AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018911.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018911.01.T01 MTR_4g019910 98.361 244 4 0 3 246 12 255 0.0 507
MsG0480018911.01.T01 MTR_8g099610 28.191 188 112 5 54 241 107 271 2.28e-18 82.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018911.01.T01 AT3G09250 61.658 193 68 3 58 245 39 230 1.76e-85 254
MsG0480018911.01.T01 AT3G09250 61.658 193 68 3 58 245 53 244 2.68e-85 254
MsG0480018911.01.T01 AT3G09250 62.424 165 61 1 71 234 55 219 5.36e-76 231
MsG0480018911.01.T01 AT4G10925 28.191 188 112 6 54 241 55 219 1.41e-17 79.3
MsG0480018911.01.T01 AT4G10925 28.191 188 112 6 54 241 55 219 1.41e-17 79.3
MsG0480018911.01.T01 AT4G10925 28.191 188 112 6 54 241 55 219 1.41e-17 79.3
MsG0480018911.01.T01 AT4G10925 28.191 188 112 6 54 241 55 219 1.41e-17 79.3
MsG0480018911.01.T01 AT4G10925 28.191 188 112 6 54 241 55 219 1.41e-17 79.3
MsG0480018911.01.T01 AT4G23960 30.645 124 75 3 126 246 73 188 1.99e-12 64.3

Find 52 sgRNAs with CRISPR-Local

Find 88 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTAACTTATTTGGATTAA+AGG 0.114308 4:+11550098 None:intergenic
ATCGATGAGATTACTGAAAA+TGG 0.205967 4:+11548841 None:intergenic
ATGCTAAAGCAGCAGAAATA+AGG 0.234285 4:-11549512 MsG0480018911.01.T01:CDS
AGCTTTGAGATGTGGATTAA+TGG 0.250409 4:-11548966 MsG0480018911.01.T01:three_prime_UTR
GATAGCAACACAGCAGTATT+TGG 0.251611 4:-11549465 MsG0480018911.01.T01:CDS
CAAGGAGTTCAGTTTCTTGC+CGG 0.285437 4:-11550169 MsG0480018911.01.T01:CDS
TTGAGAGCTGGGATTTCGTC+TGG 0.310363 4:-11549311 MsG0480018911.01.T01:CDS
ATTAGATGAAAACACTTTAG+AGG 0.343894 4:-11549568 MsG0480018911.01.T01:CDS
TCTTCTAGTTTAATTTGTAA+TGG 0.373055 4:+11549273 None:intergenic
CTCAATAACATCATCATAAC+CGG 0.379838 4:+11549329 None:intergenic
GTTCAGTTTCTTGCCGGGTT+CGG 0.410478 4:-11550163 MsG0480018911.01.T01:CDS
GCAAAGCATGTGGGCGAAAA+CGG 0.415061 4:-11549391 MsG0480018911.01.T01:CDS
TGCTAAAGCAGCAGAAATAA+GGG 0.421596 4:-11549511 MsG0480018911.01.T01:CDS
TGATGATGTTATTGAGAGCT+GGG 0.468045 4:-11549322 MsG0480018911.01.T01:CDS
TGCAACTTGAGGCATCGATT+AGG 0.474816 4:+11550033 None:intergenic
ATGATGATGTTATTGAGAGC+TGG 0.479218 4:-11549323 MsG0480018911.01.T01:CDS
ATCTTCTCATTTGCAACTTG+AGG 0.480992 4:+11550022 None:intergenic
ATGTATCAATTCATATCTAC+TGG 0.481405 4:+11549102 None:intergenic
