AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380011755.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380011755.01.T01 MTR_0393s0040 92.969 128 9 0 1 128 1 128 4.69e-88 252
MsG0380011755.01.T01 MTR_3g010320 90.909 132 11 1 1 132 1 131 2.98e-84 242
MsG0380011755.01.T01 MTR_8g072380 62.319 69 10 1 64 132 4 56 8.12e-22 82.4
MsG0380011755.01.T01 MTR_2g093710 47.959 98 19 2 61 126 11 108 3.73e-21 82.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380011755.01.T01 AT4G33925 67.424 132 43 0 1 132 1 132 4.87e-64 191
MsG0380011755.01.T01 AT4G33925 66.387 119 40 0 1 119 1 119 9.49e-57 172

Find 8 sgRNAs with CRISPR-Local

Find 111 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTAAGTCCATGATTTGTTA+TGG 0.331627 3:+4567015 MsG0380011755.01.T01:exon
GCAAGACTCGCTGCATCATT+AGG 0.352521 3:+4566736 MsG0380011755.01.T01:exon
ATTCCACATCAACAATTAAC+AGG 0.376894 3:-4566975 None:intergenic
AAAACAAAGACTTTGCTTTG+TGG 0.399607 3:+4566840 MsG0380011755.01.T01:exon
GGCATAACCATAACAAATCA+TGG 0.460430 3:-4567022 None:intergenic
TTTCCTGTTAATTGTTGATG+TGG 0.532503 3:+4566972 MsG0380011755.01.T01:exon
CGAAGTCAAGGTATCTGATG+AGG 0.606772 3:+4566768 MsG0380011755.01.T01:exon
AGGATCATATGTCGAAGTCA+AGG 0.611050 3:+4566756 MsG0380011755.01.T01:exon

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAGAAAAAAAAAAAAACT+GGG + Chr3:4565229-4565248 MsG0380011755.01.T01:intron 10.0%
!! ACAAAAATAATAAAGTAAAA+AGG - Chr3:4565546-4565565 None:intergenic 10.0%
!! ATTGAAATTAAATCAAAAAA+TGG - Chr3:4565443-4565462 None:intergenic 10.0%
!! TAAAAGAAAAAAAAAAAAAC+TGG + Chr3:4565228-4565247 MsG0380011755.01.T01:intron 10.0%
!! TTGAAATTAAATCAAAAAAT+GGG - Chr3:4565442-4565461 None:intergenic 10.0%
!! AGTTAAAATCAATTATACTT+GGG + Chr3:4566163-4566182 MsG0380011755.01.T01:intron 15.0%
!!! AAAATTGATTTTGACATATT+TGG - Chr3:4566201-4566220 None:intergenic 15.0%
!!! AAGAAAGTAAAATTTTATAC+AGG - Chr3:4567046-4567065 None:intergenic 15.0%
!! AAAAATCGATCTAATTCTAA+TGG - Chr3:4566955-4566974 None:intergenic 20.0%
!! AAACAAACAAACAAAAACAA+AGG - Chr3:4565803-4565822 None:intergenic 20.0%
!! AACAGATTACATTTCTTATT+TGG + Chr3:4565655-4565674 MsG0380011755.01.T01:intron 20.0%
!! AGTTGAACAATAAATTATAG+AGG + Chr3:4566098-4566117 MsG0380011755.01.T01:intron 20.0%
!! GAGTTAAAATCAATTATACT+TGG + Chr3:4566162-4566181 MsG0380011755.01.T01:intron 20.0%
