AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0080048918.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048918.01.T01 MTR_2g067610 99.123 114 1 0 1 114 216 329 1.31e-81 242
MsG0080048918.01.T01 MTR_2g067610 39.773 88 53 0 4 91 49 136 2.05e-15 70.5
MsG0080048918.01.T01 MTR_2g088390 99.123 114 1 0 1 114 334 447 7.64e-81 244
MsG0080048918.01.T01 MTR_2g088390 39.773 88 53 0 4 91 167 254 1.90e-15 71.2
MsG0080048918.01.T01 MTR_6g059930 59.821 112 44 1 2 113 308 418 5.58e-46 153
MsG0080048918.01.T01 MTR_6g059930 34.043 94 61 1 7 100 141 233 2.27e-13 65.1
MsG0080048918.01.T01 MTR_6g059930 59.821 112 44 1 2 113 340 450 9.68e-46 153
MsG0080048918.01.T01 MTR_6g059930 34.043 94 61 1 7 100 173 265 1.84e-13 65.5
MsG0080048918.01.T01 MTR_5g072520 62.136 103 39 0 2 104 186 288 5.14e-44 148
MsG0080048918.01.T01 MTR_2g088750 45.455 99 54 0 1 99 225 323 1.41e-28 106
MsG0080048918.01.T01 MTR_2g088750 32.143 84 57 0 7 90 88 171 5.26e-12 61.2
MsG0080048918.01.T01 MTR_1g054885 47.561 82 41 2 33 113 2 82 1.60e-18 73.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0080048918.01.T01 AT5G57930 83.333 114 19 0 1 114 330 443 2.01e-70 217
MsG0080048918.01.T01 AT5G57930 40.449 89 53 0 3 91 162 250 1.09e-17 77.4
MsG0080048918.01.T01 AT5G57930 83.333 114 19 0 1 114 327 440 2.34e-70 217
MsG0080048918.01.T01 AT5G57930 40.449 89 53 0 3 91 159 247 1.10e-17 77.4
MsG0080048918.01.T01 AT1G64810 52.679 112 52 1 2 113 325 435 4.72e-41 140
MsG0080048918.01.T01 AT1G64810 35.227 88 57 0 4 91 153 240 2.72e-14 67.8
MsG0080048918.01.T01 AT1G64810 52.679 112 52 1 2 113 349 459 4.94e-41 141
MsG0080048918.01.T01 AT1G64810 35.227 88 57 0 4 91 177 264 2.27e-14 68.2
MsG0080048918.01.T01 AT5G61930 58.654 104 42 1 2 104 290 393 3.21e-40 137
MsG0080048918.01.T01 AT5G61930 58.654 104 42 1 2 104 290 393 3.21e-40 137
MsG0080048918.01.T01 AT3G21740 41.837 98 57 0 1 98 223 320 3.19e-23 92.0
MsG0080048918.01.T01 AT3G21740 28.261 92 66 0 1 92 82 173 5.92e-12 60.8

Find 40 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGGGGCCAACATGAATTTC+AGG 0.229614 contig539end:-19833 MsG0080048918.01.T01:intergenic
CATGCTGCCCATTGCGTTGT+TGG 0.366370 contig539end:-19892 MsG0080048918.01.T01:intergenic
ATTGTTGATTTATATTGTTC+TGG 0.374651 contig539end:-20070 MsG0080048918.01.T01:intergenic
AACTCTTAAAGAAGCTGAAA+TGG 0.397356 contig539end:+20117 MsG0080048918.01.T01:CDS
ACAAACACCAACAACGCAAT+GGG 0.400408 contig539end:+19885 MsG0080048918.01.T01:CDS
