AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011285.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011285.01.T01 MTR_2g101520 87.264 212 3 1 1 188 1 212 5.47e-130 368
MsG0280011285.01.T01 MTR_6g488100 33.178 214 100 9 1 188 14 210 1.38e-19 84.0
MsG0280011285.01.T01 MTR_6g488100 33.178 214 100 9 1 188 14 210 1.49e-19 84.0
MsG0280011285.01.T01 MTR_6g488100 33.178 214 100 9 1 188 14 210 2.27e-19 84.0
MsG0280011285.01.T01 MTR_6g488100 33.178 214 100 9 1 188 14 210 2.61e-19 84.0
MsG0280011285.01.T01 MTR_8g103065 33.333 228 89 8 1 188 15 219 8.10e-16 73.6
MsG0280011285.01.T01 MTR_8g103065 33.333 228 89 8 1 188 15 219 2.14e-15 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 51 sgRNAs with CRISPR-Local

Find 92 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTTCAAGAGTTCCATTTA+TGG 0.161942 2:+81959536 MsG0280011285.01.T01:CDS
TGCTTTATTATATCCATAAA+TGG 0.195130 2:-81959549 None:intergenic
CCAAACAAGACTTTGGATAA+AGG 0.302743 2:-81958836 None:intergenic
CTTAAGTAGTGATAATATAT+TGG 0.313482 2:+81959707 MsG0280011285.01.T01:CDS
CACCAGCTAGTTTCTCCATT+TGG 0.331535 2:+81960335 MsG0280011285.01.T01:CDS
CCTTTATCCAAAGTCTTGTT+TGG 0.359958 2:+81958836 MsG0280011285.01.T01:five_prime_UTR
TGGTTCATCTTGGTCACATA+TGG 0.375811 2:+81959650 MsG0280011285.01.T01:CDS
GGATGCATGCTCCACCAGTT+AGG 0.382855 2:-81959047 None:intergenic
AGCTAGTGATATGAGAGCTT+GGG 0.388897 2:-81959686 None:intergenic
TGATGGCTGGGAACCCTAAC+TGG 0.390562 2:+81959033 MsG0280011285.01.T01:CDS
CTGGATCACTTGGTTCATCT+TGG 0.397211 2:+81959640 MsG0280011285.01.T01:CDS
CTTGTTTGGTTGCACATACA+AGG 0.409409 2:+81958850 MsG0280011285.01.T01:five_prime_UTR
TGAGAGCTTGGGGAAGAAAC+TGG 0.431844 2:-81959675 None:intergenic
TTTACCTCAGATATTTGATC+TGG 0.452488 2:-81959771 None:intergenic
CGTGCTAACTCTGGATCACT+TGG 0.461704 2:+81959630 MsG0280011285.01.T01:CDS
AAGCTAGTGATATGAGAGCT+TGG 0.469144 2:-81959687 None:intergenic
ATAAATGGAACTCTTGAAGA+TGG 0.469340 2:-81959534 None:intergenic
TAGTTTGTTACCTTTCCAAA+TGG 0.469992 2:-81960350 None:intergenic
CTGAAGTACCTCCTCAATCA+TGG 0.473133 2:+81959147 MsG0280011285.01.T01:CDS
ATCCCTCCTCAATATATGCT+TGG 0.481586 2:+81959083 MsG0280011285.01.T01:CDS
TGTGCAACCAAACAAGACTT+TGG 0.484086 2:-81958843 None:intergenic
CCAGCCATCATTTGCTACAA+TGG 0.492326 2:-81959020 None:intergenic
GATGCATGCTCCACCAGTTA+GGG 0.504766 2:-81959046 None:intergenic
CCATTGTAGCAAATGATGGC+TGG 0.505228 2:+81959020 MsG0280011285.01.T01:exon
GAGGAGTTTCGTGCTAACTC+TGG 0.506033 2:+81959621 MsG0280011285.01.T01:CDS
GGAGGGATATTCAAAGATGA+TGG 0.512004 2:-81959068 None:intergenic
AGTCTCATGATATATGTGTA+AGG 0.512334 2:-81958991 None:intergenic
CCAAGTCTCTCTTCTTCACC+AGG 0.522523 2:-81959456 None:intergenic