!! TCAATTGAATAGTTTAAACT+AGG + Chr3:4565858-4565877 MsG0380011755.01.T01:intron 20.0%
!! TTTCTTAACTAATATAGCAT+AGG + Chr3:4565580-4565599 MsG0380011755.01.T01:intron 20.0%
!!! ATCTTTTAGCTAATTATTAG+CGG - Chr3:4566358-4566377 None:intergenic 20.0%
!!! ATTAAATCAAAAAATGGGTT+TGG - Chr3:4565437-4565456 None:intergenic 20.0%
!!! TTTGAACTTTGTATTTTTGT+TGG + Chr3:4565614-4565633 MsG0380011755.01.T01:intron 20.0%
! ATCATAGAAGAAAGAATAAC+AGG - Chr3:4566535-4566554 None:intergenic 25.0%
! GAAAGTAATTAGTGTATGTT+TGG - Chr3:4566262-4566281 None:intergenic 25.0%
! GAAGAAAATAAAAGACAATC+AGG - Chr3:4566603-4566622 None:intergenic 25.0%
! TTATTTGGTAAGAACTTTGA+GGG + Chr3:4565670-4565689 MsG0380011755.01.T01:CDS 25.0%
!! AAAAAATGGGTTTGGAATTT+CGG - Chr3:4565429-4565448 None:intergenic 25.0%
!! CAAATTTTCATTGCAATGTA+AGG + Chr3:4566397-4566416 MsG0380011755.01.T01:intron 25.0%
!! GTTTTCTTGATAAAGAATCA+CGG + Chr3:4565051-4565070 MsG0380011755.01.T01:exon 25.0%
!! TAAAAAGAGTGCAAATAGAT+TGG + Chr3:4566897-4566916 MsG0380011755.01.T01:exon 25.0%
!! TTTTTCATTCAACAGATTTG+GGG + Chr3:4565829-4565848 MsG0380011755.01.T01:intron 25.0%
!!! ATTTTGACATATTTGGACTT+CGG - Chr3:4566194-4566213 None:intergenic 25.0%
!!! CTTTTTCATTCAACAGATTT+GGG + Chr3:4565828-4565847 MsG0380011755.01.T01:intron 25.0%
!!! TCTTTTTCATTCAACAGATT+TGG + Chr3:4565827-4565846 MsG0380011755.01.T01:intron 25.0%
AAAACAAAGACTTTGCTTTG+TGG + Chr3:4566840-4566859 MsG0380011755.01.T01:exon 30.0%
AACTTGAAGTCACAATTTAG+AGG - Chr3:4566129-4566148 None:intergenic 30.0%
ACTGTGACATGAAAATGAAA+AGG - Chr3:4565487-4565506 None:intergenic 30.0%
ATTCCACATCAACAATTAAC+AGG - Chr3:4566978-4566997 None:intergenic 30.0%
CAAATTGAATTAACACACAC+AGG + Chr3:4565354-4565373 MsG0380011755.01.T01:CDS 30.0%
CACATCACAATTTCAATCAA+GGG - Chr3:4566434-4566453 None:intergenic 30.0%
CTAAAAGATAGTAATACTGC+AGG + Chr3:4566369-4566388 MsG0380011755.01.T01:intron 30.0%
CTGTGACATGAAAATGAAAA+GGG - Chr3:4565486-4565505 None:intergenic 30.0%
CTTATTTGGTAAGAACTTTG+AGG + Chr3:4565669-4565688 MsG0380011755.01.T01:CDS 30.0%
CTTTATCAAGAAAACGCTTA+AGG - Chr3:4565046-4565065 None:intergenic 30.0%
GCAACAAATATTTGTGAACT+GGG - Chr3:4565205-4565224 None:intergenic 30.0%
TATGACCCATATAACAGATT+GGG + Chr3:4565166-4565185 MsG0380011755.01.T01:intron 30.0%
TGTGACATGAAAATGAAAAG+GGG - Chr3:4565485-4565504 None:intergenic 30.0%