CCTGGTATGAAAGGAATATC+CGG 0.485373 4:-11549348 MsG0480018911.01.T01:CDS
AAATTGTTAAAATGAGTAAG+AGG 0.486196 4:+11549055 None:intergenic
AATGTGTTCGAGAGGATCAA+TGG 0.487074 4:-11549156 MsG0480018911.01.T01:CDS
TTTCGCCCACATGCTTTGCA+TGG 0.490872 4:+11549395 None:intergenic
GATGAAGTGCCTCCAGCCAC+AGG 0.493851 4:-11548937 MsG0480018911.01.T01:three_prime_UTR
CCGGATATTCCTTTCATACC+AGG 0.494406 4:+11549348 None:intergenic
AAGGAGTTCAGTTTCTTGCC+GGG 0.510954 4:-11550168 MsG0480018911.01.T01:CDS
GTTTCTGTCAGGAACACGAC+AGG 0.511763 4:-11549640 MsG0480018911.01.T01:intron
ACATGCTTTGCATGGCTGCA+AGG 0.515179 4:+11549403 None:intergenic
AGTTCATGCTAGAGGGGACA+TGG 0.526900 4:-11549244 MsG0480018911.01.T01:CDS
GACATTAAAGTTCATGCTAG+AGG 0.527041 4:-11549252 MsG0480018911.01.T01:CDS
TGAGAGCTGGGATTTCGTCT+GGG 0.529672 4:-11549310 MsG0480018911.01.T01:CDS
GGGACTTTCTTCTACTCTCA+AGG 0.531322 4:-11550187 MsG0480018911.01.T01:CDS
GAGGTATGCTGTGTTCATCC+TGG 0.542894 4:-11549366 MsG0480018911.01.T01:CDS
TTGCAGCCATGCAAAGCATG+TGG 0.555862 4:-11549401 MsG0480018911.01.T01:CDS
ACATTAAAGTTCATGCTAGA+GGG 0.562565 4:-11549251 MsG0480018911.01.T01:CDS
AAGCTATTGATGACCGAACC+CGG 0.564308 4:+11550150 None:intergenic
CATGTGGGCGAAAACGGACG+AGG 0.571421 4:-11549385 MsG0480018911.01.T01:CDS
TCTTTAGAAGCTTTGAGATG+TGG 0.575010 4:-11548974 MsG0480018911.01.T01:three_prime_UTR
TGCAGCCATGCAAAGCATGT+GGG 0.591182 4:-11549400 MsG0480018911.01.T01:CDS
GTTAAAATGAGTAAGAGGAA+AGG 0.593250 4:+11549060 None:intergenic
CATGGGGTATGTTACATGCA+TGG 0.595261 4:-11549226 MsG0480018911.01.T01:CDS
GTTCATGCTAGAGGGGACAT+GGG 0.595900 4:-11549243 MsG0480018911.01.T01:CDS
TTGTAACGAATGTGTTCGAG+AGG 0.614427 4:-11549164 MsG0480018911.01.T01:CDS
CATTAAAGTTCATGCTAGAG+GGG 0.624713 4:-11549250 MsG0480018911.01.T01:CDS
TGTGTTCATCCTGGTATGAA+AGG 0.626463 4:-11549357 MsG0480018911.01.T01:CDS
ATGAAGTGCCTCCAGCCACA+GGG 0.630568 4:-11548936 MsG0480018911.01.T01:three_prime_UTR
ACGAAAGGAGGAAGATGGGG+AGG 0.630749 4:-11549192 MsG0480018911.01.T01:CDS
AAAACGAAAGGAGGAAGATG+GGG 0.635971 4:-11549195 MsG0480018911.01.T01:CDS
TTTCTGTCAGGAACACGACA+GGG 0.644482 4:-11549639 MsG0480018911.01.T01:intron
TTCATGCTAGAGGGGACATG+GGG 0.652035 4:-11549242 MsG0480018911.01.T01:CDS
TCGAGAGGATCAATGGCGAG+TGG 0.664074 4:-11549149 MsG0480018911.01.T01:CDS
