0780038495.01.T01:intron 5.0%
!!! TAAAAAAAAAGTTTTTTTTT+TGG + Chr7:47672588-47672607 MsG0780038495.01.T01:intron 5.0%
AAGAAAGCAGGTCAGGATGC+AGG + Chr7:47673058-47673077 MsG0780038495.01.T01:CDS 50.0%
CCCCTGAACAACGTAGAGAA+AGG + Chr7:47672752-47672771 MsG0780038495.01.T01:CDS 50.0%
GATGCAGGAGGGAATAATGC+AGG + Chr7:47673073-47673092 MsG0780038495.01.T01:CDS 50.0%
GGAAAGCCGGGAAAGAATGA+TGG + Chr7:47672724-47672743 MsG0780038495.01.T01:CDS 50.0%
!! GCTAGAGTGGGTGGTTCTAA+AGG + Chr7:47672703-47672722 MsG0780038495.01.T01:CDS 50.0%
!! GGGTGGTTCTAAAGGAAAGC+CGG + Chr7:47672711-47672730 MsG0780038495.01.T01:CDS 50.0%
!! GGTGGTTCTAAAGGAAAGCC+GGG + Chr7:47672712-47672731 MsG0780038495.01.T01:CDS 50.0%
AAAGCAGGTCAGGATGCAGG+AGG + Chr7:47673061-47673080 MsG0780038495.01.T01:CDS 55.0%
AAGCAGGTCAGGATGCAGGA+GGG + Chr7:47673062-47673081 MsG0780038495.01.T01:CDS 55.0%
GAAAGGGCTGCAGCTAGAGT+GGG + Chr7:47672691-47672710 MsG0780038495.01.T01:CDS 55.0%
GCAGGAGGGAATAATGCAGG+TGG + Chr7:47673076-47673095 MsG0780038495.01.T01:CDS 55.0%
TGAAAGGGCTGCAGCTAGAG+TGG + Chr7:47672690-47672709 MsG0780038495.01.T01:CDS 55.0%
!! TAGGGATGCAAAGGCACTGC+AGG + Chr7:47673024-47673043 MsG0780038495.01.T01:intron 55.0%
AGGGCTGCAGCTAGAGTGGG+TGG + Chr7:47672694-47672713 MsG0780038495.01.T01:CDS 65.0%
!! GGTGTCGTGGTGTCGGTGTC+CGG + Chr7:47672920-47672939 MsG0780038495.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 47672120 47673365 47672120 ID=MsG0780038495.01;Name=MsG0780038495.01
Chr7 mRNA 47672120 47673365 47672120 ID=MsG0780038495.01.T01;Parent=MsG0780038495.01;Name=MsG0780038495.01.T01;_AED=0.33;_eAED=0.33;_QI=208|1|1|1|0|0|4|254|66
Chr7 exon 47672120 47672274 47672120 ID=MsG0780038495.01.T01:exon:4987;Parent=MsG0780038495.01.T01
Chr7 exon 47672372 47672431 47672372 ID=MsG0780038495.01.T01:exon:4988;Parent=MsG0780038495.01.T01
Chr7 exon 47672665 47672773 47672665 ID=MsG0780038495.01.T01:exon:4989;Parent=MsG0780038495.01.T01
Chr7 exon 47673027 47673365 47673027 ID=MsG0780038495.01.T01:exon:4990;Parent=MsG0780038495.01.T01
Chr7 five_prime_UTR 47672120 47672274 47672120 ID=MsG0780038495.01.T01:five_prime_utr;Parent=MsG0780038495.01.T01
Chr7 five_prime_UTR 47672372 47672424 47672372 ID=MsG0780038495.01.T01:five_prime_utr;Parent=MsG0780038495.01.T01
Chr7 CDS 47672425 47672431 47672425 ID=MsG0780038495.01.T01:cds;Parent=MsG0780038495.01.T01
Chr7 CDS 47672665 47672773 47672665 ID=MsG0780038495.01.T01:cds;Parent=MsG0780038495.01.T01
Chr7 CDS 47673027 47673111 47673027 ID=MsG0780038495.01.T01:cds;Parent=MsG0780038495.01.T01
Chr7 three_prime_UTR 47673112 47673365 47673112 ID=MsG0780038495.01.T01:three_prime_utr;Parent=MsG0780038495.01.T01
Gene Sequence

>MsG0780038495.01.T01

ATGACTCGCGGTAACCAGAGAGAGAAAGATCGTGAAAGGGCTGCAGCTAGAGTGGGTGGTTCTAAAGGAAAGCCGGGAAAGAATGATGGGTTGACCCCTGAACAACGTAGAGAAAGGGATGCAAAGGCACTGCAGGAGAAAACAGCTAAGAAAGCAGGTCAGGATGCAGGAGGGAATAATGCAGGTGGAAGCAAAAAATAG

Protein sequence

>MsG0780038495.01.T01

MTRGNQREKDRERAAARVGGSKGKPGKNDGLTPEQRRERDAKALQEKTAKKAGQDAGGNNAGGSKK*