AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010605.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010605.01.T01 MTR_2g067610 99.123 114 1 0 1 114 216 329 1.31e-81 242
MsG0280010605.01.T01 MTR_2g067610 39.773 88 53 0 4 91 49 136 2.05e-15 70.5
MsG0280010605.01.T01 MTR_2g088390 99.123 114 1 0 1 114 334 447 7.64e-81 244
MsG0280010605.01.T01 MTR_2g088390 39.773 88 53 0 4 91 167 254 1.90e-15 71.2
MsG0280010605.01.T01 MTR_6g059930 59.821 112 44 1 2 113 308 418 5.58e-46 153
MsG0280010605.01.T01 MTR_6g059930 34.043 94 61 1 7 100 141 233 2.27e-13 65.1
MsG0280010605.01.T01 MTR_6g059930 59.821 112 44 1 2 113 340 450 9.68e-46 153
MsG0280010605.01.T01 MTR_6g059930 34.043 94 61 1 7 100 173 265 1.84e-13 65.5
MsG0280010605.01.T01 MTR_5g072520 62.136 103 39 0 2 104 186 288 5.14e-44 148
MsG0280010605.01.T01 MTR_2g088750 45.455 99 54 0 1 99 225 323 1.41e-28 106
MsG0280010605.01.T01 MTR_2g088750 32.143 84 57 0 7 90 88 171 5.26e-12 61.2
MsG0280010605.01.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
MsG0280010605.01.T01 AT5G57930 83.333 114 19 0 1 114 330 443 2.01e-70 217
MsG0280010605.01.T01 AT5G57930 40.449 89 53 0 3 91 162 250 1.09e-17 77.4
MsG0280010605.01.T01 AT5G57930 83.333 114 19 0 1 114 327 440 2.34e-70 217
MsG0280010605.01.T01 AT5G57930 40.449 89 53 0 3 91 159 247 1.10e-17 77.4
MsG0280010605.01.T01 AT1G64810 52.679 112 52 1 2 113 325 435 4.72e-41 140
MsG0280010605.01.T01 AT1G64810 35.227 88 57 0 4 91 153 240 2.72e-14 67.8
MsG0280010605.01.T01 AT1G64810 52.679 112 52 1 2 113 349 459 4.94e-41 141
MsG0280010605.01.T01 AT1G64810 35.227 88 57 0 4 91 177 264 2.27e-14 68.2
MsG0280010605.01.T01 AT5G61930 58.654 104 42 1 2 104 290 393 3.21e-40 137
MsG0280010605.01.T01 AT5G61930 58.654 104 42 1 2 104 290 393 3.21e-40 137
MsG0280010605.01.T01 AT3G21740 41.837 98 57 0 1 98 223 320 3.19e-23 92.0
MsG0280010605.01.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 2:+72132576 None:intergenic
CATGCTGCCCATTGCGTTGT+TGG 0.366370 2:+72132517 None:intergenic
ATTGTTGATTTATATTGTTC+TGG 0.374651 2:+72132339 None:intergenic
AACTCTTAAAGAAGCTGAAA+TGG 0.397356 2:-72132292 MsG0280010605.01.T01:CDS
ACAAACACCAACAACGCAAT+GGG 0.400408 2:-72132524 MsG0280010605.01.T01:CDS
CACAAACACCAACAACGCAA+TGG 0.418316 2:-72132525 MsG0280010605.01.T01:CDS
CAACAATGCGCCTTGATGTC+GGG 0.421177 2:-72132323 MsG0280010605.01.T01:CDS
TCAGCTTCTTTAAGAGTTGA+AGG 0.442885 2:+72132297 None:intergenic
GAATTTCTACGGACAGGCTC+CGG 0.455934 2:-72132400 MsG0280010605.01.T01:CDS
CTACGGACAGGCTCCGGCTG+TGG 0.457844 2:-72132394 MsG0280010605.01.T01:CDS
TGTGGTGGAAATGTGCATTC+AGG 0.470274 2:-72132376 MsG0280010605.01.T01:CDS
GGCACAAAGCTCAAAATTGT+GGG 0.472497 2:-72132551 MsG0280010605.01.T01:CDS
AGTGGTGGTCCGTTTACATC+AGG 0.485410 2:+72132438 None:intergenic
AAATTCATGTTGGCCCCAGC+GGG 0.486646 2:-72132572 MsG0280010605.01.T01:CDS
GGGCACAAAGCTCAAAATTG+TGG 0.496832 2:-72132552 MsG0280010605.01.T01:CDS