CACAAACACCAACAACGCAA+TGG 0.418316 contig539end:+19884 MsG0080048918.01.T01:CDS
CAACAATGCGCCTTGATGTC+GGG 0.421177 contig539end:+20086 MsG0080048918.01.T01:CDS
TCAGCTTCTTTAAGAGTTGA+AGG 0.442885 contig539end:-20112 MsG0080048918.01.T01:intergenic
GAATTTCTACGGACAGGCTC+CGG 0.455934 contig539end:+20009 MsG0080048918.01.T01:CDS
CTACGGACAGGCTCCGGCTG+TGG 0.457844 contig539end:+20015 MsG0080048918.01.T01:CDS
TGTGGTGGAAATGTGCATTC+AGG 0.470274 contig539end:+20033 MsG0080048918.01.T01:CDS
GGCACAAAGCTCAAAATTGT+GGG 0.472497 contig539end:+19858 MsG0080048918.01.T01:CDS
AGTGGTGGTCCGTTTACATC+AGG 0.485410 contig539end:-19971 MsG0080048918.01.T01:intergenic
AAATTCATGTTGGCCCCAGC+GGG 0.486646 contig539end:+19837 MsG0080048918.01.T01:CDS
GGGCACAAAGCTCAAAATTG+TGG 0.496832 contig539end:+19857 MsG0080048918.01.T01:CDS
CGGACAGGCTCCGGCTGTGG+TGG 0.501720 contig539end:+20018 MsG0080048918.01.T01:CDS
GCTTAAGAATTTCTACGGAC+AGG 0.509932 contig539end:+20003 MsG0080048918.01.T01:CDS
TGGGGCCAACATGAATTTCA+GGG 0.515791 contig539end:-19832 MsG0080048918.01.T01:intergenic
CGAGAGCTTAAGAATTTCTA+CGG 0.525937 contig539end:+19998 MsG0080048918.01.T01:CDS
GGAACATGCCACACAAATCT+CGG 0.526596 contig539end:-19950 MsG0080048918.01.T01:intergenic
TCAACAATGCGCCTTGATGT+CGG 0.526989 contig539end:+20085 MsG0080048918.01.T01:CDS
AACGCAATGGGCAGCATGGT+TGG 0.540595 contig539end:+19897 MsG0080048918.01.T01:CDS
ATGTACCACGTGAGGGTCTG+TGG 0.544175 contig539end:+19803 MsG0080048918.01.T01:CDS
TGGCATGTTCCTGATGTAAA+CGG 0.545448 contig539end:+19962 MsG0080048918.01.T01:CDS
TTCTTAAGCTCTCGTTCTAG+TGG 0.551263 contig539end:-19989 MsG0080048918.01.T01:intergenic
CAGCTTCTTTAAGAGTTGAA+GGG 0.551992 contig539end:-20111 MsG0080048918.01.T01:intergenic
TTGAAGGGATCCCGACATCA+AGG 0.558127 contig539end:-20096 MsG0080048918.01.T01:intergenic
ATGCACATTTCCACCACAGC+CGG 0.563071 contig539end:-20028 MsG0080048918.01.T01:intergenic
GTGGAAATGTGCATTCAGGC+TGG 0.577493 contig539end:+20037 MsG0080048918.01.T01:CDS
TTAAGCTCTCGTTCTAGTGG+TGG 0.579997 contig539end:-19986 MsG0080048918.01.T01:intergenic
CAACAACGCAATGGGCAGCA+TGG 0.607620 contig539end:+19893 MsG0080048918.01.T01:CDS
TTTGAGCTTTGTGCCCGCTG+GGG 0.618785 contig539end:-19850 MsG0080048918.01.T01:intergenic
TATTGCCCTGAAATTCATGT+TGG 0.628271 contig539end:+19827 MsG0080048918.01.T01:CDS
GAAATTCATGTTGGCCCCAG+CGG 0.630747 contig539end:+19836 MsG0080048918.01.T01:CDS
TAATGAGGATGTACCACGTG+AGG 0.636087 contig539end:+19795 MsG0080048919.01.T01:exon