TGATATATGTGTAAGGACTA+AGG 0.530074 2:-81958984 None:intergenic
TTTCTGTCAAGGAATTGAAA+GGG 0.538293 2:-81959118 None:intergenic
GAGTTAGCACGAAACTCCTC+AGG 0.546788 2:-81959618 None:intergenic
TTCCAAATGGAGAAACTAGC+TGG 0.547701 2:-81960337 None:intergenic
CATTGTAGCAAATGATGGCT+GGG 0.551321 2:+81959021 MsG0280011285.01.T01:exon
GCTAGTTTCTCCATTTGGAA+AGG 0.554411 2:+81960340 MsG0280011285.01.T01:CDS
CCTGGTGAAGAAGAGAGACT+TGG 0.557044 2:+81959456 MsG0280011285.01.T01:CDS
AGTAGTTGACTCCATGATTG+AGG 0.561864 2:-81959158 None:intergenic
TGATCCATTGTAGCAAATGA+TGG 0.567554 2:+81959016 MsG0280011285.01.T01:exon
GAATCTGAATCAGGTGAGGA+AGG 0.588844 2:+81960283 MsG0280011285.01.T01:intron
GAAGATCCAAGCATATATTG+AGG 0.591487 2:-81959089 None:intergenic
ATAAAGCATGAAGTTTCTCA+AGG 0.600376 2:+81959564 MsG0280011285.01.T01:CDS
GCTAGTGATATGAGAGCTTG+GGG 0.616346 2:-81959685 None:intergenic
GATCCAAGCATATATTGAGG+AGG 0.624438 2:-81959086 None:intergenic
ATCCAAGCATATATTGAGGA+GGG 0.625532 2:-81959085 None:intergenic
CAGGTGAGGAAGGAGAAGCT+AGG 0.634871 2:+81960293 MsG0280011285.01.T01:intron
ACTACCAGATCAAATATCTG+AGG 0.665989 2:+81959767 MsG0280011285.01.T01:CDS
ACAAGGAAATATCATCACAA+AGG 0.676273 2:+81958867 MsG0280011285.01.T01:five_prime_UTR
AGTTGACTCCATGATTGAGG+AGG 0.689840 2:-81959155 None:intergenic
TCAACAAGGGCATCATCCTG+AGG 0.692914 2:+81959602 MsG0280011285.01.T01:CDS
ATTGGATTTCACTTACAACA+AGG 0.702031 2:+81959725 MsG0280011285.01.T01:CDS
TATATGTGTAAGGACTAAGG+AGG 0.708378 2:-81958981 None:intergenic
TGGCTGGGAACCCTAACTGG+TGG 0.716766 2:+81959036 MsG0280011285.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTCTTTTTTTTTTTTTTTGA+AGG + Chr2:81959812-81959831 MsG0280011285.01.T01:intron 10.0%
!! TAATTTCTATCTTAATTACT+TGG + Chr2:81960074-81960093 MsG0280011285.01.T01:intron 15.0%
!! TACAAAAATTTCATTTCTTA+AGG + Chr2:81958923-81958942 MsG0280011285.01.T01:five_prime_UTR 15.0%
!!! TTTTCTTCATTATAATTACA+TGG + Chr2:81959389-81959408 MsG0280011285.01.T01:intron 15.0%
!!! TTTTTTTTTGAAGGATATAT+AGG + Chr2:81959821-81959840 MsG0280011285.01.T01:intron 15.0%
!! AAATTCTTATCCTTAAGTAT+AGG + Chr2:81960236-81960255 MsG0280011285.01.T01:intron 20.0%
!! CTTAAGTAGTGATAATATAT+TGG + Chr2:81959707-81959726 MsG0280011285.01.T01:CDS 20.0%
!! GAAATTATAGAAAAGAAAAG+AGG - Chr2:81960061-81960080 None:intergenic 20.0%
!! GAAGAAAAAAAACATGAATA+AGG - Chr2:81959377-81959396 None:intergenic 20.0%
!! GTAAATTATAGGTCATATAT+AGG + Chr2:81959789-81959808 MsG0280011285.01.T01:intron 20.0%
!!! AAATATCTGAGGTAAATTAT+AGG + Chr2:81959778-81959797 MsG0280011285.01.T01:intron 20.0%
!!! TAATTTTGAACCTATACTTA+AGG - Chr2:81960249-81960268 None:intergenic 20.0%
!!! TGCTTTATTATATCCATAAA+TGG - Chr2:81959552-81959571 None:intergenic 20.0%
