AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024678.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024678.01.T01 MTR_5g014260 99.398 166 1 0 1 166 1 166 1.42e-120 337
MsG0580024678.01.T01 MTR_5g014260 99.200 125 1 0 1 125 1 125 2.38e-87 252
MsG0580024678.01.T01 MTR_4g084110 59.880 167 54 3 1 166 1 155 2.93e-69 207
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024678.01.T01 AT1G32470 83.133 166 28 0 1 166 1 166 4.86e-94 270
MsG0580024678.01.T01 AT2G35370 83.133 166 27 1 1 166 1 165 2.33e-89 258
MsG0580024678.01.T01 AT2G35120 58.929 168 55 3 1 166 1 156 1.58e-64 195

Find 56 sgRNAs with CRISPR-Local

Find 97 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAAATTAATTTCAATATA+TGG 0.157093 5:-8038051 MsG0580024678.01.T01:exon
ATACATCCAAGATAATATTT+TGG 0.203698 5:-8039523 MsG0580024678.01.T01:five_prime_UTR
GTAACTGAACCGCCAGGTTC+TGG 0.305688 5:+8038651 None:intergenic
TCAAGTGAAAATAATAATAA+TGG 0.316896 5:+8037853 None:intergenic
TGAAATTAATTTCAATATAT+GGG 0.339204 5:-8038050 MsG0580024678.01.T01:three_prime_UTR
ATCATCCATCCATCTTCATA+TGG 0.339685 5:+8038164 None:intergenic
GTTACAAAGGGTAACGGTTT+CGG 0.348504 5:-8038633 MsG0580024678.01.T01:CDS
AAACATCTGGAGATGGAAAA+AGG 0.352185 5:+8039305 None:intergenic
TCAACAATCTCACCAGATAT+TGG 0.373303 5:+8038570 None:intergenic
ATCTCCAGATGTTTCTCAAC+TGG 0.379569 5:-8039296 MsG0580024678.01.T01:intron
TCTTGGAGAGGTTGTGTTTG+TGG 0.407524 5:-8038679 MsG0580024678.01.T01:CDS
CGGAGCTGTTGAAAGTGTTA+AGG 0.409242 5:-8038613 MsG0580024678.01.T01:CDS
GATGTAAACTCTCCAATATC+TGG 0.410884 5:-8038582 MsG0580024678.01.T01:CDS
ATCTGAATTAGAAGCCTTGT+TGG 0.425384 5:-8038120 MsG0580024678.01.T01:CDS
AAAATATTATCTTGGATGTA+TGG 0.426151 5:+8039525 None:intergenic
AGTATGCATCTTCACATGAA+TGG 0.426720 5:-8039172 MsG0580024678.01.T01:CDS
TAACAATGGCACTGAGGATG+TGG 0.450009 5:-8039391 MsG0580024678.01.T01:exon
AGAAGAGAGTTTGAGAGCAT+TGG 0.453540 5:+8039355 None:intergenic
GATAAGCTCACCGGAAAACC+TGG 0.464278 5:-8038540 MsG0580024678.01.T01:CDS
TGTTGGTTGCAGGACCATCT+TGG 0.467787 5:-8038696 MsG0580024678.01.T01:intron
GAAGGCTCAGTAGCCACTAT+TGG 0.468590 5:-8039140 MsG0580024678.01.T01:CDS
TCTGAATTAGAAGCCTTGTT+GGG 0.485713 5:-8038119 MsG0580024678.01.T01:CDS
TCATCCATCCATCTTCATAT+GGG 0.487407 5:+8038165 None:intergenic
AATACCAGTTGAGAAACATC+TGG 0.490504 5:+8039292 None:intergenic
GTATGCATCTTCACATGAAT+GGG 0.495142 5:-8039171 MsG0580024678.01.T01:CDS