TGATACCGCCGAGATTTGTG+TGG 0.637899 contig539end:+19942 MsG0080048918.01.T01:CDS
GCACAAAGCTCAAAATTGTG+GGG 0.649190 contig539end:+19859 MsG0080048918.01.T01:CDS
AATGAGGATGTACCACGTGA+GGG 0.692974 contig539end:+19796 MsG0080048919.01.T01:exon
AATATCCACAGACCCTCACG+TGG 0.720615 contig539end:-19808 MsG0080048917.01.T01:intergenic
ACATGCCACACAAATCTCGG+CGG 0.769535 contig539end:-19947 MsG0080048917.01.T01:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGTTGATTTATATTGTTC+TGG - contig539end:20073-20092 MsG0080048918.01.T01:intergenic 20.0%
AACTCTTAAAGAAGCTGAAA+TGG + contig539end:20117-20136 MsG0080048918.01.T01:CDS 30.0%
CGAGAGCTTAAGAATTTCTA+CGG + contig539end:19998-20017 MsG0080048918.01.T01:CDS 35.0%
TATTGCCCTGAAATTCATGT+TGG + contig539end:19827-19846 MsG0080048918.01.T01:CDS 35.0%
! CAGCTTCTTTAAGAGTTGAA+GGG - contig539end:20114-20133 MsG0080048918.01.T01:intergenic 35.0%
! TCAGCTTCTTTAAGAGTTGA+AGG - contig539end:20115-20134 MsG0080048918.01.T01:intergenic 35.0%
ACAAACACCAACAACGCAAT+GGG + contig539end:19885-19904 MsG0080048918.01.T01:CDS 40.0%
GCACAAAGCTCAAAATTGTG+GGG + contig539end:19859-19878 MsG0080048918.01.T01:CDS 40.0%
GCTTAAGAATTTCTACGGAC+AGG + contig539end:20003-20022 MsG0080048918.01.T01:CDS 40.0%
GGCACAAAGCTCAAAATTGT+GGG + contig539end:19858-19877 MsG0080048918.01.T01:CDS 40.0%
TGGCATGTTCCTGATGTAAA+CGG + contig539end:19962-19981 MsG0080048918.01.T01:CDS 40.0%
TTCTTAAGCTCTCGTTCTAG+TGG - contig539end:19992-20011 MsG0080048918.01.T01:intergenic 40.0%
CACAAACACCAACAACGCAA+TGG + contig539end:19884-19903 MsG0080048918.01.T01:CDS 45.0%
GGAACATGCCACACAAATCT+CGG - contig539end:19953-19972 MsG0080048918.01.T01:intergenic 45.0%
GGGCACAAAGCTCAAAATTG+TGG + contig539end:19857-19876 MsG0080048918.01.T01:CDS 45.0%
TCAACAATGCGCCTTGATGT+CGG + contig539end:20085-20104 MsG0080048918.01.T01:CDS 45.0%
TGGGGCCAACATGAATTTCA+GGG - contig539end:19835-19854 MsG0080048918.01.T01:intergenic 45.0%
TTAAGCTCTCGTTCTAGTGG+TGG - contig539end:19989-20008 MsG0080048918.01.T01:intergenic 45.0%
! TGTGGTGGAAATGTGCATTC+AGG + contig539end:20033-20052 MsG0080048918.01.T01:CDS 45.0%
AAATTCATGTTGGCCCCAGC+GGG + contig539end:19837-19856 MsG0080048918.01.T01:CDS 50.0%
AATATCCACAGACCCTCACG+TGG - contig539end:19811-19830 MsG0080048918.01.T01:intergenic 50.0%
ACATGCCACACAAATCTCGG+CGG - contig539end:19950-19969 MsG0080048918.01.T01:intergenic 50.0%
AGTGGTGGTCCGTTTACATC+AGG - contig539end:19974-19993 MsG0080048918.01.T01:intergenic 50.0%
