AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene30350


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene30350.t1 MTR_8g019660 95.184 353 10 3 1 351 58 405 0.0 679
MS.gene30350.t1 MTR_3g104880 48.069 233 92 9 121 345 160 371 7.33e-39 142
MS.gene30350.t1 MTR_4g125620 38.028 355 132 15 10 351 65 344 2.16e-28 113
MS.gene30350.t1 MTR_1g015275 39.161 286 116 8 67 337 123 365 3.99e-22 96.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene30350.t1 AT3G13980 50.896 279 88 10 78 351 123 357 1.28e-63 206
MS.gene30350.t1 AT1G54200 47.350 283 115 9 71 346 110 365 8.04e-54 181
MS.gene30350.t1 AT3G42800 31.707 287 153 15 70 351 93 341 3.24e-20 90.5

Find 41 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGATAATTTATCAGTAAT+TGG 0.114503 8.1:-79258164 MS.gene30350:CDS
TTCAATCCCAATAGAGTTAT+TGG 0.119420 8.1:-79258095 MS.gene30350:CDS
ATGTGATGCAAGAGAGTTTA+AGG 0.174902 8.1:-79258319 MS.gene30350:CDS
TCAGAAACACTTGTTCTAAT+TGG 0.223959 8.1:+79258866 None:intergenic
ACCATTTCCAATAACTCTAT+TGG 0.241032 8.1:+79258088 None:intergenic
AACATTGATTCATTTCAATA+TGG 0.291124 8.1:-79258836 MS.gene30350:CDS
AACTACTACAAATTCTGTTT+TGG 0.296788 8.1:-79258573 MS.gene30350:CDS
GAACAGAATGGTTATGGTTA+TGG 0.298193 8.1:+79258789 None:intergenic
TCTGATTCAGAATCATTCTA+TGG 0.300272 8.1:-79258905 MS.gene30350:CDS
ACACTTGTTCTAATTGGTTT+TGG 0.300946 8.1:+79258872 None:intergenic
CCCAATAGAGTTATTGGAAA+TGG 0.315105 8.1:-79258089 MS.gene30350:CDS
TATGGTTATGGTTATAGTTA+TGG 0.322181 8.1:+79258801 None:intergenic
CCATTTCCAATAACTCTATT+GGG 0.327955 8.1:+79258089 None:intergenic
AAGCAAGAAAGGTGGAGAAT+TGG 0.331562 8.1:-79259063 MS.gene30350:CDS
AAATGAGTAGTTTCATAAAC+TGG 0.342032 8.1:+79258116 None:intergenic
TGGATAATTTATCAGTAATT+GGG 0.347307 8.1:-79258163 MS.gene30350:CDS
GAGTTTGAACAGAATGGTTA+TGG 0.352789 8.1:+79258783 None:intergenic
TATTGAAATGAATCAATGTT+TGG 0.355365 8.1:+79258839 None:intergenic
TCATCAACAATTACACTAAC+AGG 0.363408 8.1:+79258437 None:intergenic
ATACAAAATTCTCAAAGCTT+TGG 0.378204 8.1:+79258721 None:intergenic
AGAGTAGTAGTGAAGAATTA+AGG 0.394514 8.1:-79258346 MS.gene30350:CDS
GAATTTGCATGAAGGTGAAA+AGG 0.410666 8.1:-79258390 MS.gene30350:CDS
TAGTTCTGATTTGTTTGAAT+TGG 0.413467 8.1:-79258183 MS.gene30350:CDS
TATCAGTAATTGGGATTGAA+AGG 0.444002 8.1:-79258154 MS.gene30350:CDS
TTAGCACCTGATCTTGATGA+AGG 0.453605 8.1:+79258479 None:intergenic
AAAACTCCTTCATCAAGATC+AGG 0.481984 8.1:-79258485 MS.gene30350:CDS
TCTTCAGAATCAAGTTCAGC+TGG 0.492878 8.1:-79258941 MS.gene30350:CDS
AATTTGCATGAAGGTGAAAA+GGG 0.494062 8.1:-79258389 MS.gene30350:CDS
AAGGGTTCTTCAATCTATGA+TGG 0.496294 8.1:-79258371 MS.gene30350:CDS