! ATTATATGTGAATCTGAATC+AGG + Chr2:81960274-81960293 MsG0280011285.01.T01:intron 25.0%
! CAAAAAGAATATTACAGTGT+TGG - Chr2:81960165-81960184 None:intergenic 25.0%
!! AGAATTTTTATGGTCAACAA+GGG + Chr2:81959589-81959608 MsG0280011285.01.T01:CDS 25.0%
AACCTAAAAACTCAGAAAAC+TGG + Chr2:81959493-81959512 MsG0280011285.01.T01:CDS 30.0%
AACTACTGGAGTTAATAAGA+AGG + Chr2:81959968-81959987 MsG0280011285.01.T01:intron 30.0%
ACAAGGAAATATCATCACAA+AGG + Chr2:81958867-81958886 MsG0280011285.01.T01:five_prime_UTR 30.0%
ACCTAAAAACTCAGAAAACT+GGG + Chr2:81959494-81959513 MsG0280011285.01.T01:CDS 30.0%
AGTCTCATGATATATGTGTA+AGG - Chr2:81958994-81959013 None:intergenic 30.0%
ATAAAGCATGAAGTTTCTCA+AGG + Chr2:81959564-81959583 MsG0280011285.01.T01:CDS 30.0%
ATAAATGGAACTCTTGAAGA+TGG - Chr2:81959537-81959556 None:intergenic 30.0%
ATCTTCAAGAGTTCCATTTA+TGG + Chr2:81959536-81959555 MsG0280011285.01.T01:CDS 30.0%
ATTGGATTTCACTTACAACA+AGG + Chr2:81959725-81959744 MsG0280011285.01.T01:CDS 30.0%
TGATATATGTGTAAGGACTA+AGG - Chr2:81958987-81959006 None:intergenic 30.0%
TGTGAGTAATTAACCTTTAG+AGG - Chr2:81960023-81960042 None:intergenic 30.0%
TTTACCTCAGATATTTGATC+TGG - Chr2:81959774-81959793 None:intergenic 30.0%
TTTCTGTCAAGGAATTGAAA+GGG - Chr2:81959121-81959140 None:intergenic 30.0%
! ACATGGTGTGAAAATTTTGA+GGG + Chr2:81959406-81959425 MsG0280011285.01.T01:intron 30.0%
! CTACAGTATAGAAGATTTTG+AGG - Chr2:81959306-81959325 None:intergenic 30.0%
! GAGAATTTTTATGGTCAACA+AGG + Chr2:81959588-81959607 MsG0280011285.01.T01:CDS 30.0%
! GCAACTGTGATTTAAAATTG+TGG - Chr2:81959261-81959280 None:intergenic 30.0%
! GTGATTTAAAATTGTGGTGA+TGG - Chr2:81959255-81959274 None:intergenic 30.0%
! TACATGGTGTGAAAATTTTG+AGG + Chr2:81959405-81959424 MsG0280011285.01.T01:intron 30.0%
! TCTCAAGGTGAGAATTTTTA+TGG + Chr2:81959579-81959598 MsG0280011285.01.T01:CDS 30.0%
! TTCAGCATTATTTTCTGTCA+AGG - Chr2:81959132-81959151 None:intergenic 30.0%
! TTTTCTGTCAAGGAATTGAA+AGG - Chr2:81959122-81959141 None:intergenic 30.0%
! TTTTGTATGTTTTGCAGTAC+TGG + Chr2:81959429-81959448 MsG0280011285.01.T01:intron 30.0%
!! TAGTTTGTTACCTTTCCAAA+TGG - Chr2:81960353-81960372 None:intergenic 30.0%
ACTACCAGATCAAATATCTG+AGG + Chr2:81959767-81959786 MsG0280011285.01.T01:CDS 35.0%
ATCCAAGCATATATTGAGGA+GGG - Chr2:81959088-81959107 None:intergenic 35.0%
CCAAACAAGACTTTGGATAA+AGG - Chr2:81958839-81958858 None:intergenic 35.0%
GAAGATCCAAGCATATATTG+AGG - Chr2:81959092-81959111 None:intergenic 35.0%
TAGTGTAATAGCTCAACTAC+TGG + Chr2:81959954-81959973 MsG0280011285.01.T01:intron 35.0%
TATATGTGTAAGGACTAAGG+AGG - Chr2:81958984-81959003 None:intergenic 35.0%
TGATCCATTGTAGCAAATGA+TGG + Chr2:81959016-81959035 MsG0280011285.01.T01:exon 35.0%