ATGCACATTTCCACCACAGC+CGG - contig539end:20031-20050 MsG0080048918.01.T01:intergenic 50.0%
CAACAATGCGCCTTGATGTC+GGG + contig539end:20086-20105 MsG0080048918.01.T01:CDS 50.0%
CTGGGGCCAACATGAATTTC+AGG - contig539end:19836-19855 MsG0080048918.01.T01:intergenic 50.0%
GAAATTCATGTTGGCCCCAG+CGG + contig539end:19836-19855 MsG0080048918.01.T01:CDS 50.0%
GAATTTCTACGGACAGGCTC+CGG + contig539end:20009-20028 MsG0080048918.01.T01:CDS 50.0%
GTGGAAATGTGCATTCAGGC+TGG + contig539end:20037-20056 MsG0080048918.01.T01:CDS 50.0%
TGATACCGCCGAGATTTGTG+TGG + contig539end:19942-19961 MsG0080048918.01.T01:CDS 50.0%
TTGAAGGGATCCCGACATCA+AGG - contig539end:20099-20118 MsG0080048918.01.T01:intergenic 50.0%
!! ATTTTGAGCTTTGTGCCCGC+TGG - contig539end:19855-19874 MsG0080048918.01.T01:intergenic 50.0%
!! TTTTGAGCTTTGTGCCCGCT+GGG - contig539end:19854-19873 MsG0080048918.01.T01:intergenic 50.0%
AACGCAATGGGCAGCATGGT+TGG + contig539end:19897-19916 MsG0080048918.01.T01:CDS 55.0%
ATGTACCACGTGAGGGTCTG+TGG + contig539end:19803-19822 MsG0080048918.01.T01:CDS 55.0%
CAACAACGCAATGGGCAGCA+TGG + contig539end:19893-19912 MsG0080048918.01.T01:CDS 55.0%
CATGCTGCCCATTGCGTTGT+TGG - contig539end:19895-19914 MsG0080048918.01.T01:intergenic 55.0%
! TTTGAGCTTTGTGCCCGCTG+GGG - contig539end:19853-19872 MsG0080048918.01.T01:intergenic 55.0%
CTACGGACAGGCTCCGGCTG+TGG + contig539end:20015-20034 MsG0080048918.01.T01:CDS 70.0%
CGGACAGGCTCCGGCTGTGG+TGG + contig539end:20018-20037 MsG0080048918.01.T01:CDS 75.0%
Chromosome Type Strat End Strand Name
contig539end gene 19803 20147 19803 ID=MsG0080048918.01;Name=MsG0080048918.01
contig539end mRNA 19803 20147 19803 ID=MsG0080048918.01.T01;Parent=MsG0080048918.01;Name=MsG0080048918.01.T01;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|114
contig539end exon 19803 20147 19803 ID=MsG0080048918.01.T01:exon:6993;Parent=MsG0080048918.01.T01
contig539end CDS 19803 20147 19803 ID=MsG0080048918.01.T01:cds;Parent=MsG0080048918.01.T01
Gene Sequence

>MsG0080048918.01.T01

ATGTACCACGTGAGGGTCTGTGGATATTGCCCTGAAATTCATGTTGGCCCCAGCGGGCACAAAGCTCAAAATTGTGGGGCACACAAACACCAACAACGCAATGGGCAGCATGGTTGGCAATCTGCAGTGCTTGATGACTTGATACCGCCGAGATTTGTGTGGCATGTTCCTGATGTAAACGGACCACCACTAGAACGAGAGCTTAAGAATTTCTACGGACAGGCTCCGGCTGTGGTGGAAATGTGCATTCAGGCTGGTGCTGCTTTACCAGAACAATATAAATCAACAATGCGCCTTGATGTCGGGATCCCTTCAACTCTTAAAGAAGCTGAAATGGTAGTTTGA

Protein sequence

>MsG0080048918.01.T01

MYHVRVCGYCPEIHVGPSGHKAQNCGAHKHQQRNGQHGWQSAVLDDLIPPRFVWHVPDVNGPPLERELKNFYGQAPAVVEMCIQAGAALPEQYKSTMRLDVGIPSTLKEAEMVV*