GCTACAGAATGCAATTGCTG+AGG 0.665844 4:-11549541 MsG0480018911.01.T01:CDS
AGAGAGCATGTTGAGCAGTG+AGG 0.685513 4:-11549598 MsG0480018911.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATACAGAAAAAATTTCT+AGG + Chr4:11550003-11550022 None:intergenic 15.0%
!!! TAATTTTATAAAATTGCCAT+TGG - Chr4:11549362-11549381 MsG0480018911.01.T01:CDS 15.0%
!! AAATTGTTAAAATGAGTAAG+AGG + Chr4:11549972-11549991 None:intergenic 20.0%
!! AACTAACTTATTTGGATTAA+AGG + Chr4:11548929-11548948 None:intergenic 20.0%
!!! AATCCAAATAAGTTAGTTTT+TGG - Chr4:11548931-11548950 MsG0480018911.01.T01:three_prime_UTR 20.0%
!!! TCATTTTAACAATTTTGTTG+TGG - Chr4:11549977-11549996 MsG0480018911.01.T01:intron 20.0%
!!! TCTTCTAGTTTAATTTGTAA+TGG + Chr4:11549754-11549773 None:intergenic 20.0%
! AGTACCAATATGAATCAAAA+GGG + Chr4:11549051-11549070 None:intergenic 25.0%
! ATGGAATTTGTAAAAACGAA+AGG - Chr4:11549817-11549836 MsG0480018911.01.T01:intron 25.0%
! ATGTATCAATTCATATCTAC+TGG + Chr4:11549925-11549944 None:intergenic 25.0%
! ATTAGATGAAAACACTTTAG+AGG - Chr4:11549456-11549475 MsG0480018911.01.T01:CDS 25.0%
! TAGTACCAATATGAATCAAA+AGG + Chr4:11549052-11549071 None:intergenic 25.0%
! TTGCCAAAAACTAACTTATT+TGG + Chr4:11548937-11548956 None:intergenic 25.0%
!! TTATAAGTACTGTCAAATAG+CGG - Chr4:11549176-11549195 MsG0480018911.01.T01:CDS 25.0%
!! TTTTATGATTCATTCAGGAA+TGG - Chr4:11549595-11549614 MsG0480018911.01.T01:CDS 25.0%
!!! TACAAAGTACTGTCAAATAA+CGG - Chr4:11549267-11549286 MsG0480018911.01.T01:CDS 25.0%
!!! TTCATATTGGTACTACTTTT+TGG - Chr4:11549057-11549076 MsG0480018911.01.T01:three_prime_UTR 25.0%
ACATTAAAGTTCATGCTAGA+GGG - Chr4:11549773-11549792 MsG0480018911.01.T01:intron 30.0%
ATAGTCAGTACAGAAAACTT+AGG + Chr4:11549133-11549152 None:intergenic 30.0%
ATCGATGAGATTACTGAAAA+TGG + Chr4:11550186-11550205 None:intergenic 30.0%
CTCAATAACATCATCATAAC+CGG + Chr4:11549698-11549717 None:intergenic 30.0%
GAATTTGTAAAAACGAAAGG+AGG - Chr4:11549820-11549839 MsG0480018911.01.T01:intron 30.0%
GTCCAATTATATTTGCATCT+AGG - Chr4:11549105-11549124 MsG0480018911.01.T01:exon 30.0%
GTTAAAATGAGTAAGAGGAA+AGG + Chr4:11549967-11549986 None:intergenic 30.0%
TAGTCAGTACAGAAAACTTA+GGG + Chr4:11549132-11549151 None:intergenic 30.0%
!! GCAAGTTTTATGATTCATTC+AGG - Chr4:11549590-11549609 MsG0480018911.01.T01:CDS 30.0%