AGAAGCCTTGTTGGGTGCAA+AGG 0.506140 5:-8038111 MsG0580024678.01.T01:CDS
AATGAATGAATTACCAGGCC+AGG 0.510526 5:+8038522 None:intergenic
TTTGTGGAGCTTCCAGAACC+TGG 0.512073 5:-8038663 MsG0580024678.01.T01:CDS
TCTAATTCAGATGGATCACT+TGG 0.513292 5:+8038131 None:intergenic
TCAATGAAATGATGAGATAG+AGG 0.517861 5:+8039464 None:intergenic
TGGTATCACTGACCATGCTC+AGG 0.528384 5:-8039120 MsG0580024678.01.T01:intron
GCTCACCGGAAAACCTGGCC+TGG 0.529026 5:-8038535 MsG0580024678.01.T01:intron
AACTCAAGCCCATATGAAGA+TGG 0.530377 5:-8038173 MsG0580024678.01.T01:CDS
AGGGGAGAGATGTAATCTTG+AGG 0.555174 5:+8039328 None:intergenic
CATGAATGGGTGAAGCATGA+AGG 0.562003 5:-8039158 MsG0580024678.01.T01:CDS
CCCTTTGTAACTGAACCGCC+AGG 0.564034 5:+8038645 None:intergenic
CAAGCCCATATGAAGATGGA+TGG 0.567565 5:-8038169 MsG0580024678.01.T01:CDS
AACAAGGCTTCTAATTCAGA+TGG 0.567704 5:+8038122 None:intergenic
ACCTGGCGGTTCAGTTACAA+AGG 0.580268 5:-8038646 MsG0580024678.01.T01:CDS
AGTTGAGAAACATCTGGAGA+TGG 0.581853 5:+8039298 None:intergenic
GTTGCAGGACCATCTTGGAG+AGG 0.582318 5:-8038691 MsG0580024678.01.T01:intron
GGTTCAGTTACAAAGGGTAA+CGG 0.588941 5:-8038639 MsG0580024678.01.T01:CDS
CAAACACAACCTCTCCAAGA+TGG 0.593260 5:+8038682 None:intergenic
GAGGTTAATGATAAGCTCAC+CGG 0.595144 5:-8038549 MsG0580024678.01.T01:CDS
AATATCTGGTGAGATTGTTG+AGG 0.595757 5:-8038568 MsG0580024678.01.T01:CDS
AACAATGGCACTGAGGATGT+GGG 0.614850 5:-8039390 MsG0580024678.01.T01:exon
CCTGGCGGTTCAGTTACAAA+GGG 0.619186 5:-8038645 MsG0580024678.01.T01:CDS
TGTCGGTAACAATAATAGCA+AGG 0.624071 5:+8037940 None:intergenic
ATGGTCAGTGATACCAATAG+TGG 0.628719 5:+8039127 None:intergenic
GTACTCCTTTGCACCCAACA+AGG 0.634212 5:+8038106 None:intergenic
GAGTGCACAAATAAAAGATG+AGG 0.636975 5:-8039561 MsG0580024678.01.T01:five_prime_UTR
GCAGTTAACTAACCTGAGCA+TGG 0.648601 5:+8039108 None:intergenic
CAAACAAAGAAGCTTAACAA+TGG 0.654959 5:-8039405 MsG0580024678.01.T01:exon
AGACTGACACACTAAAGTGT+CGG 0.671974 5:+8037923 None:intergenic
GTGGAGCTTCCAGAACCTGG+CGG 0.691995 5:-8038660 MsG0580024678.01.T01:CDS
GAAGCTTAACAATGGCACTG+AGG 0.716107 5:-8039397 MsG0580024678.01.T01:exon

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGAAATTAATTTCAATATAT+GGG - Chr5:8039377-8039396 MsG0580024678.01.T01:CDS 10.0%
!! TTGAAATTAATTTCAATATA+TGG - Chr5:8039376-8039395 MsG0580024678.01.T01:CDS 10.0%
