AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039387.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039387.01.T01 MTR_7g072560 85.455 165 21 2 7 168 13 177 5.76e-98 283
MsG0780039387.01.T01 MTR_4g029040 48.201 139 71 1 30 168 28 165 4.01e-45 147
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039387.01.T01 AT3G51730 45.113 133 73 0 36 168 38 170 1.69e-40 136
MsG0780039387.01.T01 AT5G01800 36.842 133 83 1 37 168 38 170 1.34e-31 113

Find 21 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAACTGTTTCATCACTAT+TGG 0.283182 7:+63257779 MsG0780039387.01.T01:CDS
TGCACTTCAGTGGACAAGTT+TGG 0.321322 7:+63258123 MsG0780039387.01.T01:CDS
GCCTGGAGATTTCTGCAATA+AGG 0.360633 7:+63257689 MsG0780039387.01.T01:CDS
GCACTTCAGTGGACAAGTTT+GGG 0.387009 7:+63258124 MsG0780039387.01.T01:CDS
TCACAAAGTGCGCACACATC+TGG 0.464769 7:-63257326 None:intergenic
ACCTTATTGCAGAAATCTCC+AGG 0.483134 7:-63257690 None:intergenic
AGTGGACAAGTTTGGGAGCA+AGG 0.504563 7:+63258131 MsG0780039387.01.T01:CDS
AGATAACTAACCTCTGTGTC+AGG 0.508453 7:-63257816 None:intergenic
TCTTCTCAAAAGTGTGAAGC+TGG 0.512735 7:-63257433 None:intergenic
GTTCTTCATACTGCAGAACT+AGG 0.536975 7:+63257296 MsG0780039387.01.T01:CDS
GAAATGACCTCAGTTCAGCC+TGG 0.547453 7:+63257672 MsG0780039387.01.T01:CDS
GTCATTTCTGAGAAGAAAAG+TGG 0.549629 7:-63257657 None:intergenic
ACTGAAAGTGTGCACTTCAG+TGG 0.552826 7:+63258113 MsG0780039387.01.T01:CDS
TGTACAGTGCATCAACTTGG+TGG 0.565409 7:+63257623 MsG0780039387.01.T01:intron
TACAGTTTGAAATGCAAATG+TGG 0.573580 7:+63257248 MsG0780039387.01.T01:CDS
AATTGTACAGTGCATCAACT+TGG 0.621333 7:+63257620 MsG0780039387.01.T01:intron
TAGTTCTGCAGTATGAAGAA+CGG 0.631547 7:-63257294 None:intergenic
AGATGTGTGCGCACTTTGTG+AGG 0.640022 7:+63257328 MsG0780039387.01.T01:CDS
TTGTGAGGAATATACTAGCA+AGG 0.649113 7:+63257343 MsG0780039387.01.T01:CDS
GAAATCTCCAGGCTGAACTG+AGG 0.667607 7:-63257679 None:intergenic
GATAAAAGATCCTGACACAG+AGG 0.715437 7:+63257806 MsG0780039387.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATATGTACAATATTTTAGT+AGG + Chr7:63257947-63257966 MsG0780039387.01.T01:intron 15.0%
!!! TTATCAAATTTCTTTTCATT+TGG - Chr7:63257905-63257924 None:intergenic 15.0%
!!! TATTTTAGTAGGAATGATTT+TGG + Chr7:63257958-63257977 MsG0780039387.01.T01:intron 20.0%
!!! TGTATTTTCTTGAACTTTTA+AGG - Chr7:63257745-63257764 None:intergenic 20.0%
!!! TTTCATTTTAAAATTTCAGC+TGG + Chr7:63258074-63258093 MsG0780039387.01.T01:intron 20.0%
! AAACACACATGATTTCATAA+AGG - Chr7:63257595-63257614 None:intergenic 25.0%
ACCAAAACACAAGATACAAA+AGG - Chr7:63257469-63257488 None:intergenic 30.0%
AGAAACTGTTTCATCACTAT+TGG + Chr7:63257779-63257798 MsG0780039387.01.T01:CDS 30.0%
! ACCTTTTGTATCTTGTGTTT+TGG + Chr7:63257465-63257484 MsG0780039387.01.T01:intron 30.0%
! TACAGTTTGAAATGCAAATG+TGG + Chr7:63257248-63257267 MsG0780039387.01.T01:CDS 30.0%
! TTGATCGAAATTACGTTTTG+CGG + Chr7:63258031-63258050 MsG0780039387.01.T01:intron 30.0%
!!! TGTATCTTGTGTTTTGGTTT+CGG + Chr7:63257471-63257490 MsG0780039387.01.T01:intron 30.0%
AAACGTAATTTCGATCAAGC+AGG - Chr7:63258029-63258048 None:intergenic 35.0%
AACGTAATTTCGATCAAGCA+GGG - Chr7:63258028-63258047 None:intergenic 35.0%
AATTGTACAGTGCATCAACT+TGG + Chr7:63257620-63257639 MsG0780039387.01.T01:intron 35.0%
TTGTGAGGAATATACTAGCA+AGG + Chr7:63257343-63257362 MsG0780039387.01.T01:CDS 35.0%
! AGAGGTTAGTTATCTCATCT+TGG + Chr7:63257824-63257843 MsG0780039387.01.T01:intron 35.0%
! GTCATTTCTGAGAAGAAAAG+TGG - Chr7:63257660-63257679 None:intergenic 35.0%
