AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010620.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010620.01.T01 MTR_4g046640 61.832 131 41 6 1 124 1 129 1.87e-42 137
MsG0280010620.01.T01 MTR_4g008050 50.820 61 30 0 29 89 6 66 1.67e-14 67.8
MsG0280010620.01.T01 MTR_2g011450 50.000 56 28 0 31 86 5 60 2.21e-13 62.4
MsG0280010620.01.T01 MTR_2g089310 49.231 65 33 0 29 93 3 67 4.24e-13 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010620.01.T01 AT4G15248 59.375 64 26 0 31 94 32 95 1.27e-22 86.3
MsG0280010620.01.T01 AT3G21890 49.367 79 39 1 31 108 31 109 3.17e-21 82.8
MsG0280010620.01.T01 AT3G21150 51.786 56 27 0 31 86 5 60 6.73e-15 68.6
MsG0280010620.01.T01 AT4G27310 55.769 52 23 0 29 80 3 54 5.81e-14 66.2
MsG0280010620.01.T01 AT5G54470 55.769 52 23 0 29 80 4 55 7.82e-13 63.2

Find 22 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAAGCACCTAATGTGTCTT+AGG 0.201525 2:+72406649 None:intergenic
GAGTTCTTGAACACTTTATA+AGG 0.236274 2:+72406514 None:intergenic
TCCCTTGTTCCAGCTAATAT+TGG 0.250164 2:+72406557 None:intergenic
TTTATAAGGGTGGTGTTATT+AGG 0.296533 2:+72406528 None:intergenic
ATGTAGAAAATGTGACAAAA+AGG 0.313697 2:-72406694 MsG0280010620.01.T01:CDS
GGGAAGAAGTTGTGTTCTTT+TGG 0.314782 2:+72406822 None:intergenic
CTATGAGATATCTTCTTGTA+AGG 0.404736 2:+72406607 None:intergenic
AGTTCTTGAACACTTTATAA+GGG 0.416117 2:+72406515 None:intergenic
TAAGGGTGGTGTTATTAGGC+AGG 0.434144 2:+72406532 None:intergenic
AAGCACTCTCTTTAGATGTT+GGG 0.437501 2:+72406802 None:intergenic
AAAGCACCTAATGTGTCTTA+GGG 0.465917 2:+72406650 None:intergenic
TTGTTCCAGCTAATATTGGC+TGG 0.469788 2:+72406561 None:intergenic
GAAGCACTCTCTTTAGATGT+TGG 0.476305 2:+72406801 None:intergenic
CTTACAAGAAGATATCTCAT+AGG 0.502571 2:-72406606 MsG0280010620.01.T01:CDS
TACTTCCAGCCAATATTAGC+TGG 0.506683 2:-72406566 MsG0280010620.01.T01:CDS
ATAAATATGCATCATCAGCT+TGG 0.525300 2:+72406715 None:intergenic
AAAGATAAATTTAAAGAACA+TGG 0.529040 2:+72406479 None:intergenic
GCCAATATTAGCTGGAACAA+GGG 0.533430 2:-72406558 MsG0280010620.01.T01:CDS
AGCCAATATTAGCTGGAACA+AGG 0.565572 2:-72406559 MsG0280010620.01.T01:CDS
TATAAATGTTGTGAACTATG+TGG 0.587319 2:-72406759 MsG0280010620.01.T01:CDS
TCTTGAACACTTTATAAGGG+TGG 0.589468 2:+72406518 None:intergenic
TGGAAGTATCATCTCTACTG+AGG 0.672839 2:+72406581 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGATAAATTTAAAGAACA+TGG + Chr2:72406834-72406853 None:intergenic 15.0%
! AGTTCTTGAACACTTTATAA+GGG + Chr2:72406798-72406817 None:intergenic 25.0%
! ATGTAGAAAATGTGACAAAA+AGG - Chr2:72406616-72406635 MsG0280010620.01.T01:CDS 25.0%