!!! TTTGGCAAAAGTTTTGAAAG+AGG - Chr4:11548949-11548968 MsG0480018911.01.T01:three_prime_UTR 30.0%
AAAAACGAAAGGAGGAAGAT+GGG - Chr4:11549828-11549847 MsG0480018911.01.T01:intron 35.0%
AGTCAGTACAGAAAACTTAG+GGG + Chr4:11549131-11549150 None:intergenic 35.0%
ATCTTCTCATTTGCAACTTG+AGG + Chr4:11549005-11549024 None:intergenic 35.0%
ATGCTAAAGCAGCAGAAATA+AGG - Chr4:11549512-11549531 MsG0480018911.01.T01:CDS 35.0%
CATTAAAGTTCATGCTAGAG+GGG - Chr4:11549774-11549793 MsG0480018911.01.T01:intron 35.0%
GACATTAAAGTTCATGCTAG+AGG - Chr4:11549772-11549791 MsG0480018911.01.T01:intron 35.0%
GGAAAAACATGTTCATGGTT+AGG - Chr4:11550109-11550128 MsG0480018911.01.T01:CDS 35.0%
GGCCTAGATGCAAATATAAT+TGG + Chr4:11549110-11549129 None:intergenic 35.0%
TAAAAACGAAAGGAGGAAGA+TGG - Chr4:11549827-11549846 MsG0480018911.01.T01:intron 35.0%
TGCTAAAGCAGCAGAAATAA+GGG - Chr4:11549513-11549532 MsG0480018911.01.T01:CDS 35.0%
TTAATTGCGACGAAGAATAG+AGG + Chr4:11549336-11549355 None:intergenic 35.0%
TTGTACTAAATCGTGTATCG+TGG + Chr4:11549252-11549271 None:intergenic 35.0%
! ATGATGATGTTATTGAGAGC+TGG - Chr4:11549701-11549720 MsG0480018911.01.T01:intron 35.0%
! TGATGATGTTATTGAGAGCT+GGG - Chr4:11549702-11549721 MsG0480018911.01.T01:intron 35.0%
!! AGCTTTGAGATGTGGATTAA+TGG - Chr4:11550058-11550077 MsG0480018911.01.T01:CDS 35.0%
!! CGAACCCTTTTGATTCATAT+TGG - Chr4:11549044-11549063 MsG0480018911.01.T01:three_prime_UTR 35.0%
!! CTGTGTTGCTATCTTTTTGT+AGG + Chr4:11549552-11549571 None:intergenic 35.0%
!! GTTCATGGTTAGGTTTTATG+TGG - Chr4:11550119-11550138 MsG0480018911.01.T01:CDS 35.0%
!! TCTTTAGAAGCTTTGAGATG+TGG - Chr4:11550050-11550069 MsG0480018911.01.T01:CDS 35.0%
AAAACGAAAGGAGGAAGATG+GGG - Chr4:11549829-11549848 MsG0480018911.01.T01:intron 40.0%
AATCAAAAGGGTTCGAGCAA+AGG + Chr4:11549039-11549058 None:intergenic 40.0%
AATGTGTTCGAGAGGATCAA+TGG - Chr4:11549868-11549887 MsG0480018911.01.T01:intron 40.0%
CACAGGGAAAAACATGTTCA+TGG - Chr4:11550104-11550123 MsG0480018911.01.T01:CDS 40.0%
CCTGGTATGAAAGGAATATC+CGG - Chr4:11549676-11549695 MsG0480018911.01.T01:intron 40.0%
CGTGTATCGTGGAATAATAG+TGG + Chr4:11549241-11549260 None:intergenic 40.0%
GATAGCAACACAGCAGTATT+TGG - Chr4:11549559-11549578 MsG0480018911.01.T01:CDS 40.0%
TGTGTTCATCCTGGTATGAA+AGG - Chr4:11549667-11549686 MsG0480018911.01.T01:intron 40.0%
TTGTAACGAATGTGTTCGAG+AGG - Chr4:11549860-11549879 MsG0480018911.01.T01:intron 40.0%
