AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene75143

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75143.t1 MTR_1g115290 85.526 152 20 1 37 186 1 152 1.66e-92 267
MS.gene75143.t1 MTR_4g045977 62.736 212 71 3 1 204 1 212 8.76e-90 269
MS.gene75143.t1 MTR_4g107170 54.505 222 83 4 1 204 1 222 2.37e-76 230
MS.gene75143.t1 MTR_2g049610 47.449 196 94 3 1 194 1 189 2.63e-58 184
MS.gene75143.t1 MTR_2g049530 45.026 191 96 3 3 192 5 187 1.80e-53 170
MS.gene75143.t1 MTR_2g049630 51.316 152 72 2 2 152 4 154 6.74e-47 158
MS.gene75143.t1 MTR_6g018920 37.975 158 95 1 1 155 1 158 8.25e-37 131
MS.gene75143.t1 MTR_1g114730 38.608 158 94 1 1 155 1 158 3.92e-35 127
MS.gene75143.t1 MTR_6g005440 36.842 171 105 1 1 168 1 171 2.45e-34 124
MS.gene75143.t1 MTR_6g005450 33.520 179 116 1 1 176 1 179 2.15e-33 122
MS.gene75143.t1 MTR_3g466980 28.000 175 111 5 1 165 1 170 3.93e-13 66.2
MS.gene75143.t1 MTR_3g467080 29.448 163 103 6 1 154 1 160 2.91e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene75143.t1 AT5G55690 34.416 154 84 4 1 147 1 144 1.03e-15 73.9
MS.gene75143.t1 AT5G55690 34.416 154 84 4 1 147 1 144 1.03e-15 73.9
MS.gene75143.t1 AT1G22590 30.625 160 99 6 1 153 1 155 6.19e-11 58.9