!!! TATCCATTATTATTATTTTC+AGG - Chr5:8039571-8039590 MsG0580024678.01.T01:five_prime_UTR 15.0%
!! AAAATATTATCTTGGATGTA+TGG + Chr5:8037905-8037924 None:intergenic 20.0%
!! GTACATTTATGAAAAATAAG+CGG - Chr5:8039072-8039091 MsG0580024678.01.T01:intron 20.0%
!!! ATACATCCAAGATAATATTT+TGG - Chr5:8037904-8037923 MsG0580024678.01.T01:three_prime_UTR 20.0%
!!! ATTCGAATTAGTTTGTTTTT+GGG - Chr5:8038431-8038450 MsG0580024678.01.T01:intron 20.0%
!!! TACATCCAAGATAATATTTT+GGG - Chr5:8037905-8037924 MsG0580024678.01.T01:three_prime_UTR 20.0%
!!! TATATAAATTTTTGCAGTGT+TGG - Chr5:8038223-8038242 MsG0580024678.01.T01:intron 20.0%
!!! TATTCGAATTAGTTTGTTTT+TGG - Chr5:8038430-8038449 MsG0580024678.01.T01:intron 20.0%
! AATCATTACAACTTAAGTGA+AGG - Chr5:8038683-8038702 MsG0580024678.01.T01:CDS 25.0%
! GTTTAATTAATTGCACTTGT+TGG - Chr5:8038714-8038733 MsG0580024678.01.T01:intron 25.0%
! TTAGACTTTAATTACTGTCT+AGG - Chr5:8038542-8038561 MsG0580024678.01.T01:CDS 25.0%
!! CTTTTCCCAAAATATTATCT+TGG + Chr5:8037913-8037932 None:intergenic 25.0%
!! GCTAGTATTTTATCTTTTGT+CGG + Chr5:8038642-8038661 None:intergenic 25.0%
!!! ATTAACTCACTCTCATTTTT+AGG - Chr5:8038925-8038944 MsG0580024678.01.T01:intron 25.0%
!!! CAAGATAATATTTTGGGAAA+AGG - Chr5:8037911-8037930 MsG0580024678.01.T01:three_prime_UTR 25.0%
ACATATTGTGGAGAATGTTA+AGG + Chr5:8038354-8038373 None:intergenic 30.0%
ATTGAGCTAAGAGTTAAATG+AGG - Chr5:8038595-8038614 MsG0580024678.01.T01:CDS 30.0%
CAAACAAAGAAGCTTAACAA+TGG - Chr5:8038022-8038041 MsG0580024678.01.T01:three_prime_UTR 30.0%
CATTCAACTTGATAGGAAAA+AGG + Chr5:8038177-8038196 None:intergenic 30.0%
GAGTTAATGAATGAATTACC+AGG + Chr5:8038913-8038932 None:intergenic 30.0%
TCAATGAAATGATGAGATAG+AGG + Chr5:8037966-8037985 None:intergenic 30.0%
!! TAAATTTTTGCAGTGTTGGA+TGG - Chr5:8038227-8038246 MsG0580024678.01.T01:intron 30.0%
!!! GAATTAGTTTGTTTTTGGGT+CGG - Chr5:8038435-8038454 MsG0580024678.01.T01:intron 30.0%
AAACATCTGGAGATGGAAAA+AGG + Chr5:8038125-8038144 None:intergenic 35.0%
AACAAGGCTTCTAATTCAGA+TGG + Chr5:8039308-8039327 None:intergenic 35.0%
AAGACATAAGTGAACTAGAG+GGG - Chr5:8039050-8039069 MsG0580024678.01.T01:intron 35.0%
AATACCAGTTGAGAAACATC+TGG + Chr5:8038138-8038157 None:intergenic 35.0%
AATATCTGGTGAGATTGTTG+AGG - Chr5:8038859-8038878 MsG0580024678.01.T01:intron 35.0%
AGTATGCATCTTCACATGAA+TGG - Chr5:8038255-8038274 MsG0580024678.01.T01:intron 35.0%