! CATGAACATGTTTTTCCCTG+TGG + Chr4:11550106-11550125 None:intergenic 40.0%
!! AATTGCCATTGGTTTCTGTC+AGG - Chr4:11549373-11549392 MsG0480018911.01.T01:CDS 40.0%
AAGGAGTTCAGTTTCTTGCC+GGG - Chr4:11548856-11548875 MsG0480018911.01.T01:three_prime_UTR 45.0%
CAAGGAGTTCAGTTTCTTGC+CGG - Chr4:11548855-11548874 MsG0480018911.01.T01:three_prime_UTR 45.0%
CATGGGGTATGTTACATGCA+TGG - Chr4:11549798-11549817 MsG0480018911.01.T01:intron 45.0%
CCGGATATTCCTTTCATACC+AGG + Chr4:11549679-11549698 None:intergenic 45.0%
GCTACAGAATGCAATTGCTG+AGG - Chr4:11549483-11549502 MsG0480018911.01.T01:CDS 45.0%
GGGACTTTCTTCTACTCTCA+AGG - Chr4:11548837-11548856 MsG0480018911.01.T01:three_prime_UTR 45.0%
GTGTTCCTGACAGAAACCAA+TGG + Chr4:11549381-11549400 None:intergenic 45.0%
TTTCTGTCAGGAACACGACA+GGG - Chr4:11549385-11549404 MsG0480018911.01.T01:CDS 45.0%
! AACATGTTTTTCCCTGTGGC+TGG + Chr4:11550102-11550121 None:intergenic 45.0%
! AAGCTATTGATGACCGAACC+CGG + Chr4:11548877-11548896 None:intergenic 45.0%
!! TGCAACTTGAGGCATCGATT+AGG + Chr4:11548994-11549013 None:intergenic 45.0%
ACATGCTTTGCATGGCTGCA+AGG + Chr4:11549624-11549643 None:intergenic 50.0%
AGTTCATGCTAGAGGGGACA+TGG - Chr4:11549780-11549799 MsG0480018911.01.T01:intron 50.0%
GAGGTATGCTGTGTTCATCC+TGG - Chr4:11549658-11549677 MsG0480018911.01.T01:intron 50.0%
GCAAAGCATGTGGGCGAAAA+CGG - Chr4:11549633-11549652 MsG0480018911.01.T01:intron 50.0%
GTTCAGTTTCTTGCCGGGTT+CGG - Chr4:11548861-11548880 MsG0480018911.01.T01:three_prime_UTR 50.0%
GTTCATGCTAGAGGGGACAT+GGG - Chr4:11549781-11549800 MsG0480018911.01.T01:intron 50.0%
GTTTCTGTCAGGAACACGAC+AGG - Chr4:11549384-11549403 MsG0480018911.01.T01:CDS 50.0%
TGAGAGCTGGGATTTCGTCT+GGG - Chr4:11549714-11549733 MsG0480018911.01.T01:intron 50.0%
TGCAGCCATGCAAAGCATGT+GGG - Chr4:11549624-11549643 MsG0480018911.01.T01:CDS 50.0%
TTCATGCTAGAGGGGACATG+GGG - Chr4:11549782-11549801 MsG0480018911.01.T01:intron 50.0%
TTGAGAGCTGGGATTTCGTC+TGG - Chr4:11549713-11549732 MsG0480018911.01.T01:intron 50.0%
TTGCAGCCATGCAAAGCATG+TGG - Chr4:11549623-11549642 MsG0480018911.01.T01:CDS 50.0%
TTTCGCCCACATGCTTTGCA+TGG + Chr4:11549632-11549651 None:intergenic 50.0%
! AGAGAGCATGTTGAGCAGTG+AGG - Chr4:11549426-11549445 MsG0480018911.01.T01:CDS 50.0%
! ATGTTTTTCCCTGTGGCTGG+AGG + Chr4:11550099-11550118 None:intergenic 50.0%