TGGAGTTAATAAGAAGGCTA+GGG + Chr2:81959974-81959993 MsG0280011285.01.T01:intron 35.0%
! AATTAACCTTTAGAGGTGGT+TGG - Chr2:81960016-81960035 None:intergenic 35.0%
! GAGTAATTAACCTTTAGAGG+TGG - Chr2:81960020-81960039 None:intergenic 35.0%
! TCCCAGTTTTCTGAGTTTTT+AGG - Chr2:81959498-81959517 None:intergenic 35.0%
!! CCTTTATCCAAAGTCTTGTT+TGG + Chr2:81958836-81958855 MsG0280011285.01.T01:five_prime_UTR 35.0%
!!! CAAGCTACGGTTTTAAATTG+CGG - Chr2:81959336-81959355 None:intergenic 35.0%
AAGCTAGTGATATGAGAGCT+TGG - Chr2:81959690-81959709 None:intergenic 40.0%
AGCTAGTGATATGAGAGCTT+GGG - Chr2:81959689-81959708 None:intergenic 40.0%
ATCCCTCCTCAATATATGCT+TGG + Chr2:81959083-81959102 MsG0280011285.01.T01:CDS 40.0%
ATGTGAATCTGAATCAGGTG+AGG + Chr2:81960279-81960298 MsG0280011285.01.T01:intron 40.0%
CATTGTAGCAAATGATGGCT+GGG + Chr2:81959021-81959040 MsG0280011285.01.T01:exon 40.0%
CTGGAGTTAATAAGAAGGCT+AGG + Chr2:81959973-81959992 MsG0280011285.01.T01:intron 40.0%
CTTGTTTGGTTGCACATACA+AGG + Chr2:81958850-81958869 MsG0280011285.01.T01:five_prime_UTR 40.0%
GATCCAAGCATATATTGAGG+AGG - Chr2:81959089-81959108 None:intergenic 40.0%
GATGCTGTAACTTCAAGCTA+CGG - Chr2:81959349-81959368 None:intergenic 40.0%
GGAGGGATATTCAAAGATGA+TGG - Chr2:81959071-81959090 None:intergenic 40.0%
TGGTTCATCTTGGTCACATA+TGG + Chr2:81959650-81959669 MsG0280011285.01.T01:CDS 40.0%
TGTGCAACCAAACAAGACTT+TGG - Chr2:81958846-81958865 None:intergenic 40.0%
TTCCAAATGGAGAAACTAGC+TGG - Chr2:81960340-81960359 None:intergenic 40.0%
! AGTAGTTGACTCCATGATTG+AGG - Chr2:81959161-81959180 None:intergenic 40.0%
! GCTAGTTTCTCCATTTGGAA+AGG + Chr2:81960340-81960359 MsG0280011285.01.T01:CDS 40.0%
AGAGAGAGAGAGAGAGAGTA+TGG - Chr2:81959197-81959216 None:intergenic 45.0%
CCATTGTAGCAAATGATGGC+TGG + Chr2:81959020-81959039 MsG0280011285.01.T01:exon 45.0%
CTGGATCACTTGGTTCATCT+TGG + Chr2:81959640-81959659 MsG0280011285.01.T01:CDS 45.0%
GAATCTGAATCAGGTGAGGA+AGG + Chr2:81960283-81960302 MsG0280011285.01.T01:intron 45.0%
GCTAGTGATATGAGAGCTTG+GGG - Chr2:81959688-81959707 None:intergenic 45.0%
TTCAAGCCAACCACCTCTAA+AGG + Chr2:81960007-81960026 MsG0280011285.01.T01:intron 45.0%
! AGTTGACTCCATGATTGAGG+AGG - Chr2:81959158-81959177 None:intergenic 45.0%
! CACCAGCTAGTTTCTCCATT+TGG + Chr2:81960335-81960354 MsG0280011285.01.T01:CDS 45.0%
! CCAGCCATCATTTGCTACAA+TGG - Chr2:81959023-81959042 None:intergenic 45.0%
! CTGAAGTACCTCCTCAATCA+TGG + Chr2:81959147-81959166 MsG0280011285.01.T01:CDS 45.0%
!! TTTTGCAGTACTGGACTACC+TGG + Chr2:81959438-81959457 MsG0280011285.01.T01:intron 45.0%
CCAAGTCTCTCTTCTTCACC+AGG - Chr2:81959459-81959478 None:intergenic 50.0%
CCTGGTGAAGAAGAGAGACT+TGG + Chr2:81959456-81959475 MsG0280011285.01.T01:CDS 50.0%