AAACTTCAGAAAAGCAAGAA+AGG 0.514735 8.1:-79259074 MS.gene30350:CDS
TGCAAATTCTTGTGTCCACA+AGG 0.543709 8.1:+79258404 None:intergenic
TGTGATGCAAGAGAGTTTAA+GGG 0.547284 8.1:-79258318 MS.gene30350:CDS
GATGAAGATGAAGATGATGA+TGG 0.547702 8.1:-79258218 MS.gene30350:CDS
TGGAATGAGAAAGTTGTGAA+TGG 0.552681 8.1:-79259043 MS.gene30350:CDS
AGAAGATGAACTTGAATGCA+TGG 0.580776 8.1:+79258961 None:intergenic
TCAGAATCAAGTTCAGCTGG+TGG 0.600576 8.1:-79258938 MS.gene30350:CDS
CTTCAGAAAAGCAAGAAAGG+TGG 0.635352 8.1:-79259071 MS.gene30350:CDS
ACAAAGCAACCTATTTCACC+TGG 0.653006 8.1:-79258683 MS.gene30350:CDS
GATGAAGATTGTAGACCTTG+TGG 0.657954 8.1:-79258419 MS.gene30350:CDS
GGACACAAGAATTTGCATGA+AGG 0.670978 8.1:-79258398 MS.gene30350:CDS
CAGGTGCTAAAAGATCAGTG+AGG 0.837686 8.1:-79258466 MS.gene30350:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGAAATGAATCAATGTT+TGG + chr8.1:79258349-79258368 None:intergenic 20.0%
!! TGGATAATTTATCAGTAATT+GGG - chr8.1:79259022-79259041 MS.gene30350:CDS 20.0%
!! TTGGATAATTTATCAGTAAT+TGG - chr8.1:79259021-79259040 MS.gene30350:CDS 20.0%
!!! AACATTGATTCATTTCAATA+TGG - chr8.1:79258349-79258368 MS.gene30350:CDS 20.0%
!!! TGATGGTATTTTTGATTTTT+TGG + chr8.1:79258578-79258597 None:intergenic 20.0%
! AAATGAGTAGTTTCATAAAC+TGG + chr8.1:79259072-79259091 None:intergenic 25.0%
! ATACAAAATTCTCAAAGCTT+TGG + chr8.1:79258467-79258486 None:intergenic 25.0%
! CAAAAACCAAAAAATGAGAA+TGG - chr8.1:79258424-79258443 MS.gene30350:CDS 25.0%
! TATGGTTATGGTTATAGTTA+TGG + chr8.1:79258387-79258406 None:intergenic 25.0%
!! AACTACTACAAATTCTGTTT+TGG - chr8.1:79258612-79258631 MS.gene30350:CDS 25.0%
!!! AAAGCTTTGAGAATTTTGTA+TGG - chr8.1:79258466-79258485 MS.gene30350:CDS 25.0%
!!! AATTCACTTTTCAATTCTAG+TGG - chr8.1:79258547-79258566 MS.gene30350:CDS 25.0%
!!! TAGTTCTGATTTGTTTGAAT+TGG - chr8.1:79259002-79259021 MS.gene30350:CDS 25.0%
AAACTTCAGAAAAGCAAGAA+AGG - chr8.1:79258111-79258130 MS.gene30350:CDS 30.0%
AATTTGCATGAAGGTGAAAA+GGG - chr8.1:79258796-79258815 MS.gene30350:CDS 30.0%
ACCATTTCCAATAACTCTAT+TGG + chr8.1:79259100-79259119 None:intergenic 30.0%
AGAGTAGTAGTGAAGAATTA+AGG - chr8.1:79258839-79258858 MS.gene30350:CDS 30.0%
CCAAAAAATGAGAATGGTTT+AGG - chr8.1:79258430-79258449 MS.gene30350:CDS 30.0%
CCATTTCCAATAACTCTATT+GGG + chr8.1:79259099-79259118 None:intergenic 30.0%
TATCAGTAATTGGGATTGAA+AGG - chr8.1:79259031-79259050 MS.gene30350:CDS 30.0%
TCAGAAACACTTGTTCTAAT+TGG + chr8.1:79258322-79258341 None:intergenic 30.0%
TCATCAACAATTACACTAAC+AGG + chr8.1:79258751-79258770 None:intergenic 30.0%
TCTGATTCAGAATCATTCTA+TGG - chr8.1:79258280-79258299 MS.gene30350:CDS 30.0%