CGGACAGGCTCCGGCTGTGG+TGG 0.501720 2:-72132391 MsG0280010605.01.T01:CDS
GCTTAAGAATTTCTACGGAC+AGG 0.509932 2:-72132406 MsG0280010605.01.T01:CDS
TGGGGCCAACATGAATTTCA+GGG 0.515791 2:+72132577 None:intergenic
CGAGAGCTTAAGAATTTCTA+CGG 0.525937 2:-72132411 MsG0280010605.01.T01:CDS
GGAACATGCCACACAAATCT+CGG 0.526596 2:+72132459 None:intergenic
TCAACAATGCGCCTTGATGT+CGG 0.526989 2:-72132324 MsG0280010605.01.T01:CDS
AACGCAATGGGCAGCATGGT+TGG 0.540595 2:-72132512 MsG0280010605.01.T01:CDS
ATGTACCACGTGAGGGTCTG+TGG 0.544175 2:-72132606 MsG0280010605.01.T01:CDS
TGGCATGTTCCTGATGTAAA+CGG 0.545448 2:-72132447 MsG0280010605.01.T01:CDS
TTCTTAAGCTCTCGTTCTAG+TGG 0.551263 2:+72132420 None:intergenic
CAGCTTCTTTAAGAGTTGAA+GGG 0.551992 2:+72132298 None:intergenic
TTGAAGGGATCCCGACATCA+AGG 0.558127 2:+72132313 None:intergenic
ATGCACATTTCCACCACAGC+CGG 0.563071 2:+72132381 None:intergenic
GTGGAAATGTGCATTCAGGC+TGG 0.577493 2:-72132372 MsG0280010605.01.T01:CDS
TTAAGCTCTCGTTCTAGTGG+TGG 0.579997 2:+72132423 None:intergenic
CAACAACGCAATGGGCAGCA+TGG 0.607620 2:-72132516 MsG0280010605.01.T01:CDS
TTTGAGCTTTGTGCCCGCTG+GGG 0.618785 2:+72132559 None:intergenic
TATTGCCCTGAAATTCATGT+TGG 0.628271 2:-72132582 MsG0280010605.01.T01:CDS
GAAATTCATGTTGGCCCCAG+CGG 0.630747 2:-72132573 MsG0280010605.01.T01:CDS
TAATGAGGATGTACCACGTG+AGG 0.636087 2:-72132614 None:intergenic
TGATACCGCCGAGATTTGTG+TGG 0.637899 2:-72132467 MsG0280010605.01.T01:CDS
GCACAAAGCTCAAAATTGTG+GGG 0.649190 2:-72132550 MsG0280010605.01.T01:CDS
AATGAGGATGTACCACGTGA+GGG 0.692974 2:-72132613 None:intergenic
AATATCCACAGACCCTCACG+TGG 0.720615 2:+72132601 None:intergenic
ACATGCCACACAAATCTCGG+CGG 0.769535 2:+72132462 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTGTTGATTTATATTGTTC+TGG + Chr2:72132554-72132573 None:intergenic 20.0%
AACTCTTAAAGAAGCTGAAA+TGG - Chr2:72132598-72132617 MsG0280010605.01.T01:CDS 30.0%
CGAGAGCTTAAGAATTTCTA+CGG - Chr2:72132479-72132498 MsG0280010605.01.T01:CDS 35.0%
TATTGCCCTGAAATTCATGT+TGG - Chr2:72132308-72132327 MsG0280010605.01.T01:CDS 35.0%
! CAGCTTCTTTAAGAGTTGAA+GGG + Chr2:72132595-72132614 None:intergenic 35.0%
! TCAGCTTCTTTAAGAGTTGA+AGG + Chr2:72132596-72132615 None:intergenic 35.0%
ACAAACACCAACAACGCAAT+GGG - Chr2:72132366-72132385 MsG0280010605.01.T01:CDS 40.0%
GCACAAAGCTCAAAATTGTG+GGG - Chr2:72132340-72132359 MsG0280010605.01.T01:CDS 40.0%
GCTTAAGAATTTCTACGGAC+AGG - Chr2:72132484-72132503 MsG0280010605.01.T01:CDS 40.0%
GGCACAAAGCTCAAAATTGT+GGG - Chr2:72132339-72132358 MsG0280010605.01.T01:CDS 40.0%
TGGCATGTTCCTGATGTAAA+CGG - Chr2:72132443-72132462 MsG0280010605.01.T01:CDS 40.0%
TTCTTAAGCTCTCGTTCTAG+TGG + Chr2:72132473-72132492 None:intergenic 40.0%
CACAAACACCAACAACGCAA+TGG - Chr2:72132365-72132384 MsG0280010605.01.T01:CDS 45.0%
GGAACATGCCACACAAATCT+CGG + Chr2:72132434-72132453 None:intergenic 45.0%
GGGCACAAAGCTCAAAATTG+TGG - Chr2:72132338-72132357 MsG0280010605.01.T01:CDS 45.0%
TCAACAATGCGCCTTGATGT+CGG - Chr2:72132566-72132585 MsG0280010605.01.T01:CDS 45.0%
