AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029275.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029275.01.T01 MTR_5g083690 90.833 120 11 0 1 120 1 120 1.09e-78 228
MsG0580029275.01.T01 MTR_7g090630 44.595 74 37 2 1 73 1 71 2.01e-15 67.0
MsG0580029275.01.T01 MTR_7g090630 44.595 74 37 2 1 73 1 71 2.13e-15 67.0
MsG0580029275.01.T01 MTR_3g023110 65.116 43 15 0 11 53 8 50 4.66e-15 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029275.01.T01 AT2G41430 44.615 65 33 1 1 65 1 62 1.73e-14 65.1
MsG0580029275.01.T01 AT2G41430 51.786 56 24 1 1 56 1 53 2.71e-14 65.5
MsG0580029275.01.T01 AT2G41430 51.786 56 24 1 1 56 1 53 2.71e-14 65.5
MsG0580029275.01.T01 AT2G41430 51.786 56 24 1 1 56 1 53 2.71e-14 65.5
MsG0580029275.01.T01 AT2G41430 51.786 56 24 1 1 56 1 53 2.71e-14 65.5
MsG0580029275.01.T01 AT4G14270 48.485 66 26 2 12 75 10 69 4.63e-13 62.0
MsG0580029275.01.T01 AT4G14270 48.485 66 26 2 12 75 10 69 4.63e-13 62.0

Find 58 sgRNAs with CRISPR-Local

Find 68 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGAGTTATGATTTGATTTC+AGG 0.145964 5:+94641149 MsG0580029275.01.T01:three_prime_UTR
CCCCTTGGTTCTGTGATTAC+TGG 0.155218 5:+94640607 MsG0580029275.01.T01:CDS
TGGGAAAGAGTTGATGAAAT+TGG 0.243769 5:+94640945 MsG0580029275.01.T01:CDS
TTCATCAGCCCAGGTAGATT+TGG 0.348718 5:+94641066 MsG0580029275.01.T01:three_prime_UTR
GATGGATGGGCTGAAGTTCC+AGG 0.367486 5:+94640991 MsG0580029275.01.T01:CDS
ACCTCGTTCATTCCTCCCCT+TGG 0.371694 5:+94640592 MsG0580029275.01.T01:CDS
GGGAAAGAGTTGATGAAATT+GGG 0.389970 5:+94640946 MsG0580029275.01.T01:CDS
TTTCATAGTTCTGAGGATCT+TGG 0.395345 5:-94640644 None:intergenic
TCAAGGTTGAAAATTTGTTA+AGG 0.423651 5:+94641343 MsG0580029275.01.T01:three_prime_UTR
CGGAGCCTTCTCAGCATACC+TGG 0.426067 5:-94641009 None:intergenic
GAGGATCTTGGAAGCGTTCA+CGG 0.427509 5:-94640632 None:intergenic
AGAGTTATGATTTGATTTCA+GGG 0.428885 5:+94641150 MsG0580029275.01.T01:three_prime_UTR
AATAGCCCGTGGGCTCACTC+TGG 0.435925 5:-94641045 None:intergenic
ACTTCCATAGCTGCGTTTGT+TGG 0.442292 5:-94640465 None:intergenic
TGAAATTGGGATCGTTGAAA+TGG 0.456391 5:+94640959 MsG0580029275.01.T01:CDS
ACTCTGGGCTTCACAATCTT+CGG 0.460415 5:-94641029 None:intergenic
GCGCGTGTAGAACACGAAGA+TGG 0.465797 5:+94640925 MsG0580029275.01.T01:intron
CGCGTGTAGAACACGAAGAT+GGG 0.474343 5:+94640926 MsG0580029275.01.T01:intron
GGAACGAACATCGGAGCGTT+GGG 0.476212 5:-94640525 None:intergenic
