AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880045895.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045895.01.T01 MTR_1g010210 75.862 116 22 2 1 116 288 397 1.33e-50 167
MsG0880045895.01.T01 MTR_3g464210 82.759 87 15 0 1 87 292 378 8.61e-44 149
MsG0880045895.01.T01 MTR_1g010270 78.161 87 19 0 1 87 272 358 6.63e-42 144
MsG0880045895.01.T01 MTR_3g108190 74.713 87 22 0 1 87 268 354 6.67e-40 139
MsG0880045895.01.T01 MTR_4g011600 67.089 79 26 0 12 90 286 364 2.44e-31 116
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880045895.01.T01 AT2G25680 67.816 87 28 0 1 87 264 350 5.20e-38 134
MsG0880045895.01.T01 AT1G80310 60.000 85 33 1 1 85 262 345 2.77e-31 115

Find 24 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAACTGAAAATTCCCTTTC+AGG 0.152803 8:-66092765 None:intergenic
GTGGGGTGTGTGGCACTTCT+TGG 0.202296 8:+66092907 MsG0880045895.01.T01:CDS
TGAAATTCACTAAACAAAAT+TGG 0.301984 8:+66092649 MsG0880045895.01.T01:CDS
TAATGAATTTAGTTGGTTCT+TGG 0.325172 8:+66092811 MsG0880045895.01.T01:CDS
CTAGCAGGACAACATAAATT+TGG 0.348118 8:+66092870 MsG0880045895.01.T01:CDS
AAAACTGGTATTGGGATTGC+AGG 0.357031 8:+66092936 MsG0880045895.01.T01:CDS
AATTTAGTTGGTTCTTGGTT+TGG 0.385997 8:+66092816 MsG0880045895.01.T01:CDS
TAACTGAAAATTCCCTTTCA+GGG 0.444301 8:-66092764 None:intergenic
GTTGGACTAATGAATTTAGT+TGG 0.454255 8:+66092804 MsG0880045895.01.T01:CDS
AACACACCTAAAATCCGAAC+AGG 0.469179 8:-66092997 None:intergenic
GGTGCTGTGCCAACTTGTCA+TGG 0.504890 8:+66092837 MsG0880045895.01.T01:CDS
CATGGTGTTGGTGGACTAGC+AGG 0.518289 8:+66092855 MsG0880045895.01.T01:CDS
CCAACTTGTCATGGTGTTGG+TGG 0.525816 8:+66092846 MsG0880045895.01.T01:CDS
AGCATTGACAATGGAAGTTG+TGG 0.529158 8:-66092699 None:intergenic
GTGCCAACTTGTCATGGTGT+TGG 0.538904 8:+66092843 MsG0880045895.01.T01:CDS
ACATCAATTTCAGTGACAGT+TGG 0.550766 8:+66092786 MsG0880045895.01.T01:CDS
TAAATTTGGTGAAAGAAGTG+AGG 0.560041 8:+66092884 MsG0880045895.01.T01:CDS
AGAAGTGAGGGTGGGGTGTG+TGG 0.569706 8:+66092897 MsG0880045895.01.T01:CDS
CCACCAACACCATGACAAGT+TGG 0.570149 8:-66092846 None:intergenic
TTGGTGAAAGAAGTGAGGGT+GGG 0.582173 8:+66092889 MsG0880045895.01.T01:CDS
TGGTGAAAGAAGTGAGGGTG+GGG 0.582983 8:+66092890 MsG0880045895.01.T01:CDS
TTTGGTGAAAGAAGTGAGGG+TGG 0.592334 8:+66092888 MsG0880045895.01.T01:CDS
AAATTTGGTGAAAGAAGTGA+GGG 0.632254 8:+66092885 MsG0880045895.01.T01:CDS
ACTGAGTTCAGCATTGACAA+TGG 0.638906 8:-66092708 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGGATAAAAGATTTTATTAA+AGG + Chr8:66092669-66092688 MsG0880045895.01.T01:CDS 15.0%
!! TGAAATTCACTAAACAAAAT+TGG + Chr8:66092649-66092668 MsG0880045895.01.T01:CDS 20.0%
!! TAATGAATTTAGTTGGTTCT+TGG + Chr8:66092811-66092830 MsG0880045895.01.T01:CDS 25.0%
!! TTTTACAACAATTTCCTGTT+CGG + Chr8:66092983-66093002 MsG0880045895.01.T01:CDS 25.0%
GTTGGACTAATGAATTTAGT+TGG + Chr8:66092804-66092823 MsG0880045895.01.T01:CDS 30.0%
TAACTGAAAATTCCCTTTCA+GGG - Chr8:66092767-66092786 None:intergenic 30.0%
! AAATTTGGTGAAAGAAGTGA+GGG + Chr8:66092885-66092904 MsG0880045895.01.T01:CDS 30.0%
! AATTTAGTTGGTTCTTGGTT+TGG + Chr8:66092816-66092835 MsG0880045895.01.T01:CDS 30.0%
! TAAATTTGGTGAAAGAAGTG+AGG + Chr8:66092884-66092903 MsG0880045895.01.T01:CDS 30.0%