Find 40 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTCCATGTTAACCAAATT+TGG 0.129467 1.1:-80924564 None:intergenic
TCCAACCTGGCATCCAAATT+TGG 0.186789 1.1:+80924551 MS.gene75143:CDS
CGGTCTTCGGGCCATGTTAT+TGG 0.257464 1.1:-80924375 None:intergenic
CACCGGACTTGACAGTATAT+TGG 0.275358 1.1:-80924305 None:intergenic
TTTACCATTGTACGGTCTTC+GGG 0.322440 1.1:-80924387 None:intergenic
GTTTACCATTGTACGGTCTT+CGG 0.346180 1.1:-80924388 None:intergenic
GTCGTTGACATCAAATATCT+TGG 0.367645 1.1:-80924454 None:intergenic
GTGATTACAAGCTTGAATCT+TGG 0.389216 1.1:-80924622 None:intergenic
ACCGGACTTGACAGTATATT+GGG 0.403520 1.1:-80924304 None:intergenic
TGTATGACACTGAGTGGGCT+TGG 0.425893 1.1:-80924696 None:intergenic
ATGAGGCAAACCAGCATGAT+TGG 0.434094 1.1:-80924775 None:intergenic
ATCATATGTTTAAATCAAGT+TGG 0.436280 1.1:-80924812 None:intergenic
TGATGTGTTGTTGCATTTGA+GGG 0.441139 1.1:-80924725 None:intergenic
GATGATATCTTTATGCACTT+TGG 0.458740 1.1:-80924517 None:intergenic
GTTAACCAAATTTGGATGCC+AGG 0.463541 1.1:-80924556 None:intergenic
ACCAAATTTGGATGCCAGGT+TGG 0.474376 1.1:-80924552 None:intergenic
TTGATGTGTTGTTGCATTTG+AGG 0.494636 1.1:-80924726 None:intergenic
TCCCAATATACTGTCAAGTC+CGG 0.507164 1.1:+80924303 MS.gene75143:CDS
TGGTTTGTTGATGAATTATG+AGG 0.510382 1.1:-80924792 None:intergenic
ACTTTCAAGCTAAGAAAAGC+TGG 0.511711 1.1:+80924264 MS.gene75143:CDS
GCATCCAAATTTGGTTAACA+TGG 0.520385 1.1:+80924560 MS.gene75143:CDS
CTTTGAAATTAAGAAAGCTA+AGG 0.524267 1.1:+80924479 MS.gene75143:CDS
TTTGTTTGTAGAATGGGTCG+TGG 0.527118 1.1:+80924195 None:intergenic
TTGATTGTGTATGATGATGA+TGG 0.527956 1.1:+80924339 MS.gene75143:CDS
TCGTTGACATCAAATATCTT+GGG 0.530959 1.1:-80924453 None:intergenic
GCATGGAGTTTACCATTGTA+CGG 0.551323 1.1:-80924395 None:intergenic
ATGCTCATACTCTTGAAGCA+TGG 0.571710 1.1:-80924412 None:intergenic
CAATCATGTTAGTGAGATGG+TGG 0.574738 1.1:+80924746 MS.gene75143:CDS
CATCAATCATGTTAGTGAGA+TGG 0.579763 1.1:+80924743 MS.gene75143:CDS
CATGTTGAAAAGTGAGATGG+TGG 0.605793 1.1:+80924653 MS.gene75143:CDS
CAACATGTTGAAAAGTGAGA+TGG 0.617799 1.1:+80924650 MS.gene75143:CDS
TGATGATGATGGCAATAATG+TGG 0.626471 1.1:+80924350 MS.gene75143:CDS
CAGCACTTAAGTCTCTGAGC+TGG 0.631241 1.1:-80924590 None:intergenic
TCAATATCAAATATCCAACC+TGG 0.635175 1.1:+80924538 MS.gene75143:CDS
ATAATGTGGGACCAATAACA+TGG 0.642393 1.1:+80924364 MS.gene75143:CDS
GATGATGATGGCAATAATGT+GGG 0.653668 1.1:+80924351 MS.gene75143:CDS
GTGGATATGACCAATCATGC+TGG 0.656704 1.1:+80924765 MS.gene75143:CDS
TGCTATGTATGACACTGAGT+GGG 0.671421 1.1:-80924701 None:intergenic
ATGCTATGTATGACACTGAG+TGG 0.718974 1.1:-80924702 None:intergenic
ATGGCCCGAAGACCGTACAA+TGG 0.720674 1.1:+80924383 MS.gene75143:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTGAAATTAAGAAAGCTA+AGG + chr1.1:80924479-80924498 MS.gene75143:CDS 25.0%
GATGATATCTTTATGCACTT+TGG - chr1.1:80924520-80924539 None:intergenic 30.0%
TCAATATCAAATATCCAACC+TGG + chr1.1:80924538-80924557 MS.gene75143:CDS 30.0%
TCGTTGACATCAAATATCTT+GGG - chr1.1:80924456-80924475 None:intergenic 30.0%
! TTGATTGTGTATGATGATGA+TGG + chr1.1:80924339-80924358 MS.gene75143:CDS 30.0%
!! TGGTTTGTTGATGAATTATG+AGG - chr1.1:80924795-80924814 None:intergenic 30.0%
ACTTTCAAGCTAAGAAAAGC+TGG + chr1.1:80924264-80924283 MS.gene75143:CDS 35.0%
ATAATGTGGGACCAATAACA+TGG + chr1.1:80924364-80924383 MS.gene75143:CDS 35.0%
CAACATGTTGAAAAGTGAGA+TGG + chr1.1:80924650-80924669 MS.gene75143:CDS 35.0%
CATCAATCATGTTAGTGAGA+TGG + chr1.1:80924743-80924762 MS.gene75143:CDS 35.0%
GCATCCAAATTTGGTTAACA+TGG + chr1.1:80924560-80924579 MS.gene75143:CDS 35.0%
GCTTCCATGTTAACCAAATT+TGG - chr1.1:80924567-80924586 None:intergenic 35.0%
GTCGTTGACATCAAATATCT+TGG - chr1.1:80924457-80924476 None:intergenic 35.0%
GTGATTACAAGCTTGAATCT+TGG - chr1.1:80924625-80924644 None:intergenic 35.0%
! AATCAAACAAGCTTTTGCAC+CGG - chr1.1:80924325-80924344 None:intergenic 35.0%
! TGATGTGTTGTTGCATTTGA+GGG - chr1.1:80924728-80924747 None:intergenic 35.0%
! TTGATGTGTTGTTGCATTTG+AGG - chr1.1:80924729-80924748 None:intergenic 35.0%
!! GATGATGATGGCAATAATGT+GGG + chr1.1:80924351-80924370 MS.gene75143:CDS 35.0%
!! TGATGATGATGGCAATAATG+TGG + chr1.1:80924350-80924369 MS.gene75143:CDS 35.0%
ACCGGACTTGACAGTATATT+GGG - chr1.1:80924307-80924326 None:intergenic 40.0%
ATGCTATGTATGACACTGAG+TGG - chr1.1:80924705-80924724 None:intergenic 40.0%
ATGCTCATACTCTTGAAGCA+TGG - chr1.1:80924415-80924434 None:intergenic 40.0%
CAATCATGTTAGTGAGATGG+TGG + chr1.1:80924746-80924765 MS.gene75143:CDS 40.0%
CATGTTGAAAAGTGAGATGG+TGG + chr1.1:80924653-80924672 MS.gene75143:CDS 40.0%
GCATGGAGTTTACCATTGTA+CGG - chr1.1:80924398-80924417 None:intergenic 40.0%
GTTAACCAAATTTGGATGCC+AGG - chr1.1:80924559-80924578 None:intergenic 40.0%
GTTTACCATTGTACGGTCTT+CGG - chr1.1:80924391-80924410 None:intergenic 40.0%
TCCCAATATACTGTCAAGTC+CGG + chr1.1:80924303-80924322 MS.gene75143:CDS 40.0%
TGCTATGTATGACACTGAGT+GGG - chr1.1:80924704-80924723 None:intergenic 40.0%
TTTACCATTGTACGGTCTTC+GGG - chr1.1:80924390-80924409 None:intergenic 40.0%
ACCAAATTTGGATGCCAGGT+TGG - chr1.1:80924555-80924574 None:intergenic 45.0%
ATGAGGCAAACCAGCATGAT+TGG - chr1.1:80924778-80924797 None:intergenic 45.0%
CACCGGACTTGACAGTATAT+TGG - chr1.1:80924308-80924327 None:intergenic 45.0%
GTGGATATGACCAATCATGC+TGG + chr1.1:80924765-80924784 MS.gene75143:CDS 45.0%
TCCAACCTGGCATCCAAATT+TGG + chr1.1:80924551-80924570 MS.gene75143:CDS 45.0%
CAGCACTTAAGTCTCTGAGC+TGG - chr1.1:80924593-80924612 None:intergenic 50.0%
! TGTATGACACTGAGTGGGCT+TGG - chr1.1:80924699-80924718 None:intergenic 50.0%
ATGGCCCGAAGACCGTACAA+TGG + chr1.1:80924383-80924402 MS.gene75143:CDS 55.0%
CGGTCTTCGGGCCATGTTAT+TGG - chr1.1:80924378-80924397 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 80924207 80924833 80924207 ID=MS.gene75143
chr1.1 mRNA 80924207 80924833 80924207 ID=MS.gene75143.t1;Parent=MS.gene75143
chr1.1 exon 80924207 80924833 80924207 ID=MS.gene75143.t1.exon1;Parent=MS.gene75143.t1
chr1.1 CDS 80924207 80924833 80924207 ID=cds.MS.gene75143.t1;Parent=MS.gene75143.t1
Gene Sequence