TTTCCTGTTAATTGTTGATG+TGG + Chr3:4566972-4566991 MsG0380011755.01.T01:exon 30.0%
! CAGTTCACAAATATTTGTTG+CGG + Chr3:4565204-4565223 MsG0380011755.01.T01:intron 30.0%
! CTTCAAGTTAGAATCAAATC+TGG + Chr3:4566140-4566159 MsG0380011755.01.T01:intron 30.0%
! TCAGAAATAAAAAGCACAAG+CGG + Chr3:4565108-4565127 MsG0380011755.01.T01:exon 30.0%
! TCTATTTGCACTCTTTTTAC+AGG - Chr3:4566896-4566915 None:intergenic 30.0%
! TGCATATTCTCCATTTTCTT+AGG + Chr3:4566452-4566471 MsG0380011755.01.T01:intron 30.0%
!! AACATGTTCTGTTTTGTTGA+AGG + Chr3:4565267-4565286 MsG0380011755.01.T01:intron 30.0%
!! CTTAAGTCCATGATTTGTTA+TGG + Chr3:4567015-4567034 MsG0380011755.01.T01:exon 30.0%
!! GGAGTCAAAATTGTTTCTAA+CGG - Chr3:4566227-4566246 None:intergenic 30.0%
AGGTAAATGCAAAGAAAGAG+TGG - Chr3:4565783-4565802 None:intergenic 35.0%
CGCAACAAATATTTGTGAAC+TGG - Chr3:4565206-4565225 None:intergenic 35.0%
GAAAATGAGTGCAAGTAGTT+TGG + Chr3:4565311-4565330 MsG0380011755.01.T01:exon 35.0%
GCACATCACAATTTCAATCA+AGG - Chr3:4566435-4566454 None:intergenic 35.0%
GGCATAACCATAACAAATCA+TGG - Chr3:4567025-4567044 None:intergenic 35.0%
GTATGACCCATATAACAGAT+TGG + Chr3:4565165-4565184 MsG0380011755.01.T01:intron 35.0%
TCTATGATGTTGTCAACAGA+GGG + Chr3:4566547-4566566 MsG0380011755.01.T01:CDS 35.0%
TGAAAGATAAACCTTCCACT+GGG - Chr3:4565745-4565764 None:intergenic 35.0%
TGTTATATGGGTCATACCTT+GGG - Chr3:4565162-4565181 None:intergenic 35.0%
TTCTATGATGTTGTCAACAG+AGG + Chr3:4566546-4566565 MsG0380011755.01.T01:CDS 35.0%
TTTCAGCAAAACACAGATAC+TGG - Chr3:4566503-4566522 None:intergenic 35.0%
! AGACAATCAGGAAGTGTATA+TGG - Chr3:4566591-4566610 None:intergenic 35.0%
! ATGCCTTCAATCAAAAGTGT+CGG - Chr3:4565950-4565969 None:intergenic 35.0%
! CTCCATTTTCTTAGGTTACA+GGG + Chr3:4566460-4566479 MsG0380011755.01.T01:intron 35.0%
! TCCATTTTCTTAGGTTACAG+GGG + Chr3:4566461-4566480 MsG0380011755.01.T01:intron 35.0%
! TCTCCATTTTCTTAGGTTAC+AGG + Chr3:4566459-4566478 MsG0380011755.01.T01:intron 35.0%
!! ACTAGAATAGTGGATCAAAG+AGG + Chr3:4565697-4565716 MsG0380011755.01.T01:CDS 35.0%
!! AGAGGTGTTAAGAAGATTTC+TGG + Chr3:4565715-4565734 MsG0380011755.01.T01:CDS 35.0%
ACCCATATAACAGATTGGGT+CGG + Chr3:4565170-4565189 MsG0380011755.01.T01:intron 40.0%
ACGGTTTGAGAATAAGCGTT+AGG + Chr3:4565070-4565089 MsG0380011755.01.T01:exon 40.0%
AGGATCATATGTCGAAGTCA+AGG + Chr3:4566756-4566775 MsG0380011755.01.T01:exon 40.0%