TTCAATCCCAATAGAGTTAT+TGG - chr8.1:79259090-79259109 MS.gene30350:CDS 30.0%
!! ACACTTGTTCTAATTGGTTT+TGG + chr8.1:79258316-79258335 None:intergenic 30.0%
!!! CCTAAACCATTCTCATTTTT+TGG + chr8.1:79258433-79258452 None:intergenic 30.0%
!!! GTTTTTGAGTTTGAACAGAA+TGG + chr8.1:79258411-79258430 None:intergenic 30.0%
!!! TTTCTTGCTTTTCTGAAGTT+TGG + chr8.1:79258112-79258131 None:intergenic 30.0%
AAAACTCCTTCATCAAGATC+AGG - chr8.1:79258700-79258719 MS.gene30350:CDS 35.0%
AAGGGTTCTTCAATCTATGA+TGG - chr8.1:79258814-79258833 MS.gene30350:CDS 35.0%
AGAAGATGAACTTGAATGCA+TGG + chr8.1:79258227-79258246 None:intergenic 35.0%
ATGTGATGCAAGAGAGTTTA+AGG - chr8.1:79258866-79258885 MS.gene30350:CDS 35.0%
CCCAATAGAGTTATTGGAAA+TGG - chr8.1:79259096-79259115 MS.gene30350:CDS 35.0%
GAACAGAATGGTTATGGTTA+TGG + chr8.1:79258399-79258418 None:intergenic 35.0%
GAATTTGCATGAAGGTGAAA+AGG - chr8.1:79258795-79258814 MS.gene30350:CDS 35.0%
GAGTTTGAACAGAATGGTTA+TGG + chr8.1:79258405-79258424 None:intergenic 35.0%
GATGAAGATGAAGATGATGA+TGG - chr8.1:79258967-79258986 MS.gene30350:CDS 35.0%
TGGAATGAGAAAGTTGTGAA+TGG - chr8.1:79258142-79258161 MS.gene30350:CDS 35.0%
TGTGATGCAAGAGAGTTTAA+GGG - chr8.1:79258867-79258886 MS.gene30350:CDS 35.0%
! ATTTTTGCACCAGGTGAAAT+AGG + chr8.1:79258514-79258533 None:intergenic 35.0%
!! CATCAGTGTCTTCTTTTTCA+AGG - chr8.1:79258665-79258684 MS.gene30350:CDS 35.0%
!! GTTTTTGTAGCTGTTGATGA+TGG + chr8.1:79258595-79258614 None:intergenic 35.0%
AAGCAAGAAAGGTGGAGAAT+TGG - chr8.1:79258122-79258141 MS.gene30350:CDS 40.0%
ACAAAGCAACCTATTTCACC+TGG - chr8.1:79258502-79258521 MS.gene30350:CDS 40.0%
CTTCAGAAAAGCAAGAAAGG+TGG - chr8.1:79258114-79258133 MS.gene30350:CDS 40.0%
GATGAAGATTGTAGACCTTG+TGG - chr8.1:79258766-79258785 MS.gene30350:CDS 40.0%
GGACACAAGAATTTGCATGA+AGG - chr8.1:79258787-79258806 MS.gene30350:CDS 40.0%
TCTTCAGAATCAAGTTCAGC+TGG - chr8.1:79258244-79258263 MS.gene30350:CDS 40.0%
TGCAAATTCTTGTGTCCACA+AGG + chr8.1:79258784-79258803 None:intergenic 40.0%
TTAGCACCTGATCTTGATGA+AGG + chr8.1:79258709-79258728 None:intergenic 40.0%
! AAGCTAGCAATTTTTGCACC+AGG + chr8.1:79258523-79258542 None:intergenic 40.0%
CAGGTGCTAAAAGATCAGTG+AGG - chr8.1:79258719-79258738 MS.gene30350:CDS 45.0%
TCAGAATCAAGTTCAGCTGG+TGG - chr8.1:79258247-79258266 MS.gene30350:CDS 45.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 79258076 79259131 79258076 ID=MS.gene30350
chr8.1 mRNA 79258076 79259131 79258076 ID=MS.gene30350.t1;Parent=MS.gene30350
chr8.1 exon 79258076 79259131 79258076 ID=MS.gene30350.t1.exon1;Parent=MS.gene30350.t1
chr8.1 CDS 79258076 79259131 79258076 ID=cds.MS.gene30350.t1;Parent=MS.gene30350.t1
Gene Sequence