! TAGTTCTGCAGTATGAAGAA+CGG - Chr7:63257297-63257316 None:intergenic 35.0%
! TGATCGAAATTACGTTTTGC+GGG + Chr7:63258032-63258051 MsG0780039387.01.T01:intron 35.0%
AAGTTGGATTAAGCCAATGG+AGG - Chr7:63258001-63258020 None:intergenic 40.0%
ACCTTATTGCAGAAATCTCC+AGG - Chr7:63257693-63257712 None:intergenic 40.0%
ACTGACACATGTCGGATATT+GGG - Chr7:63257555-63257574 None:intergenic 40.0%
AGATAACTAACCTCTGTGTC+AGG - Chr7:63257819-63257838 None:intergenic 40.0%
AGTTGGATTAAGCCAATGGA+GGG - Chr7:63258000-63258019 None:intergenic 40.0%
GATAAAAGATCCTGACACAG+AGG + Chr7:63257806-63257825 MsG0780039387.01.T01:CDS 40.0%
GTTCTTCATACTGCAGAACT+AGG + Chr7:63257296-63257315 MsG0780039387.01.T01:CDS 40.0%
TAATTTCGATCAAGCAGGGT+TGG - Chr7:63258024-63258043 None:intergenic 40.0%
TGGAAGTTGGATTAAGCCAA+TGG - Chr7:63258004-63258023 None:intergenic 40.0%
! TCTTCTCAAAAGTGTGAAGC+TGG - Chr7:63257436-63257455 None:intergenic 40.0%
! TTGAAGTGTCAGAGCTACAT+AGG - Chr7:63257521-63257540 None:intergenic 40.0%
!! CACACTTTTGAGAAGAAGGT+TGG + Chr7:63257440-63257459 MsG0780039387.01.T01:intron 40.0%
!! GCTTCACACTTTTGAGAAGA+AGG + Chr7:63257436-63257455 MsG0780039387.01.T01:CDS 40.0%
CACTGACACATGTCGGATAT+TGG - Chr7:63257556-63257575 None:intergenic 45.0%
GCACTTCAGTGGACAAGTTT+GGG + Chr7:63258124-63258143 MsG0780039387.01.T01:CDS 45.0%
GCCTGGAGATTTCTGCAATA+AGG + Chr7:63257689-63257708 MsG0780039387.01.T01:CDS 45.0%
GTTGGATTAAGCCAATGGAG+GGG - Chr7:63257999-63258018 None:intergenic 45.0%
TATCCGACATGTGTCAGTGT+CGG + Chr7:63257557-63257576 MsG0780039387.01.T01:intron 45.0%
TGCACTTCAGTGGACAAGTT+TGG + Chr7:63258123-63258142 MsG0780039387.01.T01:CDS 45.0%
TGGAGGGGTCAAAACAAAGA+TGG - Chr7:63257984-63258003 None:intergenic 45.0%
TGTACAGTGCATCAACTTGG+TGG + Chr7:63257623-63257642 MsG0780039387.01.T01:intron 45.0%
! ACTGAAAGTGTGCACTTCAG+TGG + Chr7:63258113-63258132 MsG0780039387.01.T01:CDS 45.0%
!!! CTTTGTTTTGACCCCTCCAT+TGG + Chr7:63257985-63258004 MsG0780039387.01.T01:intron 45.0%
!!! AAATTTTAAAATGAAAAAAA+AGG - Chr7:63258070-63258089 None:intergenic 5.0%
AGATGTGTGCGCACTTTGTG+AGG + Chr7:63257328-63257347 MsG0780039387.01.T01:CDS 50.0%
AGTGGACAAGTTTGGGAGCA+AGG + Chr7:63258131-63258150 MsG0780039387.01.T01:CDS 50.0%
GAAATCTCCAGGCTGAACTG+AGG - Chr7:63257682-63257701 None:intergenic 50.0%
GAAATGACCTCAGTTCAGCC+TGG + Chr7:63257672-63257691 MsG0780039387.01.T01:CDS 50.0%
GATCAAGCAGGGTTGGAAGT+TGG - Chr7:63258017-63258036 None:intergenic 50.0%
TCACAAAGTGCGCACACATC+TGG - Chr7:63257329-63257348 None:intergenic 50.0%
TGTCCGACACTGACACATGT+CGG - Chr7:63257563-63257582 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr7 gene 63257224 63258167 63257224 ID=MsG0780039387.01;Name=MsG0780039387.01
Chr7 mRNA 63257224 63258167 63257224 ID=MsG0780039387.01.T01;Parent=MsG0780039387.01;Name=MsG0780039387.01.T01;_AED=0.47;_eAED=0.50;_QI=0|1|0.33|1|1|1|3|0|168
Chr7 exon 63257224 63257457 63257224 ID=MsG0780039387.01.T01:exon:16002;Parent=MsG0780039387.01.T01
Chr7 exon 63257630 63257827 63257630 ID=MsG0780039387.01.T01:exon:16001;Parent=MsG0780039387.01.T01
Chr7 exon 63258093 63258167 63258093 ID=MsG0780039387.01.T01:exon:16000;Parent=MsG0780039387.01.T01
Chr7 CDS 63257224 63257457 63257224 ID=MsG0780039387.01.T01:cds;Parent=MsG0780039387.01.T01
Chr7 CDS 63257630 63257827 63257630 ID=MsG0780039387.01.T01:cds;Parent=MsG0780039387.01.T01
Chr7 CDS 63258093 63258167 63258093 ID=MsG0780039387.01.T01:cds;Parent=MsG0780039387.01.T01
Gene Sequence