>MS.gene75143

ATGGGTCGTGGAAAAATAAATATGAAATACATCAAAAATGCGAAAGTACGCAAACAAACTTTCAAGCTAAGAAAAGCTGGACTAATGAAAAAAATTTCCCAATATACTGTCAAGTCCGGTGCAAAAGCTTGTTTGATTGTGTATGATGATGATGGCAATAATGTGGGACCAATAACATGGCCCGAAGACCGTACAATGGTAAACTCCATGCTTCAAGAGTATGAGCATCAAAAGATTGAGAATACACCCAAGATATTTGATGTCAACGACTACTTTGAAATTAAGAAAGCTAAGGTTAAAGCTGAAATTACCAAAGTGCATAAAGATATCATCAATATCAAATATCCAACCTGGCATCCAAATTTGGTTAACATGGAAGCGAGCCAGCTCAGAGACTTAAGTGCTGTTGTAGATGCCAAGATTCAAGCTTGTAATCACAAAATCAACATGTTGAAAAGTGAGATGGTGGAAGAGAATGTTGTTTTGAATCCAAGCCCACTCAGTGTCATACATAGCATCCCTCAAATGCAACAACACATCAATCATGTTAGTGAGATGGTGGATATGACCAATCATGCTGGTTTGCCTCATAATTCATCAACAAACCAACTTGATTTAAACATATGA
Protein sequence

>MS.gene75143.t1

MGRGKINMKYIKNAKVRKQTFKLRKAGLMKKISQYTVKSGAKACLIVYDDDGNNVGPITWPEDRTMVNSMLQEYEHQKIENTPKIFDVNDYFEIKKAKVKAEITKVHKDIINIKYPTWHPNLVNMEASQLRDLSAVVDAKIQACNHKINMLKSEMVEENVVLNPSPLSVIHSIPQMQQHINHVSEMVDMTNHAGLPHNSSTNQLDLNI