ACATCAATTTCAGTGACAGT+TGG + Chr8:66092786-66092805 MsG0880045895.01.T01:CDS 35.0%
CTAGCAGGACAACATAAATT+TGG + Chr8:66092870-66092889 MsG0880045895.01.T01:CDS 35.0%
GTAACTGAAAATTCCCTTTC+AGG - Chr8:66092768-66092787 None:intergenic 35.0%
! AACAGATCTTTTCCCTGAAA+GGG + Chr8:66092752-66092771 MsG0880045895.01.T01:CDS 35.0%
! CAATTTCCTGTTCGGATTTT+AGG + Chr8:66092991-66093010 MsG0880045895.01.T01:CDS 35.0%
! GGTTTTGCAAAACTGGTATT+GGG + Chr8:66092928-66092947 MsG0880045895.01.T01:CDS 35.0%
!! TGGTTTTGCAAAACTGGTAT+TGG + Chr8:66092927-66092946 MsG0880045895.01.T01:CDS 35.0%
!!! ACTTCTTGGTTTTGCAAAAC+TGG + Chr8:66092921-66092940 MsG0880045895.01.T01:CDS 35.0%
AACACACCTAAAATCCGAAC+AGG - Chr8:66093000-66093019 None:intergenic 40.0%
! AAAACTGGTATTGGGATTGC+AGG + Chr8:66092936-66092955 MsG0880045895.01.T01:CDS 40.0%
! CAACAGATCTTTTCCCTGAA+AGG + Chr8:66092751-66092770 MsG0880045895.01.T01:CDS 40.0%
! GTATTGGGATTGCAGGTTTT+AGG + Chr8:66092943-66092962 MsG0880045895.01.T01:CDS 40.0%
!! ACTGAGTTCAGCATTGACAA+TGG - Chr8:66092711-66092730 None:intergenic 40.0%
!! AGCATTGACAATGGAAGTTG+TGG - Chr8:66092702-66092721 None:intergenic 40.0%
!!! GCAGGTTTTAGGAACATCTT+AGG + Chr8:66092954-66092973 MsG0880045895.01.T01:CDS 40.0%
!!! GGTGTGTTGATTTTGTTTGC+TGG + Chr8:66093012-66093031 MsG0880045895.01.T01:CDS 40.0%
TTGGTGAAAGAAGTGAGGGT+GGG + Chr8:66092889-66092908 MsG0880045895.01.T01:CDS 45.0%
TTTGGTGAAAGAAGTGAGGG+TGG + Chr8:66092888-66092907 MsG0880045895.01.T01:CDS 45.0%
CCACCAACACCATGACAAGT+TGG - Chr8:66092849-66092868 None:intergenic 50.0%
GTGCCAACTTGTCATGGTGT+TGG + Chr8:66092843-66092862 MsG0880045895.01.T01:CDS 50.0%
TGGTGAAAGAAGTGAGGGTG+GGG + Chr8:66092890-66092909 MsG0880045895.01.T01:CDS 50.0%
! CCAACTTGTCATGGTGTTGG+TGG + Chr8:66092846-66092865 MsG0880045895.01.T01:CDS 50.0%
! GGTGCTGTGCCAACTTGTCA+TGG + Chr8:66092837-66092856 MsG0880045895.01.T01:CDS 55.0%
!! CATGGTGTTGGTGGACTAGC+AGG + Chr8:66092855-66092874 MsG0880045895.01.T01:CDS 55.0%
AGAAGTGAGGGTGGGGTGTG+TGG + Chr8:66092897-66092916 MsG0880045895.01.T01:CDS 60.0%
GTGGGGTGTGTGGCACTTCT+TGG + Chr8:66092907-66092926 MsG0880045895.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr8 gene 66092648 66093040 66092648 ID=MsG0880045895.01;Name=MsG0880045895.01
Chr8 mRNA 66092648 66093040 66092648 ID=MsG0880045895.01.T01;Parent=MsG0880045895.01;Name=MsG0880045895.01.T01;_AED=0.17;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|130
Chr8 exon 66092648 66093040 66092648 ID=MsG0880045895.01.T01:exon:13708;Parent=MsG0880045895.01.T01
Chr8 CDS 66092648 66093040 66092648 ID=MsG0880045895.01.T01:cds;Parent=MsG0880045895.01.T01
Gene Sequence

>MsG0880045895.01.T01

ATGAAATTCACTAAACAAAATTGGATAAAAGATTTTATTAAAGGTGCAATTCCACAACTTCCATTGTCAATGCTGAACTCAGTGATAGCTGTTTGTAAATTGTCAACAGATCTTTTCCCTGAAAGGGAATTTTCAGTTACATCAATTTCAGTGACAGTTGGACTAATGAATTTAGTTGGTTCTTGGTTTGGTGCTGTGCCAACTTGTCATGGTGTTGGTGGACTAGCAGGACAACATAAATTTGGTGAAAGAAGTGAGGGTGGGGTGTGTGGCACTTCTTGGTTTTGCAAAACTGGTATTGGGATTGCAGGTTTTAGGAACATCTTAGGCACACATTTTACAACAATTTCCTGTTCGGATTTTAGGTGTGTTGATTTTGTTTGCTGGTATTGA

Protein sequence

>MsG0880045895.01.T01

MKFTKQNWIKDFIKGAIPQLPLSMLNSVIAVCKLSTDLFPEREFSVTSISVTVGLMNLVGSWFGAVPTCHGVGGLAGQHKFGERSEGGVCGTSWFCKTGIGIAGFRNILGTHFTTISCSDFRCVDFVCWY*