>MsG0780039387.01.T01

TTGCATGAATATTTCTTTGTTAAATACAGTTTGAAATGCAAATGTGGCATGCATAATTCATTTTCGTTTGCCGTTCTTCATACTGCAGAACTAGGCAGAATACCAGATGTGTGCGCACTTTGTGAGGAATATACTAGCAAGGCACTTGATTATATAAATGAAAACAAGACTCAGAGTGAGATCATCGATATTCTTCATAATACTTGTCACCAGCTTCACACTTTTGAGAAGAAGTGCATCAACTTGGTGGACTATTATCTGCCACTTTTCTTCTCAGAAATGACCTCAGTTCAGCCTGGAGATTTCTGCAATAAGGTCAATCTCTGTCAGAACATTGCTAATATTTCCTTAAAAGTTCAAGAAAATACATGTGAGTTTTGCGAAGAAACTGTTTCATCACTATTGGATAAGATAAAAGATCCTGACACAGAGCTGGAGATAATTGAGATACTACTGAAAGTGTGCACTTCAGTGGACAAGTTTGGGAGCAAGGTAAGAAAAATCTGA
Protein sequence

>MsG0780039387.01.T01

LHEYFFVKYSLKCKCGMHNSFSFAVLHTAELGRIPDVCALCEEYTSKALDYINENKTQSEIIDILHNTCHQLHTFEKKCINLVDYYLPLFFSEMTSVQPGDFCNKVNLCQNIANISLKVQENTCEFCEETVSSLLDKIKDPDTELEIIEILLKVCTSVDKFGSKVRKI*