AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene03847

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03847.t1 MTR_4g053120 98.065 155 3 0 1 155 1 155 2.72e-111 312
MS.gene03847.t1 MTR_2g086510 73.548 155 41 0 1 155 1 155 1.57e-82 240
MS.gene03847.t1 MTR_1g112030 65.385 156 48 3 4 155 7 160 4.14e-66 198
MS.gene03847.t1 MTR_1g112030 65.385 156 48 3 4 155 3 156 4.57e-66 198
MS.gene03847.t1 MTR_1g112050 63.871 155 50 3 4 154 1 153 3.41e-63 191
MS.gene03847.t1 MTR_2g006290 60.000 135 39 4 24 154 25 148 4.96e-51 160
MS.gene03847.t1 MTR_8g088720 64.220 109 38 1 46 154 39 146 7.44e-47 149
MS.gene03847.t1 MTR_5g006320 34.437 151 91 4 4 154 1 143 2.28e-21 84.7
MS.gene03847.t1 MTR_4g098490 29.452 146 100 1 13 155 14 159 7.65e-18 76.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03847.t1 AT2G27510 60.000 155 59 2 4 155 1 155 3.44e-62 188
MS.gene03847.t1 AT1G60950 66.667 111 34 2 46 154 38 147 3.32e-48 153
MS.gene03847.t1 AT1G10960 58.209 134 48 4 20 151 17 144 8.23e-47 149
MS.gene03847.t1 AT5G10000 52.475 101 48 0 54 154 47 147 1.04e-37 126
MS.gene03847.t1 AT4G14890 46.316 95 49 2 60 154 52 144 2.45e-22 87.4
MS.gene03847.t1 AT1G32550 38.372 86 53 0 70 155 69 154 7.39e-18 76.3
MS.gene03847.t1 AT1G32550 35.294 102 47 3 70 155 69 167 4.41e-12 61.6