ACGAAAGGAGGAAGATGGGG+AGG - Chr4:11549832-11549851 MsG0480018911.01.T01:intron 55.0%
TCGAGAGGATCAATGGCGAG+TGG - Chr4:11549875-11549894 MsG0480018911.01.T01:intron 55.0%
! ATGAAGTGCCTCCAGCCACA+GGG - Chr4:11550088-11550107 MsG0480018911.01.T01:CDS 55.0%
CATGTGGGCGAAAACGGACG+AGG - Chr4:11549639-11549658 MsG0480018911.01.T01:intron 60.0%
! GATGAAGTGCCTCCAGCCAC+AGG - Chr4:11550087-11550106 MsG0480018911.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 11548832 11550214 11548832 ID=MsG0480018911.01;Name=MsG0480018911.01
Chr4 mRNA 11548832 11550214 11548832 ID=MsG0480018911.01.T01;Parent=MsG0480018911.01;Name=MsG0480018911.01.T01;_AED=0.32;_eAED=0.32;_QI=0|1|0.5|1|1|1|2|275|246
Chr4 exon 11548832 11549651 11548832 ID=MsG0480018911.01.T01:exon:7270;Parent=MsG0480018911.01.T01
Chr4 exon 11550019 11550214 11550019 ID=MsG0480018911.01.T01:exon:7269;Parent=MsG0480018911.01.T01
Chr4 CDS 11550019 11550214 11550019 ID=MsG0480018911.01.T01:cds;Parent=MsG0480018911.01.T01
Chr4 CDS 11549107 11549651 11549107 ID=MsG0480018911.01.T01:cds;Parent=MsG0480018911.01.T01
Chr4 three_prime_UTR 11548832 11549106 11548832 ID=MsG0480018911.01.T01:three_prime_utr;Parent=MsG0480018911.01.T01
Gene Sequence

>MsG0480018911.01.T01

ATGAAGGGACTTTCTTCTACTCTCAAGGAGTTCAGTTTCTTGCCGGGTTCGGTCATCAATAGCTTTCACAAGCGACATGATGTTTGTCTGCAATCCTTTAATCCAAATAAGTTAGTTTTTGGCAAAAGTTTTGAAAGAGGAGACGAACTTTGTTTGTTGCCTAATCGATGCCTCAAGTTGCAAATGAGAAGATTCAGAACACGACAGGGTGTAAAAAGTGAAGACGCAGAGAGCATGTTGAGCAGTGAGGACATTGCATTAGATGAAAACACTTTAGAGGAAGAGCTACAGAATGCAATTGCTGAGGAGAATTATGCTAAAGCAGCAGAAATAAGGGATACACTAAAAAACCTACAAAAAGATAGCAACACAGCAGTATTTGGAGCAAACAGCAAGTTTTATGATTCATTCAGGAATGGCGACCTTGCAGCCATGCAAAGCATGTGGGCGAAAACGGACGAGGTATGCTGTGTTCATCCTGGTATGAAAGGAATATCCGGTTATGATGATGTTATTGAGAGCTGGGATTTCGTCTGGGCTAACTATGAATTTCCATTACAAATTAAACTAGAAGACATTAAAGTTCATGCTAGAGGGGACATGGGGTATGTTACATGCATGGAATTTGTAAAAACGAAAGGAGGAAGATGGGGAGGACAATTTGTAACGAATGTGTTCGAGAGGATCAATGGCGAGTGGTTTATTTGTAATCATCATGCTTCACCAGTAGATATGAATTGA

Protein sequence

>MsG0480018911.01.T01

MKGLSSTLKEFSFLPGSVINSFHKRHDVCLQSFNPNKLVFGKSFERGDELCLLPNRCLKLQMRRFRTRQGVKSEDAESMLSSEDIALDENTLEEELQNAIAEENYAKAAEIRDTLKNLQKDSNTAVFGANSKFYDSFRNGDLAAMQSMWAKTDEVCCVHPGMKGISGYDDVIESWDFVWANYEFPLQIKLEDIKVHARGDMGYVTCMEFVKTKGGRWGGQFVTNVFERINGEWFICNHHASPVDMN*