CGTGCTAACTCTGGATCACT+TGG + Chr2:81959630-81959649 MsG0280011285.01.T01:CDS 50.0%
GAGGAGTTTCGTGCTAACTC+TGG + Chr2:81959621-81959640 MsG0280011285.01.T01:CDS 50.0%
GAGTTAGCACGAAACTCCTC+AGG - Chr2:81959621-81959640 None:intergenic 50.0%
GATGCATGCTCCACCAGTTA+GGG - Chr2:81959049-81959068 None:intergenic 50.0%
TGAGAGCTTGGGGAAGAAAC+TGG - Chr2:81959678-81959697 None:intergenic 50.0%
!! AGAGGTGGTTGGCTTGAAGA+TGG - Chr2:81960005-81960024 None:intergenic 50.0%
!! TCAACAAGGGCATCATCCTG+AGG + Chr2:81959602-81959621 MsG0280011285.01.T01:CDS 50.0%
CAGGTGAGGAAGGAGAAGCT+AGG + Chr2:81960293-81960312 MsG0280011285.01.T01:intron 55.0%
GGATGCATGCTCCACCAGTT+AGG - Chr2:81959050-81959069 None:intergenic 55.0%
TGATGGCTGGGAACCCTAAC+TGG + Chr2:81959033-81959052 MsG0280011285.01.T01:CDS 55.0%
TGGCTGGGAACCCTAACTGG+TGG + Chr2:81959036-81959055 MsG0280011285.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 81958794 81960373 81958794 ID=MsG0280011285.01;Name=MsG0280011285.01
Chr2 mRNA 81958794 81960373 81958794 ID=MsG0280011285.01.T01;Parent=MsG0280011285.01;Name=MsG0280011285.01.T01;_AED=0.46;_eAED=0.46;_QI=238|0.5|0.66|1|1|1|3|0|190
Chr2 exon 81958794 81959183 81958794 ID=MsG0280011285.01.T01:exon:15856;Parent=MsG0280011285.01.T01
Chr2 exon 81959446 81959788 81959446 ID=MsG0280011285.01.T01:exon:15857;Parent=MsG0280011285.01.T01
Chr2 exon 81960296 81960373 81960296 ID=MsG0280011285.01.T01:exon:15858;Parent=MsG0280011285.01.T01
Chr2 five_prime_UTR 81958794 81959031 81958794 ID=MsG0280011285.01.T01:five_prime_utr;Parent=MsG0280011285.01.T01
Chr2 CDS 81959032 81959183 81959032 ID=MsG0280011285.01.T01:cds;Parent=MsG0280011285.01.T01
Chr2 CDS 81959446 81959788 81959446 ID=MsG0280011285.01.T01:cds;Parent=MsG0280011285.01.T01
Chr2 CDS 81960296 81960373 81960296 ID=MsG0280011285.01.T01:cds;Parent=MsG0280011285.01.T01
Gene Sequence

>MsG0280011285.01.T01

ATGATGGCTGGGAACCCTAACTGGTGGAGCATGCATCCATCATCTTTGAATATCCCTCCTCAATATATGCTTGGATCTTCTTCAATCCCTTTCAATTCCTTGACAGAAAATAATGCTGAAGTACCTCCTCAATCATGGAGTCAACTACTTTTTACTGGACTACCTGGTGAAGAAGAGAGACTTGGTTTTAATCATTTTCAACCTAAAAACTCAGAAAACTGGGATGTGCAAATTATGAATCCATCTTCAAGAGTTCCATTTATGGATATAATAAAGCATGAAGTTTCTCAAGGTGAGAATTTTTATGGTCAACAAGGGCATCATCCTGAGGAGTTTCGTGCTAACTCTGGATCACTTGGTTCATCTTGGTCACATATGGTGCCAGTTTCTTCCCCAAGCTCTCATATCACTAGCTTAAGTAGTGATAATATATTGGATTTCACTTACAACAAGGTAGATCATAGCAAGAATCAACTACCAGATCAAATATCTGAGGTGAGGAAGGAGAAGCTAGGTGATAGAATAACAGCACTTCACCAGCTAGTTTCTCCATTTGGAAAGGTAACAAACTAA

Protein sequence

>MsG0280011285.01.T01

MMAGNPNWWSMHPSSLNIPPQYMLGSSSIPFNSLTENNAEVPPQSWSQLLFTGLPGEEERLGFNHFQPKNSENWDVQIMNPSSRVPFMDIIKHEVSQGENFYGQQGHHPEEFRANSGSLGSSWSHMVPVSSPSSHITSLSSDNILDFTYNKVDHSKNQLPDQISEVRKEKLGDRITALHQLVSPFGKVTN*