Find 42 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAAGTTCCCTTCATCTTTC+GGG 0.151505 4.1:+44968503 MS.gene03847:CDS
TGTGCTGGAAAGATTGTTTC+TGG 0.213905 4.1:+44968733 MS.gene03847:CDS
GCTCCAGCACGGCATGAATA+AGG 0.234304 4.1:-44968700 None:intergenic
GCTTACAAGGTCAAGCTTAT+TGG 0.250602 4.1:+44968595 MS.gene03847:CDS
GCGAAGTTCCCTTCATCTTT+CGG 0.263582 4.1:+44968502 MS.gene03847:CDS
TCAATCTGATGGCTCTTTCT+TGG 0.285813 4.1:+44968765 MS.gene03847:CDS
TGACTTCAAGCCACAAGATT+TGG 0.293119 4.1:-44968542 None:intergenic
CTTGGATGATAATCAACTTA+AGG 0.311771 4.1:+44968783 MS.gene03847:CDS
AACTGCAATGGCTGCTTACA+AGG 0.410013 4.1:+44968582 MS.gene03847:CDS
CTCCCTTATTCATGCCGTGC+TGG 0.418450 4.1:+44968697 MS.gene03847:CDS
TCTAAGATGTAAACATCGTC+GGG 0.429231 4.1:-44968649 None:intergenic
GGAGCTTGCTCCACTTGTGC+TGG 0.438234 4.1:+44968718 MS.gene03847:CDS
CTCCAGCACGGCATGAATAA+GGG 0.444632 4.1:-44968699 None:intergenic
CAGTTTGAATCATGCATAGC+GGG 0.450595 4.1:-44968447 None:intergenic
TGGAAAGATTGTTTCTGGCT+CGG 0.490169 4.1:+44968738 MS.gene03847:CDS
TATGCAATCTGCGGTTGGAT+AGG 0.494449 4.1:-44968830 None:intergenic
AACAATCTTTCCAGCACAAG+TGG 0.505407 4.1:-44968728 None:intergenic
GTCAAGCTTATTGGACCAGA+TGG 0.514160 4.1:+44968604 MS.gene03847:CDS
TTTGTAGACCCGAAAGATGA+AGG 0.518911 4.1:-44968511 None:intergenic
ATCTAAGATGTAAACATCGT+CGG 0.538845 4.1:-44968650 None:intergenic
GGCTCGGTGGATCAATCTGA+TGG 0.542825 4.1:+44968754 MS.gene03847:CDS
AAGAGTGTTTCCAAATCTTG+TGG 0.543692 4.1:+44968532 MS.gene03847:CDS
GATGATAATCAACTTAAGGA+TGG 0.547500 4.1:+44968787 MS.gene03847:CDS
TCAATTATGCAATCTGCGGT+TGG 0.549164 4.1:-44968835 None:intergenic
TTAGATGCAGCAGAAGATGC+CGG 0.586722 4.1:+44968667 MS.gene03847:CDS
TAGCAATGGTTGATTGATTG+CGG 0.600774 4.1:-44968474 None:intergenic
TTCATATAGAACAACTGCAA+TGG 0.601127 4.1:+44968570 MS.gene03847:CDS
GAACTTCGCTGTGGTAGCAA+TGG 0.602045 4.1:-44968488 None:intergenic
TGAATAAGGGAGTTCAACTC+CGG 0.604511 4.1:-44968686 None:intergenic
TTGTAGACCCGAAAGATGAA+GGG 0.611828 4.1:-44968510 None:intergenic
AAGTGGAGCAAGCTCCAGCA+CGG 0.615367 4.1:-44968711 None:intergenic
AAAGATTGTTTCTGGCTCGG+TGG 0.616952 4.1:+44968741 MS.gene03847:CDS
ATAATTGAAACTCACAAGGA+AGG 0.627357 4.1:+44968850 MS.gene03847:CDS
GGAAACATTCACAGCTGACA+AGG 0.632858 4.1:-44968425 None:intergenic
TGCGGTTGGATAGGAAACAC+AGG 0.661542 4.1:-44968821 None:intergenic
AGTTTCAATTATGCAATCTG+CGG 0.680241 4.1:-44968839 None:intergenic
GCAGTTTGAATCATGCATAG+CGG 0.684816 4.1:-44968448 None:intergenic
TTGCATAATTGAAACTCACA+AGG 0.686967 4.1:+44968846 MS.gene03847:CDS
CTAAGATGTAAACATCGTCG+GGG 0.693590 4.1:-44968648 None:intergenic
TAAGATGTAAACATCGTCGG+GGG 0.711580 4.1:-44968647 None:intergenic
AGTTTGAATCATGCATAGCG+GGG 0.714486 4.1:-44968446 None:intergenic
AGATGAAGGGAACTTCGCTG+TGG 0.735830 4.1:-44968497 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGTTTCAATTATGCAATCTG+CGG - chr4.1:44968842-44968861 None:intergenic 30.0%
ATAATTGAAACTCACAAGGA+AGG + chr4.1:44968850-44968869 MS.gene03847:CDS 30.0%
CTTGGATGATAATCAACTTA+AGG + chr4.1:44968783-44968802 MS.gene03847:CDS 30.0%
GATGATAATCAACTTAAGGA+TGG + chr4.1:44968787-44968806 MS.gene03847:CDS 30.0%
TTCATATAGAACAACTGCAA+TGG + chr4.1:44968570-44968589 MS.gene03847:CDS 30.0%
TTGCATAATTGAAACTCACA+AGG + chr4.1:44968846-44968865 MS.gene03847:CDS 30.0%
! AACTCATTTTCTTTTCCATC+TGG - chr4.1:44968622-44968641 None:intergenic 30.0%
! ATCTAAGATGTAAACATCGT+CGG - chr4.1:44968653-44968672 None:intergenic 30.0%
TAGCAATGGTTGATTGATTG+CGG - chr4.1:44968477-44968496 None:intergenic 35.0%
! TCTAAGATGTAAACATCGTC+GGG - chr4.1:44968652-44968671 None:intergenic 35.0%
!! AAGAGTGTTTCCAAATCTTG+TGG + chr4.1:44968532-44968551 MS.gene03847:CDS 35.0%
AACAATCTTTCCAGCACAAG+TGG - chr4.1:44968731-44968750 None:intergenic 40.0%
AGTTTGAATCATGCATAGCG+GGG - chr4.1:44968449-44968468 None:intergenic 40.0%
CAGTTTGAATCATGCATAGC+GGG - chr4.1:44968450-44968469 None:intergenic 40.0%
CTAAGATGTAAACATCGTCG+GGG - chr4.1:44968651-44968670 None:intergenic 40.0%
GCAGTTTGAATCATGCATAG+CGG - chr4.1:44968451-44968470 None:intergenic 40.0%
GCTTACAAGGTCAAGCTTAT+TGG + chr4.1:44968595-44968614 MS.gene03847:CDS 40.0%
TAAGATGTAAACATCGTCGG+GGG - chr4.1:44968650-44968669 None:intergenic 40.0%
TCAATCTGATGGCTCTTTCT+TGG + chr4.1:44968765-44968784 MS.gene03847:CDS 40.0%
TCAATTATGCAATCTGCGGT+TGG - chr4.1:44968838-44968857 None:intergenic 40.0%
TGAATAAGGGAGTTCAACTC+CGG - chr4.1:44968689-44968708 None:intergenic 40.0%
TGACTTCAAGCCACAAGATT+TGG - chr4.1:44968545-44968564 None:intergenic 40.0%
TGTGCTGGAAAGATTGTTTC+TGG + chr4.1:44968733-44968752 MS.gene03847:CDS 40.0%
TTGTAGACCCGAAAGATGAA+GGG - chr4.1:44968513-44968532 None:intergenic 40.0%
TTTGTAGACCCGAAAGATGA+AGG - chr4.1:44968514-44968533 None:intergenic 40.0%
!! TGGAAAGATTGTTTCTGGCT+CGG + chr4.1:44968738-44968757 MS.gene03847:CDS 40.0%
AACTGCAATGGCTGCTTACA+AGG + chr4.1:44968582-44968601 MS.gene03847:CDS 45.0%
CGAAGTTCCCTTCATCTTTC+GGG + chr4.1:44968503-44968522 MS.gene03847:CDS 45.0%
GCGAAGTTCCCTTCATCTTT+CGG + chr4.1:44968502-44968521 MS.gene03847:CDS 45.0%
GGAAACATTCACAGCTGACA+AGG - chr4.1:44968428-44968447 None:intergenic 45.0%
GTCAAGCTTATTGGACCAGA+TGG + chr4.1:44968604-44968623 MS.gene03847:CDS 45.0%
TATGCAATCTGCGGTTGGAT+AGG - chr4.1:44968833-44968852 None:intergenic 45.0%
TTAGATGCAGCAGAAGATGC+CGG + chr4.1:44968667-44968686 MS.gene03847:CDS 45.0%
!! AAAGATTGTTTCTGGCTCGG+TGG + chr4.1:44968741-44968760 MS.gene03847:CDS 45.0%
AGATGAAGGGAACTTCGCTG+TGG - chr4.1:44968500-44968519 None:intergenic 50.0%
CTCCAGCACGGCATGAATAA+GGG - chr4.1:44968702-44968721 None:intergenic 50.0%
GAACTTCGCTGTGGTAGCAA+TGG - chr4.1:44968491-44968510 None:intergenic 50.0%
TGCGGTTGGATAGGAAACAC+AGG - chr4.1:44968824-44968843 None:intergenic 50.0%
AAGTGGAGCAAGCTCCAGCA+CGG - chr4.1:44968714-44968733 None:intergenic 55.0%
CTCCCTTATTCATGCCGTGC+TGG + chr4.1:44968697-44968716 MS.gene03847:CDS 55.0%
GCTCCAGCACGGCATGAATA+AGG - chr4.1:44968703-44968722 None:intergenic 55.0%
!! GGCTCGGTGGATCAATCTGA+TGG + chr4.1:44968754-44968773 MS.gene03847:CDS 55.0%
! GGAGCTTGCTCCACTTGTGC+TGG + chr4.1:44968718-44968737 MS.gene03847:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 44968418 44968885 44968418 ID=MS.gene03847
chr4.1 mRNA 44968418 44968885 44968418 ID=MS.gene03847.t1;Parent=MS.gene03847
chr4.1 exon 44968418 44968885 44968418 ID=MS.gene03847.t1.exon1;Parent=MS.gene03847.t1
chr4.1 CDS 44968418 44968885 44968418 ID=cds.MS.gene03847.t1;Parent=MS.gene03847.t1
Gene Sequence