CGGAACGAACATCGGAGCGT+TGG 0.492883 5:-94640526 None:intergenic
TTTGGTGGCAAAGTGGAAAC+TGG 0.504496 5:+94641084 MsG0580029275.01.T01:three_prime_UTR
ATCAGCCCAGGTAGATTTGG+TGG 0.507054 5:+94641069 MsG0580029275.01.T01:three_prime_UTR
CTTGTAGATCTCAATGATCA+AGG 0.510028 5:+94641326 MsG0580029275.01.T01:three_prime_UTR
ACTTTGCCACCAAATCTACC+TGG 0.520178 5:-94641075 None:intergenic
GGGGTTCAATTTCATGAACA+TGG 0.523834 5:-94640713 None:intergenic
GATTTGTTATGTTGTTGTGT+GGG 0.529342 5:+94641290 MsG0580029275.01.T01:three_prime_UTR
GTTGGGATTCAGCGAGGAGG+AGG 0.529767 5:-94640508 None:intergenic
TGGAGGATTTCTCCGATGAA+TGG 0.530316 5:+94640565 MsG0580029275.01.T01:CDS
ATAGCCCGTGGGCTCACTCT+GGG 0.531409 5:-94641044 None:intergenic
AAGTTCCAGGTATGCTGAGA+AGG 0.533909 5:+94641004 MsG0580029275.01.T01:CDS
TGATTTGTTATGTTGTTGTG+TGG 0.534193 5:+94641289 MsG0580029275.01.T01:three_prime_UTR
ATCACCAACAAACGCAGCTA+TGG 0.534245 5:+94640461 MsG0580029275.01.T01:exon
AAAAGAAGATAAGAATGAAG+CGG 0.560581 5:-94640419 None:intergenic
AACGAGGTTCCACCATTCAT+CGG 0.566948 5:-94640577 None:intergenic
CTGGGCTGATGAATAGCCCG+TGG 0.567215 5:-94641056 None:intergenic
TGAAGCCCAGAGTGAGCCCA+CGG 0.571247 5:+94641039 MsG0580029275.01.T01:exon
GCCAGTAATCACAGAACCAA+GGG 0.574794 5:-94640608 None:intergenic
TTGAAATGGAGAGGATCTGA+TGG 0.578122 5:+94640973 MsG0580029275.01.T01:CDS
CACGGGCTATTCATCAGCCC+AGG 0.580678 5:+94641057 MsG0580029275.01.T01:three_prime_UTR
TACGCAAGCGGAACGAACAT+CGG 0.582960 5:-94640534 None:intergenic
CGTTCCGCTTGCGTATCGTA+CGG 0.583236 5:+94640542 MsG0580029275.01.T01:CDS
GCTTGCGTATCGTACGGTGG+AGG 0.600361 5:+94640548 MsG0580029275.01.T01:CDS
TTGGGATCGTTGAAATGGAG+AGG 0.600872 5:+94640964 MsG0580029275.01.T01:CDS
AGGTAGATTTGGTGGCAAAG+TGG 0.603013 5:+94641077 MsG0580029275.01.T01:three_prime_UTR
AGGATTTCTCCGATGAATGG+TGG 0.617511 5:+94640568 MsG0580029275.01.T01:CDS
AATGGAGAGGATCTGATGGA+TGG 0.618481 5:+94640977 MsG0580029275.01.T01:CDS
ATGGAGAGGATCTGATGGAT+GGG 0.622633 5:+94640978 MsG0580029275.01.T01:CDS
CTTTGCCACCAAATCTACCT+GGG 0.625860 5:-94641074 None:intergenic
GAAGCCCAGAGTGAGCCCAC+GGG 0.627082 5:+94641040 MsG0580029275.01.T01:exon
AGCCAGTAATCACAGAACCA+AGG 0.657318 5:-94640609 None:intergenic
TGGGCTGATGAATAGCCCGT+GGG 0.658555 5:-94641055 None:intergenic
TCCACCGTACGATACGCAAG+CGG 0.663483 5:-94640546 None:intergenic
TCCGCTTGCGTATCGTACGG+TGG 0.666184 5:+94640545 MsG0580029275.01.T01:CDS
AGCGTTGGGATTCAGCGAGG+AGG 0.680838 5:-94640511 None:intergenic