TGGGGCCAACATGAATTTCA+GGG + Chr2:72132316-72132335 None:intergenic 45.0%
TTAAGCTCTCGTTCTAGTGG+TGG + Chr2:72132470-72132489 None:intergenic 45.0%
! TGTGGTGGAAATGTGCATTC+AGG - Chr2:72132514-72132533 MsG0280010605.01.T01:CDS 45.0%
AAATTCATGTTGGCCCCAGC+GGG - Chr2:72132318-72132337 MsG0280010605.01.T01:CDS 50.0%
AATATCCACAGACCCTCACG+TGG + Chr2:72132292-72132311 None:intergenic 50.0%
ACATGCCACACAAATCTCGG+CGG + Chr2:72132431-72132450 None:intergenic 50.0%
AGTGGTGGTCCGTTTACATC+AGG + Chr2:72132455-72132474 None:intergenic 50.0%
ATGCACATTTCCACCACAGC+CGG + Chr2:72132512-72132531 None:intergenic 50.0%
CAACAATGCGCCTTGATGTC+GGG - Chr2:72132567-72132586 MsG0280010605.01.T01:CDS 50.0%
CTGGGGCCAACATGAATTTC+AGG + Chr2:72132317-72132336 None:intergenic 50.0%
GAAATTCATGTTGGCCCCAG+CGG - Chr2:72132317-72132336 MsG0280010605.01.T01:CDS 50.0%
GAATTTCTACGGACAGGCTC+CGG - Chr2:72132490-72132509 MsG0280010605.01.T01:CDS 50.0%
GTGGAAATGTGCATTCAGGC+TGG - Chr2:72132518-72132537 MsG0280010605.01.T01:CDS 50.0%
TGATACCGCCGAGATTTGTG+TGG - Chr2:72132423-72132442 MsG0280010605.01.T01:CDS 50.0%
TTGAAGGGATCCCGACATCA+AGG + Chr2:72132580-72132599 None:intergenic 50.0%
!! ATTTTGAGCTTTGTGCCCGC+TGG + Chr2:72132336-72132355 None:intergenic 50.0%
!! TTTTGAGCTTTGTGCCCGCT+GGG + Chr2:72132335-72132354 None:intergenic 50.0%
AACGCAATGGGCAGCATGGT+TGG - Chr2:72132378-72132397 MsG0280010605.01.T01:CDS 55.0%
ATGTACCACGTGAGGGTCTG+TGG - Chr2:72132284-72132303 MsG0280010605.01.T01:CDS 55.0%
CAACAACGCAATGGGCAGCA+TGG - Chr2:72132374-72132393 MsG0280010605.01.T01:CDS 55.0%
CATGCTGCCCATTGCGTTGT+TGG + Chr2:72132376-72132395 None:intergenic 55.0%
! TTTGAGCTTTGTGCCCGCTG+GGG + Chr2:72132334-72132353 None:intergenic 55.0%
CTACGGACAGGCTCCGGCTG+TGG - Chr2:72132496-72132515 MsG0280010605.01.T01:CDS 70.0%
CGGACAGGCTCCGGCTGTGG+TGG - Chr2:72132499-72132518 MsG0280010605.01.T01:CDS 75.0%
Chromosome Type Strat End Strand Name
Chr2 gene 72132284 72132628 72132284 ID=MsG0280010605.01;Name=MsG0280010605.01
Chr2 mRNA 72132284 72132628 72132284 ID=MsG0280010605.01.T01;Parent=MsG0280010605.01;Name=MsG0280010605.01.T01;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|114
Chr2 exon 72132284 72132628 72132284 ID=MsG0280010605.01.T01:exon:6993;Parent=MsG0280010605.01.T01
Chr2 CDS 72132284 72132628 72132284 ID=MsG0280010605.01.T01:cds;Parent=MsG0280010605.01.T01
Gene Sequence

>MsG0280010605.01.T01

ATGTACCACGTGAGGGTCTGTGGATATTGCCCTGAAATTCATGTTGGCCCCAGCGGGCACAAAGCTCAAAATTGTGGGGCACACAAACACCAACAACGCAATGGGCAGCATGGTTGGCAATCTGCAGTGCTTGATGACTTGATACCGCCGAGATTTGTGTGGCATGTTCCTGATGTAAACGGACCACCACTAGAACGAGAGCTTAAGAATTTCTACGGACAGGCTCCGGCTGTGGTGGAAATGTGCATTCAGGCTGGTGCTGCTTTACCAGAACAATATAAATCAACAATGCGCCTTGATGTCGGGATCCCTTCAACTCTTAAAGAAGCTGAAATGGTAGTTTGA

Protein sequence

>MsG0280010605.01.T01

MYHVRVCGYCPEIHVGPSGHKAQNCGAHKHQQRNGQHGWQSAVLDDLIPPRFVWHVPDVNGPPLERELKNFYGQAPAVVEMCIQAGAALPEQYKSTMRLDVGIPSTLKEAEMVV*