>MS.gene03847

ATGGCATCCTTGTCAGCTGTGAATGTTTCCCCGCTATGCATGATTCAAACTGCAAACCGCAATCAATCAACCATTGCTACCACAGCGAAGTTCCCTTCATCTTTCGGGTCTACAAAGAGTGTTTCCAAATCTTGTGGCTTGAAGTCATCATCTTCATATAGAACAACTGCAATGGCTGCTTACAAGGTCAAGCTTATTGGACCAGATGGAAAAGAAAATGAGTTTGACGCCCCCGACGATGTTTACATCTTAGATGCAGCAGAAGATGCCGGAGTTGAACTCCCTTATTCATGCCGTGCTGGAGCTTGCTCCACTTGTGCTGGAAAGATTGTTTCTGGCTCGGTGGATCAATCTGATGGCTCTTTCTTGGATGATAATCAACTTAAGGATGGCTTTGTGCTTACCTGTGTTTCCTATCCAACCGCAGATTGCATAATTGAAACTCACAAGGAAGGCGAACTCTACTGA
Protein sequence

>MS.gene03847.t1

MASLSAVNVSPLCMIQTANRNQSTIATTAKFPSSFGSTKSVSKSCGLKSSSSYRTTAMAAYKVKLIGPDGKENEFDAPDDVYILDAAEDAGVELPYSCRAGACSTCAGKIVSGSVDQSDGSFLDDNQLKDGFVLTCVSYPTADCIIETHKEGELY