GTAATCACAGAACCAAGGGG+AGG 0.706596 5:-94640604 None:intergenic
CCAGTAATCACAGAACCAAG+GGG 0.731389 5:-94640607 None:intergenic
ACCAAGGGGAGGAATGAACG+AGG 0.740764 5:-94640593 None:intergenic
CGGAGCGTTGGGATTCAGCG+AGG 0.742236 5:-94640514 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAACTCTAATTATTTTTTTA+CGG - Chr5:94641137-94641156 None:intergenic 10.0%
!!! AACTCTAATTATTTTTTTAC+GGG - Chr5:94641136-94641155 None:intergenic 15.0%
!!! ATTTATGTGATTAATTTTGA+TGG + Chr5:94640877-94640896 MsG0580029275.01.T01:intron 15.0%
!! AATAAAGTAAAATAGCTTAC+GGG - Chr5:94640736-94640755 None:intergenic 20.0%
!! CAATAAAGTAAAATAGCTTA+CGG - Chr5:94640737-94640756 None:intergenic 20.0%
!!! GATTAATTTTGATGGATTAA+TGG + Chr5:94640885-94640904 MsG0580029275.01.T01:intron 20.0%
! AAAAGAAGATAAGAATGAAG+CGG - Chr5:94640422-94640441 None:intergenic 25.0%
! ATAAAGTAAAATAGCTTACG+GGG - Chr5:94640735-94640754 None:intergenic 25.0%
!! AGAGTTATGATTTGATTTCA+GGG + Chr5:94641150-94641169 MsG0580029275.01.T01:three_prime_UTR 25.0%
!! TAGAGTTATGATTTGATTTC+AGG + Chr5:94641149-94641168 MsG0580029275.01.T01:three_prime_UTR 25.0%
!!! GTTTTCTGATTTTGAAATGA+TGG + Chr5:94640674-94640693 MsG0580029275.01.T01:CDS 25.0%
!!! TCAAGGTTGAAAATTTGTTA+AGG + Chr5:94641343-94641362 MsG0580029275.01.T01:three_prime_UTR 25.0%
! AATGGATCTGATGTTTGTTT+TGG + Chr5:94640903-94640922 MsG0580029275.01.T01:intron 30.0%
!! GATTTGTTATGTTGTTGTGT+GGG + Chr5:94641290-94641309 MsG0580029275.01.T01:three_prime_UTR 30.0%
!! TGATTTGTTATGTTGTTGTG+TGG + Chr5:94641289-94641308 MsG0580029275.01.T01:three_prime_UTR 30.0%
CTTGTAGATCTCAATGATCA+AGG + Chr5:94641326-94641345 MsG0580029275.01.T01:three_prime_UTR 35.0%
TGAAATTGGGATCGTTGAAA+TGG + Chr5:94640959-94640978 MsG0580029275.01.T01:CDS 35.0%
!! GAGTCATTTTCATAGTTCTG+AGG - Chr5:94640654-94640673 None:intergenic 35.0%
!! GGGAAAGAGTTGATGAAATT+GGG + Chr5:94640946-94640965 MsG0580029275.01.T01:CDS 35.0%
!! TGGGAAAGAGTTGATGAAAT+TGG + Chr5:94640945-94640964 MsG0580029275.01.T01:CDS 35.0%
!! TTTCATAGTTCTGAGGATCT+TGG - Chr5:94640647-94640666 None:intergenic 35.0%
GGGGTTCAATTTCATGAACA+TGG - Chr5:94640716-94640735 None:intergenic 40.0%
TTGAAATGGAGAGGATCTGA+TGG + Chr5:94640973-94640992 MsG0580029275.01.T01:CDS 40.0%
AACGAGGTTCCACCATTCAT+CGG - Chr5:94640580-94640599 None:intergenic 45.0%
AAGTTCCAGGTATGCTGAGA+AGG + Chr5:94641004-94641023 MsG0580029275.01.T01:CDS 45.0%