CAGTGGAAGGTTTATCTTTC+AGG + Chr3:4565744-4565763 MsG0380011755.01.T01:CDS 40.0%
CGGTTTGAGAATAAGCGTTA+GGG + Chr3:4565071-4565090 MsG0380011755.01.T01:exon 40.0%
CTATGATGTTGTCAACAGAG+GGG + Chr3:4566548-4566567 MsG0380011755.01.T01:CDS 40.0%
CTGAAAGATAAACCTTCCAC+TGG - Chr3:4565746-4565765 None:intergenic 40.0%
CTGTTATATGGGTCATACCT+TGG - Chr3:4565163-4565182 None:intergenic 40.0%
GAAAGATAAACCTTCCACTG+GGG - Chr3:4565744-4565763 None:intergenic 40.0%
GTCTGTTGTATCTGCTTCAT+TGG + Chr3:4566329-4566348 MsG0380011755.01.T01:intron 40.0%
GTGTCAAACACGAACATATG+TGG + Chr3:4565992-4566011 MsG0380011755.01.T01:intron 40.0%
TCAGCACTAGAACGATACTA+AGG - Chr3:4566648-4566667 None:intergenic 40.0%
TCCCCTGTAACCTAAGAAAA+TGG - Chr3:4566465-4566484 None:intergenic 40.0%
! CATAACCCGGTTTTCAATTC+CGG + Chr3:4565136-4565155 MsG0380011755.01.T01:exon 40.0%
! GTGTATGTTTGGTTCCACTT+TGG - Chr3:4566251-4566270 None:intergenic 40.0%
! TATGTTTGGTTCCACTTTGG+AGG - Chr3:4566248-4566267 None:intergenic 40.0%
!!! CAATTTTGACTCCTCCAAAG+TGG + Chr3:4566234-4566253 MsG0380011755.01.T01:intron 40.0%
!!! CAGATACTGGTCTTTTTTCC+TGG - Chr3:4566490-4566509 None:intergenic 40.0%
ACAAGCGGTGTATCATAACC+CGG + Chr3:4565123-4565142 MsG0380011755.01.T01:exon 45.0%
ACCCGACCCAATCTGTTATA+TGG - Chr3:4565175-4565194 None:intergenic 45.0%
ATGTTCGTGTTTGACACCGA+CGG - Chr3:4565989-4566008 None:intergenic 45.0%
CCCATATAACAGATTGGGTC+GGG + Chr3:4565171-4565190 MsG0380011755.01.T01:intron 45.0%
CCCGACCCAATCTGTTATAT+GGG - Chr3:4565174-4565193 None:intergenic 45.0%
TGAGGGAGCTACTAGAATAG+TGG + Chr3:4565687-4565706 MsG0380011755.01.T01:CDS 45.0%
! CGAAGTCAAGGTATCTGATG+AGG + Chr3:4566768-4566787 MsG0380011755.01.T01:exon 45.0%
! GTTTGGTAGCAGATGAAGTG+TGG + Chr3:4565328-4565347 MsG0380011755.01.T01:CDS 45.0%
!! GCACCGACACTTTTGATTGA+AGG + Chr3:4565944-4565963 MsG0380011755.01.T01:intron 45.0%
!! TTTCTTAATAAAAAATAAAA+GGG - Chr3:4566823-4566842 None:intergenic 5.0%
!!! TTTTCTTAATAAAAAATAAA+AGG - Chr3:4566824-4566843 None:intergenic 5.0%
ATATGGGTCATACCTTGGGC+CGG - Chr3:4565158-4565177 None:intergenic 50.0%
CTTAGGTTACAGGGGAATCC+AGG + Chr3:4566469-4566488 MsG0380011755.01.T01:intron 50.0%
CTTGGGCCGGAATTGAAAAC+CGG - Chr3:4565145-4565164 None:intergenic 50.0%
GCAAGACTCGCTGCATCATT+AGG + Chr3:4566736-4566755 MsG0380011755.01.T01:exon 50.0%
TGTTCGTGTTTGACACCGAC+GGG - Chr3:4565988-4566007 None:intergenic 50.0%