ATCATCCATCCATCTTCATA+TGG + Chr5:8039266-8039285 None:intergenic 35.0%
CAACTTGATAGGAAAAAGGA+GGG + Chr5:8038173-8038192 None:intergenic 35.0%
CCACATTCATTCAACTTGAT+AGG + Chr5:8038184-8038203 None:intergenic 35.0%
GAAGACATAAGTGAACTAGA+GGG - Chr5:8039049-8039068 MsG0580024678.01.T01:intron 35.0%
GAGTGCACAAATAAAAGATG+AGG - Chr5:8037866-8037885 MsG0580024678.01.T01:three_prime_UTR 35.0%
GATGTAAACTCTCCAATATC+TGG - Chr5:8038845-8038864 MsG0580024678.01.T01:intron 35.0%
GTATGCATCTTCACATGAAT+GGG - Chr5:8038256-8038275 MsG0580024678.01.T01:intron 35.0%
TATTGTGGAGAATGTTAAGG+AGG + Chr5:8038351-8038370 None:intergenic 35.0%
TCAACAATCTCACCAGATAT+TGG + Chr5:8038860-8038879 None:intergenic 35.0%
TCAACTTGATAGGAAAAAGG+AGG + Chr5:8038174-8038193 None:intergenic 35.0%
TCATCCATCCATCTTCATAT+GGG + Chr5:8039265-8039284 None:intergenic 35.0%
TCTAATTCAGATGGATCACT+TGG + Chr5:8039299-8039318 None:intergenic 35.0%
TGAAGACATAAGTGAACTAG+AGG - Chr5:8039048-8039067 MsG0580024678.01.T01:intron 35.0%
TGTCGGTAACAATAATAGCA+AGG + Chr5:8039490-8039509 None:intergenic 35.0%
! ATCTGAATTAGAAGCCTTGT+TGG - Chr5:8039307-8039326 MsG0580024678.01.T01:CDS 35.0%
! GGAGTACACAAAATTTTGTG+AGG - Chr5:8039337-8039356 MsG0580024678.01.T01:CDS 35.0%
!! CCTATCAAGTTGAATGAATG+TGG - Chr5:8038181-8038200 MsG0580024678.01.T01:intron 35.0%
!! TCTGAATTAGAAGCCTTGTT+GGG - Chr5:8039308-8039327 MsG0580024678.01.T01:CDS 35.0%
AACTCAAGCCCATATGAAGA+TGG - Chr5:8039254-8039273 MsG0580024678.01.T01:intron 40.0%
AATCTCACAGTTCACTTGTG+GGG + Chr5:8038406-8038425 None:intergenic 40.0%
AATGAATGAATTACCAGGCC+AGG + Chr5:8038908-8038927 None:intergenic 40.0%
AGACTGACACACTAAAGTGT+CGG + Chr5:8039507-8039526 None:intergenic 40.0%
AGTTGAGAAACATCTGGAGA+TGG + Chr5:8038132-8038151 None:intergenic 40.0%
ATCTCCAGATGTTTCTCAAC+TGG - Chr5:8038131-8038150 MsG0580024678.01.T01:CDS 40.0%
ATCTGGAGATGGAAAAAGGA+GGG + Chr5:8038121-8038140 None:intergenic 40.0%
ATGGTCAGTGATACCAATAG+TGG + Chr5:8038303-8038322 None:intergenic 40.0%
CAATCTCACAGTTCACTTGT+GGG + Chr5:8038407-8038426 None:intergenic 40.0%
GAGGTTAATGATAAGCTCAC+CGG - Chr5:8038878-8038897 MsG0580024678.01.T01:intron 40.0%
GGTTCAGTTACAAAGGGTAA+CGG - Chr5:8038788-8038807 MsG0580024678.01.T01:intron 40.0%
TCAATCTCACAGTTCACTTG+TGG + Chr5:8038408-8038427 None:intergenic 40.0%
! AGAAGAGAGTTTGAGAGCAT+TGG + Chr5:8038075-8038094 None:intergenic 40.0%
! GTTACAAAGGGTAACGGTTT+CGG - Chr5:8038794-8038813 MsG0580024678.01.T01:intron 40.0%