AATGGAGAGGATCTGATGGA+TGG + Chr5:94640977-94640996 MsG0580029275.01.T01:CDS 45.0%
ACTCTGGGCTTCACAATCTT+CGG - Chr5:94641032-94641051 None:intergenic 45.0%
ACTTCCATAGCTGCGTTTGT+TGG - Chr5:94640468-94640487 None:intergenic 45.0%
ACTTTGCCACCAAATCTACC+TGG - Chr5:94641078-94641097 None:intergenic 45.0%
AGCCAGTAATCACAGAACCA+AGG - Chr5:94640612-94640631 None:intergenic 45.0%
AGGATTTCTCCGATGAATGG+TGG + Chr5:94640568-94640587 MsG0580029275.01.T01:CDS 45.0%
ATCACCAACAAACGCAGCTA+TGG + Chr5:94640461-94640480 MsG0580029275.01.T01:exon 45.0%
CCAGTAATCACAGAACCAAG+GGG - Chr5:94640610-94640629 None:intergenic 45.0%
CTTTGCCACCAAATCTACCT+GGG - Chr5:94641077-94641096 None:intergenic 45.0%
GCCAGTAATCACAGAACCAA+GGG - Chr5:94640611-94640630 None:intergenic 45.0%
TGGAGGATTTCTCCGATGAA+TGG + Chr5:94640565-94640584 MsG0580029275.01.T01:CDS 45.0%
TTCATCAGCCCAGGTAGATT+TGG + Chr5:94641066-94641085 MsG0580029275.01.T01:three_prime_UTR 45.0%
TTGGGATCGTTGAAATGGAG+AGG + Chr5:94640964-94640983 MsG0580029275.01.T01:CDS 45.0%
! ATGGAGAGGATCTGATGGAT+GGG + Chr5:94640978-94640997 MsG0580029275.01.T01:CDS 45.0%
! TTTGGTGGCAAAGTGGAAAC+TGG + Chr5:94641084-94641103 MsG0580029275.01.T01:three_prime_UTR 45.0%
!! AGGTAGATTTGGTGGCAAAG+TGG + Chr5:94641077-94641096 MsG0580029275.01.T01:three_prime_UTR 45.0%
ATCAGCCCAGGTAGATTTGG+TGG + Chr5:94641069-94641088 MsG0580029275.01.T01:three_prime_UTR 50.0%
CGCGTGTAGAACACGAAGAT+GGG + Chr5:94640926-94640945 MsG0580029275.01.T01:intron 50.0%
GTAATCACAGAACCAAGGGG+AGG - Chr5:94640607-94640626 None:intergenic 50.0%
TACGCAAGCGGAACGAACAT+CGG - Chr5:94640537-94640556 None:intergenic 50.0%
!! CCCCTTGGTTCTGTGATTAC+TGG + Chr5:94640607-94640626 MsG0580029275.01.T01:CDS 50.0%
!! GAGGATCTTGGAAGCGTTCA+CGG - Chr5:94640635-94640654 None:intergenic 50.0%
ACCAAGGGGAGGAATGAACG+AGG - Chr5:94640596-94640615 None:intergenic 55.0%
ACCTCGTTCATTCCTCCCCT+TGG + Chr5:94640592-94640611 MsG0580029275.01.T01:CDS 55.0%
CGTTCCGCTTGCGTATCGTA+CGG + Chr5:94640542-94640561 MsG0580029275.01.T01:CDS 55.0%
GCGCGTGTAGAACACGAAGA+TGG + Chr5:94640925-94640944 MsG0580029275.01.T01:intron 55.0%
TCCACCGTACGATACGCAAG+CGG - Chr5:94640549-94640568 None:intergenic 55.0%
TGGGCTGATGAATAGCCCGT+GGG - Chr5:94641058-94641077 None:intergenic 55.0%
! GGAACGAACATCGGAGCGTT+GGG - Chr5:94640528-94640547 None:intergenic 55.0%
!! GATGGATGGGCTGAAGTTCC+AGG + Chr5:94640991-94641010 MsG0580029275.01.T01:CDS 55.0%
AATAGCCCGTGGGCTCACTC+TGG - Chr5:94641048-94641067 None:intergenic 60.0%