TTGGGCCGGAATTGAAAACC+GGG - Chr3:4565144-4565163 None:intergenic 50.0%
! ACAGATTGGGTCGGGTTTTC+TGG + Chr3:4565179-4565198 MsG0380011755.01.T01:intron 50.0%
!! AAGATTTCTGGTGACCCCAG+TGG + Chr3:4565727-4565746 MsG0380011755.01.T01:CDS 50.0%
TGTTTGACACCGACGGGTGT+CGG - Chr3:4565982-4566001 None:intergenic 55.0%
! CGGTTTTCAATTCCGGCCCA+AGG + Chr3:4565143-4565162 MsG0380011755.01.T01:exon 55.0%
! TTTCTGGTGACCCCAGTGGA+AGG + Chr3:4565731-4565750 MsG0380011755.01.T01:CDS 55.0%
GTCAAGTGTCCGACACCCGT+CGG + Chr3:4565970-4565989 MsG0380011755.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 4565014 4567066 4565014 ID=MsG0380011755.01;
Chr3 mRNA 4565014 4567066 4565014 ID=MsG0380011755.01.T01;Parent=MsG0380011755.01
Chr3 exon 4565014 4565164 4565014 ID=MsG0380011755.01.T01.exon;Parent=MsG0380011755.01.T01
Chr3 exon 4565289 4565375 4565289 ID=MsG0380011755.01.T01.exon;Parent=MsG0380011755.01.T01
Chr3 CDS 4565315 4565375 4565315 ID=MsG0380011755.01.T01.cds;Parent=MsG0380011755.01.T01
Chr3 CDS 4565506 4565527 4565506 ID=MsG0380011755.01.T01.cds;Parent=MsG0380011755.01.T01
Chr3 exon 4565506 4565527 4565506 ID=MsG0380011755.01.T01.exon;Parent=MsG0380011755.01.T01
Chr3 CDS 4565660 4565765 4565660 ID=MsG0380011755.01.T01.cds;Parent=MsG0380011755.01.T01
Chr3 exon 4565660 4565765 4565660 ID=MsG0380011755.01.T01.exon;Parent=MsG0380011755.01.T01
Chr3 CDS 4566474 4566581 4566474 ID=MsG0380011755.01.T01.cds;Parent=MsG0380011755.01.T01
Chr3 exon 4566474 4566581 4566474 ID=MsG0380011755.01.T01.exon;Parent=MsG0380011755.01.T01
Chr3 CDS 4566718 4566819 4566718 ID=MsG0380011755.01.T01.cds;Parent=MsG0380011755.01.T01
Chr3 exon 4566718 4567066 4566718 ID=MsG0380011755.01.T01.exon;Parent=MsG0380011755.01.T01
Gene Sequence

>MsG0380011755.01.T01

ATGAGTGCAAGTAGTTTGGTAGCAGATGAAGTGTGGAAGCAAATTGAATTAACACACACAGTGAATGATGATCAACTTTATATATTACATTTCTTATTTGGTAAGAACTTTGAGGGAGCTACTAGAATAGTGGATCAAAGAGGTGTTAAGAAGATTTCTGGTGACCCCAGTGGAAGGTTTATCTTTCAGGTTACAGGGGAATCCAGGAAAAAAGACCAGTATCTGTGTTTTGCTGAAAACTTTTGTGCCTGTTATTCTTTCTTCTATGATGTTGTCAACAGAGGGGAGCAACTCTGTTGCAAACATCAATTAGCTGCAAGACTCGCTGCATCATTAGGATCATATGTCGAAGTCAAGGTATCTGATGAGGAATTAGCTTTGTTGCTATCTAAAATATAG

Protein sequence

>MsG0380011755.01.T01

MSASSLVADEVWKQIELTHTVNDDQLYILHFLFGKNFEGATRIVDQRGVKKISGDPSGRFIFQVTGESRKKDQYLCFAENFCACYSFFYDVVNRGEQLCCKHQLAARLAASLGSYVEVKVSDEELALLLSKI*