! TAATTGCACTTGTTGGTTGC+AGG - Chr5:8038721-8038740 MsG0580024678.01.T01:intron 40.0%
AGGGGAGAGATGTAATCTTG+AGG + Chr5:8038102-8038121 None:intergenic 45.0%
ATCTCACAGTTCACTTGTGG+GGG + Chr5:8038405-8038424 None:intergenic 45.0%
CAAACACAACCTCTCCAAGA+TGG + Chr5:8038748-8038767 None:intergenic 45.0%
CAAGCCCATATGAAGATGGA+TGG - Chr5:8039258-8039277 MsG0580024678.01.T01:intron 45.0%
CATCTGGAGATGGAAAAAGG+AGG + Chr5:8038122-8038141 None:intergenic 45.0%
CATGAATGGGTGAAGCATGA+AGG - Chr5:8038269-8038288 MsG0580024678.01.T01:intron 45.0%
CGCTTTGCATGGACATATTG+TGG + Chr5:8038366-8038385 None:intergenic 45.0%
GAAGCTTAACAATGGCACTG+AGG - Chr5:8038030-8038049 MsG0580024678.01.T01:three_prime_UTR 45.0%
GCAGTTAACTAACCTGAGCA+TGG + Chr5:8038322-8038341 None:intergenic 45.0%
TCTGGAGATGGAAAAAGGAG+GGG + Chr5:8038120-8038139 None:intergenic 45.0%
TCTTGGAGAGGTTGTGTTTG+TGG - Chr5:8038748-8038767 MsG0580024678.01.T01:intron 45.0%
TGGAGAATGTTAAGGAGGAG+AGG + Chr5:8038346-8038365 None:intergenic 45.0%
! AACAATGGCACTGAGGATGT+GGG - Chr5:8038037-8038056 MsG0580024678.01.T01:three_prime_UTR 45.0%
! AATTACCAGGCCAGGTTTTC+CGG + Chr5:8038900-8038919 None:intergenic 45.0%
! TAACAATGGCACTGAGGATG+TGG - Chr5:8038036-8038055 MsG0580024678.01.T01:three_prime_UTR 45.0%
!! CAAAGCGCTCTGGCTTTAAA+TGG - Chr5:8038379-8038398 MsG0580024678.01.T01:intron 45.0%
!! CGGAGCTGTTGAAAGTGTTA+AGG - Chr5:8038814-8038833 MsG0580024678.01.T01:intron 45.0%
ACCTGGCGGTTCAGTTACAA+AGG - Chr5:8038781-8038800 MsG0580024678.01.T01:intron 50.0%
CCTGGCGGTTCAGTTACAAA+GGG - Chr5:8038782-8038801 MsG0580024678.01.T01:intron 50.0%
GAAGGCTCAGTAGCCACTAT+TGG - Chr5:8038287-8038306 MsG0580024678.01.T01:intron 50.0%
GATAAGCTCACCGGAAAACC+TGG - Chr5:8038887-8038906 MsG0580024678.01.T01:intron 50.0%
GTACTCCTTTGCACCCAACA+AGG + Chr5:8039324-8039343 None:intergenic 50.0%
TGGTATCACTGACCATGCTC+AGG - Chr5:8038307-8038326 MsG0580024678.01.T01:intron 50.0%
TTTGTGGAGCTTCCAGAACC+TGG - Chr5:8038764-8038783 MsG0580024678.01.T01:intron 50.0%
! TAAAGCCAGAGCGCTTTGCA+TGG + Chr5:8038377-8038396 None:intergenic 50.0%
! TATGTCCATGCAAAGCGCTC+TGG - Chr5:8038369-8038388 MsG0580024678.01.T01:intron 50.0%
! TGTTGGTTGCAGGACCATCT+TGG - Chr5:8038731-8038750 MsG0580024678.01.T01:intron 50.0%
!! AGAAGCCTTGTTGGGTGCAA+AGG - Chr5:8039316-8039335 MsG0580024678.01.T01:CDS 50.0%