ATAGCCCGTGGGCTCACTCT+GGG - Chr5:94641047-94641066 None:intergenic 60.0%
CGGAACGAACATCGGAGCGT+TGG - Chr5:94640529-94640548 None:intergenic 60.0%
CGGAGCCTTCTCAGCATACC+TGG - Chr5:94641012-94641031 None:intergenic 60.0%
CTGGGCTGATGAATAGCCCG+TGG - Chr5:94641059-94641078 None:intergenic 60.0%
GCTTGCGTATCGTACGGTGG+AGG + Chr5:94640548-94640567 MsG0580029275.01.T01:CDS 60.0%
GTTGGGATTCAGCGAGGAGG+AGG - Chr5:94640511-94640530 None:intergenic 60.0%
TCCGCTTGCGTATCGTACGG+TGG + Chr5:94640545-94640564 MsG0580029275.01.T01:CDS 60.0%
TGAAGCCCAGAGTGAGCCCA+CGG + Chr5:94641039-94641058 MsG0580029275.01.T01:exon 60.0%
! AGCGTTGGGATTCAGCGAGG+AGG - Chr5:94640514-94640533 None:intergenic 60.0%
! CACGGGCTATTCATCAGCCC+AGG + Chr5:94641057-94641076 MsG0580029275.01.T01:three_prime_UTR 60.0%
GAAGCCCAGAGTGAGCCCAC+GGG + Chr5:94641040-94641059 MsG0580029275.01.T01:exon 65.0%
!! CGGAGCGTTGGGATTCAGCG+AGG - Chr5:94640517-94640536 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr5 gene 94640374 94641393 94640374 ID=MsG0580029275.01;Name=MsG0580029275.01
Chr5 mRNA 94640374 94641393 94640374 ID=MsG0580029275.01.T01;Parent=MsG0580029275.01;Name=MsG0580029275.01.T01;_AED=0.18;_eAED=0.18;_QI=106|1|1|1|1|1|2|352|120
Chr5 exon 94640374 94640735 94640374 ID=MsG0580029275.01.T01:exon:49885;Parent=MsG0580029275.01.T01
Chr5 exon 94640935 94641393 94640935 ID=MsG0580029275.01.T01:exon:49886;Parent=MsG0580029275.01.T01
Chr5 five_prime_UTR 94640374 94640479 94640374 ID=MsG0580029275.01.T01:five_prime_utr;Parent=MsG0580029275.01.T01
Chr5 CDS 94640480 94640735 94640480 ID=MsG0580029275.01.T01:cds;Parent=MsG0580029275.01.T01
Chr5 CDS 94640935 94641041 94640935 ID=MsG0580029275.01.T01:cds;Parent=MsG0580029275.01.T01
Chr5 three_prime_UTR 94641042 94641393 94641042 ID=MsG0580029275.01.T01:three_prime_utr;Parent=MsG0580029275.01.T01
Gene Sequence

>MsG0580029275.01.T01

ATGGAAGTTCTTTCTGCTACAAGAACATCCTCCTCCTCGCTGAATCCCAACGCTCCGATGTTCGTTCCGCTTGCGTATCGTACGGTGGAGGATTTCTCCGATGAATGGTGGAACCTCGTTCATTCCTCCCCTTGGTTCTGTGATTACTGGCTCCGTGAACGCTTCCAAGATCCTCAGAACTATGAAAATGACTCGTTTTCTGATTTTGAAATGATGGATGAAGATGATCTTTTCCATGTTCATGAAATTGAACCCCAACACGAAGATGGGAAAGAGTTGATGAAATTGGGATCGTTGAAATGGAGAGGATCTGATGGATGGGCTGAAGTTCCAGGTATGCTGAGAAGGCTCCGAAGATTGTGA

Protein sequence

>MsG0580029275.01.T01

MEVLSATRTSSSSLNPNAPMFVPLAYRTVEDFSDEWWNLVHSSPWFCDYWLRERFQDPQNYENDSFSDFEMMDEDDLFHVHEIEPQHEDGKELMKLGSLKWRGSDGWAEVPGMLRRLRRL*