! TATAAATGTTGTGAACTATG+TGG - Chr2:72406551-72406570 MsG0280010620.01.T01:CDS 25.0%
ATAAATATGCATCATCAGCT+TGG + Chr2:72406598-72406617 None:intergenic 30.0%
CTATGAGATATCTTCTTGTA+AGG + Chr2:72406706-72406725 None:intergenic 30.0%
CTTACAAGAAGATATCTCAT+AGG - Chr2:72406704-72406723 MsG0280010620.01.T01:CDS 30.0%
GAGTTCTTGAACACTTTATA+AGG + Chr2:72406799-72406818 None:intergenic 30.0%
!! TTTATAAGGGTGGTGTTATT+AGG + Chr2:72406785-72406804 None:intergenic 30.0%
AAGCACTCTCTTTAGATGTT+GGG + Chr2:72406511-72406530 None:intergenic 35.0%
TCTTGAACACTTTATAAGGG+TGG + Chr2:72406795-72406814 None:intergenic 35.0%
! AAAGCACCTAATGTGTCTTA+GGG + Chr2:72406663-72406682 None:intergenic 35.0%
! TTTTAGCCCTAAGACACATT+AGG - Chr2:72406654-72406673 MsG0280010620.01.T01:CDS 35.0%
AGCCAATATTAGCTGGAACA+AGG - Chr2:72406751-72406770 MsG0280010620.01.T01:CDS 40.0%
GCCAATATTAGCTGGAACAA+GGG - Chr2:72406752-72406771 MsG0280010620.01.T01:CDS 40.0%
TACTTCCAGCCAATATTAGC+TGG - Chr2:72406744-72406763 MsG0280010620.01.T01:CDS 40.0%
TCCCTTGTTCCAGCTAATAT+TGG + Chr2:72406756-72406775 None:intergenic 40.0%
TTGTTCCAGCTAATATTGGC+TGG + Chr2:72406752-72406771 None:intergenic 40.0%
! GAAGCACTCTCTTTAGATGT+TGG + Chr2:72406512-72406531 None:intergenic 40.0%
! GGGAAGAAGTTGTGTTCTTT+TGG + Chr2:72406491-72406510 None:intergenic 40.0%
!! GAAAGCACCTAATGTGTCTT+AGG + Chr2:72406664-72406683 None:intergenic 40.0%
!! TGGAAGTATCATCTCTACTG+AGG + Chr2:72406732-72406751 None:intergenic 40.0%
!! TAAGGGTGGTGTTATTAGGC+AGG + Chr2:72406781-72406800 None:intergenic 45.0%
Chromosome Type Strat End Strand Name
Chr2 gene 72406470 72406862 72406470 ID=MsG0280010620.01;Name=MsG0280010620.01
Chr2 mRNA 72406470 72406862 72406470 ID=MsG0280010620.01.T01;Parent=MsG0280010620.01;Name=MsG0280010620.01.T01;_AED=0.36;_eAED=0.36;_QI=0|-1|0|1|-1|0|1|0|130
Chr2 exon 72406470 72406862 72406470 ID=MsG0280010620.01.T01:exon:19573;Parent=MsG0280010620.01.T01
Chr2 CDS 72406470 72406862 72406470 ID=MsG0280010620.01.T01:cds;Parent=MsG0280010620.01.T01
Gene Sequence

>MsG0280010620.01.T01

ATGTGCAAAGGAGCAGAACCAAAAGAACACAACTTCTTCCCAACATCTAAAGAGAGTGCTTCACATGACAAAACAAGAGATTATAAATGTTGTGAACTATGTGGATTACAAGCTTCATTGTATTGCCAAGCTGATGATGCATATTTATGTAGAAAATGTGACAAAAAGGTTCATGAAGCAAATTTTTTAGCCCTAAGACACATTAGGTGCTTTCTTTGCAACACATGTCAAAACCTTACAAGAAGATATCTCATAGGAGCCTCAGTAGAGATGATACTTCCAGCCAATATTAGCTGGAACAAGGGAAACCTGCCTAATAACACCACCCTTATAAAGTGTTCAAGAACTCATAGTAGTACTTCCATGTTCTTTAAATTTATCTTTTCTCATTAG
Protein sequence

>MsG0280010620.01.T01

MCKGAEPKEHNFFPTSKESASHDKTRDYKCCELCGLQASLYCQADDAYLCRKCDKKVHEANFLALRHIRCFLCNTCQNLTRRYLIGASVEMILPANISWNKGNLPNNTTLIKCSRTHSSTSMFFKFIFSH*