CCCTTTGTAACTGAACCGCC+AGG + Chr5:8038785-8038804 None:intergenic 55.0%
GTAACTGAACCGCCAGGTTC+TGG + Chr5:8038779-8038798 None:intergenic 55.0%
GTTGCAGGACCATCTTGGAG+AGG - Chr5:8038736-8038755 MsG0580024678.01.T01:intron 55.0%
GTGGAGCTTCCAGAACCTGG+CGG - Chr5:8038767-8038786 MsG0580024678.01.T01:intron 60.0%
GCTCACCGGAAAACCTGGCC+TGG - Chr5:8038892-8038911 MsG0580024678.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 8037859 8039590 8037859 ID=MsG0580024678.01;Name=MsG0580024678.01
Chr5 mRNA 8037859 8039590 8037859 ID=MsG0580024678.01.T01;Parent=MsG0580024678.01;Name=MsG0580024678.01.T01;_AED=0.25;_eAED=0.25;_QI=182|1|1|1|1|1|4|211|166
Chr5 exon 8037859 8038198 8037859 ID=MsG0580024678.01.T01:exon:280;Parent=MsG0580024678.01.T01
Chr5 exon 8038536 8038706 8038536 ID=MsG0580024678.01.T01:exon:279;Parent=MsG0580024678.01.T01
Chr5 exon 8039121 8039209 8039121 ID=MsG0580024678.01.T01:exon:278;Parent=MsG0580024678.01.T01
Chr5 exon 8039297 8039590 8039297 ID=MsG0580024678.01.T01:exon:277;Parent=MsG0580024678.01.T01
Chr5 five_prime_UTR 8039409 8039590 8039409 ID=MsG0580024678.01.T01:five_prime_utr;Parent=MsG0580024678.01.T01
Chr5 CDS 8039297 8039408 8039297 ID=MsG0580024678.01.T01:cds;Parent=MsG0580024678.01.T01
Chr5 CDS 8039121 8039209 8039121 ID=MsG0580024678.01.T01:cds;Parent=MsG0580024678.01.T01
Chr5 CDS 8038536 8038706 8038536 ID=MsG0580024678.01.T01:cds;Parent=MsG0580024678.01.T01
Chr5 CDS 8038070 8038198 8038070 ID=MsG0580024678.01.T01:cds;Parent=MsG0580024678.01.T01
Chr5 three_prime_UTR 8037859 8038069 8037859 ID=MsG0580024678.01.T01:three_prime_utr;Parent=MsG0580024678.01.T01
Gene Sequence

>MsG0580024678.01.T01

ATGGCACTGAGGATGTGGGCTTCTTCAACTGCCAATGCTCTCAAACTCTCTTCTTCTTCCTCAAGATTACATCTCTCCCCTCCTTTTTCCATCTCCAGATGTTTCTCAACTGTGTTGGATGGACTCAAGTATGCATCTTCACATGAATGGGTGAAGCATGAAGGCTCAGTAGCCACTATTGGTATCACTGACCATGCTCAGGACCATCTTGGAGAGGTTGTGTTTGTGGAGCTTCCAGAACCTGGCGGTTCAGTTACAAAGGGTAACGGTTTCGGAGCTGTTGAAAGTGTTAAGGCAACAAGTGATGTAAACTCTCCAATATCTGGTGAGATTGTTGAGGTTAATGATAAGCTCACCGGAAAACCTGGCCTGATCAACTCAAGCCCATATGAAGATGGATGGATGATCAAAATAAAGCCAAGTGATCCATCTGAATTAGAAGCCTTGTTGGGTGCAAAGGAGTACACAAAATTTTGTGAGGAAGAAGATGCTGCACATTGA

Protein sequence

>MsG0580024678.01.T01

MALRMWASSTANALKLSSSSSRLHLSPPFSISRCFSTVLDGLKYASSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGGSVTKGNGFGAVESVKATSDVNSPISGEIVEVNDKLTGKPGLINSSPYEDGWMIKIKPSDPSELEALLGAKEYTKFCEEEDAAH*