>MS.gene30350

ATGAGGAAGATGAAAAGTGTTGAAGCTGAAAAACCAAACTTCAGAAAAGCAAGAAAGGTGGAGAATTGGAATGAGAAAGTTGTGAATGGAAGAAACTCTTTAACAGAATTCGAAACAAGAACAACAAGAAGCAATTCAAACACACTCTCCATGCATTCAAGTTCATCTTCTTCAGAATCAAGTTCAGCTGGTGGTTTTTCATCATCTGATTCAGAATCATTCTATGGTTTACAAAAACCAAAACCAATTAGAACAAGTGTTTCTGAAAAACCAAACATTGATTCATTTCAATATGGTTATAGTAGAAACCATAACTATAACCATAACCATAACCATTCTGTTCAAACTCAAAAACCAAAAAATGAGAATGGTTTAGGTAAAACAAAGTCCAAAGCTTTGAGAATTTTGTATGGTGATTTGAAGAAAACAAAGCAACCTATTTCACCTGGTGCAAAAATTGCTAGCTTTTTGAATTCACTTTTCAATTCTAGTGGAAATACCAAAAAATCAAAAATACCATCATCAACAGCTACAAAAACTACTACAAATTCTGTTTTGGAAGCAAAATCAGCACAAGCTTCAACATGTTCATCAGTGTCTTCTTTTTCAAGGTCTTGTTTGAGTAAAACTCCTTCATCAAGATCAGGTGCTAAAAGATCAGTGAGGTTTTGTCCTGTTAGTGTAATTGTTGATGAAGATTGTAGACCTTGTGGACACAAGAATTTGCATGAAGGTGAAAAGGGTTCTTCAATCTATGATGGAAAGAGTAGTAGTGAAGAATTAAGGTTGCATGTGATGCAAGAGAGTTTAAGGGTTGAAGAGTTAGCTAGAGACTTGTTGAAGAATTATCAGAAAAAAAATGAAGTTGATTTTAATATGCAATTTGAAGATGATGAAGATGAAGATGATGATGGAGCTAGTTGTGCTAGTTCTGATTTGTTTGAATTGGATAATTTATCAGTAATTGGGATTGAAAGGTATAGAGAAGAATTACCAGTTTATGAAACTACTCATTTCAATCCCAATAGAGTTATTGGAAATGGTTTCATTATGTAA

Protein sequence

>MS.gene30350.t1

MRKMKSVEAEKPNFRKARKVENWNEKVVNGRNSLTEFETRTTRSNSNTLSMHSSSSSSESSSAGGFSSSDSESFYGLQKPKPIRTSVSEKPNIDSFQYGYSRNHNYNHNHNHSVQTQKPKNENGLGKTKSKALRILYGDLKKTKQPISPGAKIASFLNSLFNSSGNTKKSKIPSSTATKTTTNSVLEAKSAQASTCSSVSSFSRSCLSKTPSSRSGAKRSVRFCPVSVIVDEDCRPCGHKNLHEGEKGSSIYDGKSSSEELRLHVMQESLRVEELARDLLKNYQKKNEVDFNMQFEDDEDEDDDGASCASSDLFELDNLSVIGIERYREELPVYETTHFNPNRVIGNGFIM