AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33737

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33737.t1 MTR_4g090890 99.524 210 1 0 1 210 1 210 6.14e-159 437
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33737.t1 AT4G05000 83.254 209 35 0 1 209 1 209 9.96e-135 376
MS.gene33737.t1 AT4G05000 83.254 209 35 0 1 209 1 209 9.96e-135 376
MS.gene33737.t1 AT4G05000 83.254 209 35 0 1 209 1 209 9.96e-135 376
MS.gene33737.t1 AT4G21560 83.173 208 35 0 3 210 2 209 2.76e-126 355
MS.gene33737.t1 AT4G21560 83.173 208 35 0 3 210 2 209 2.76e-126 355
MS.gene33737.t1 AT4G21560 83.173 208 35 0 3 210 2 209 2.76e-126 355

Find 52 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTGCTCTCAGATCTTTA+TGG 0.157475 4.4:-23274287 MS.gene33737:CDS
GTCTTCTTACAATTCCTTTA+TGG 0.166564 4.4:-23274123 MS.gene33737:CDS
CACTCTATCTCATATTCCTT+TGG 0.286197 4.4:+23274581 None:intergenic
TGAAATGAGCAATTAGCTTT+TGG 0.305946 4.4:+23274558 None:intergenic
ATTAACCGTCTTGTGGTATC+TGG 0.342420 4.4:-23274452 MS.gene33737:CDS
TGCTAGGAACAGTGTCCTTA+AGG 0.357272 4.4:+23274519 None:intergenic
AACCCTAGCTTCCACCCTTA+AGG 0.408396 4.4:-23274534 MS.gene33737:CDS
TGCCTGCTACAGTGGAGCAC+CGG 0.414565 4.4:-23274427 MS.gene33737:CDS
AGCCACCATGTTAAGTTTCA+AGG 0.416540 4.4:+23274325 None:intergenic
ATTGGGCAGAGCTGCCATAA+AGG 0.420324 4.4:+23274109 None:intergenic
TACCTATAGGATGGAGTGCC+CGG 0.420784 4.4:-23274480 MS.gene33737:CDS
AGAGATTTGCTGATACCTAT+AGG 0.426552 4.4:-23274493 MS.gene33737:CDS
TGATGAATTGACAGAACAAC+AGG 0.433481 4.4:-23274171 MS.gene33737:CDS
GATTGGAAGGTTATCAAAGA+TGG 0.440404 4.4:-23274201 MS.gene33737:CDS
TAACATGGTGGCTGTGGATC+AGG 0.449737 4.4:-23274315 MS.gene33737:CDS
TGTCCTTAAGGGTGGAAGCT+AGG 0.450461 4.4:+23274531 None:intergenic
CACCGGCTGCTGCAGTAGCC+CGG 0.452909 4.4:+23274408 None:intergenic
GCTAGGAACAGTGTCCTTAA+GGG 0.457466 4.4:+23274520 None:intergenic
ATGGCAGCTCTGCCCAATGC+TGG 0.461234 4.4:-23274104 MS.gene33737:CDS
CACCGGGCTACTGCAGCAGC+CGG 0.465917 4.4:-23274410 MS.gene33737:CDS
GAGATCAAAGTGAAGCTGTC+TGG 0.466167 4.4:+23274148 None:intergenic
GCCCGGTGCTCCACTGTAGC+AGG 0.469416 4.4:+23274425 None:intergenic
GTCCTTAAGGGTGGAAGCTA+GGG 0.470135 4.4:+23274532 None:intergenic
ATCAGTCAAGTGCCAGCATT+GGG 0.475748 4.4:+23274092 None:intergenic
TGAGCTTTATGCAATTATCA+AGG 0.477470 4.4:-23274648 MS.gene33737:CDS
GCCTGCTACAGTGGAGCACC+GGG 0.493944 4.4:-23274426 MS.gene33737:CDS
ATCTGGCGTGCCTGCTACAG+TGG 0.500668 4.4:-23274435 MS.gene33737:CDS
GAAACTTAACATGGTGGCTG+TGG 0.505970 4.4:-23274321 MS.gene33737:CDS
AATCAGTCAAGTGCCAGCAT+TGG 0.532447 4.4:+23274091 None:intergenic
AGCCGGGCACTCCATCCTAT+AGG 0.544884 4.4:+23274478 None:intergenic
TCAGCAAATCTCTCAATGCT+AGG 0.544910 4.4:+23274503 None:intergenic
ACAAGACGGTTAATCGCAGC+CGG 0.551667 4.4:+23274461 None:intergenic
AAATGAAGGATTGGATTGGA+AGG 0.553711 4.4:-23274214 MS.gene33737:CDS
ACATGACGGAGGTTAAGCTC+TGG 0.557097 4.4:-23274709 MS.gene33737:CDS
ATTGGAAGGTTATCAAAGAT+GGG 0.567981 4.4:-23274200 MS.gene33737:CDS
ATTTGCTGATACCTATAGGA+TGG 0.575681 4.4:-23274489 MS.gene33737:CDS
CTCAGCCACAGTGGCAGCCG+AGG 0.584044 4.4:+23274379 None:intergenic
GGCAGCCGAGGTGGACACAC+CGG 0.587917 4.4:+23274391 None:intergenic
GTCCACCTCGGCTGCCACTG+TGG 0.597134 4.4:-23274384 MS.gene33737:CDS
AGCAGCCGGTGTGTCCACCT+CGG 0.599861 4.4:-23274396 MS.gene33737:CDS
TAGAGATATAATATCACCAA+AGG 0.609606 4.4:-23274597 MS.gene33737:CDS
AGGAACAGTGTCCTTAAGGG+TGG 0.619307 4.4:+23274523 None:intergenic
AGCCACAGTGGCAGCCGAGG+TGG 0.627242 4.4:+23274382 None:intergenic
GGATTCCTTGAAACTTAACA+TGG 0.637083 4.4:-23274330 MS.gene33737:CDS
CCATAAAGATCTGAGAGCAG+AGG 0.637091 4.4:+23274287 None:intergenic
CAAGACGGTTAATCGCAGCC+GGG 0.658456 4.4:+23274462 None:intergenic
CAATTATCAAGGCTACTGAA+AGG 0.659301 4.4:-23274637 MS.gene33737:CDS
GGCTGCGATTAACCGTCTTG+TGG 0.665895 4.4:-23274459 MS.gene33737:CDS
TAGAATAAATAACATGACGG+AGG 0.669493 4.4:-23274720 None:intergenic
CTGAACACACTCAGCCACAG+TGG 0.699627 4.4:+23274370 None:intergenic
TTCCTTGAAACTTAACATGG+TGG 0.700241 4.4:-23274327 MS.gene33737:CDS
GCACGCCAGATACCACAAGA+CGG 0.729240 4.4:+23274447 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATAAAAATGAAGGATTGGAT+TGG - chr4.4:23274586-23274605 MS.gene33737:CDS 25.0%
! GGAAAATAAAAATGAAGGAT+TGG - chr4.4:23274581-23274600 MS.gene33737:CDS 25.0%
! TAGAGATATAATATCACCAA+AGG - chr4.4:23274207-23274226 MS.gene33737:CDS 25.0%
!! TCAGAATTTTATTACATCGA+TGG - chr4.4:23274453-23274472 MS.gene33737:CDS 25.0%
ATTGGAAGGTTATCAAAGAT+GGG - chr4.4:23274604-23274623 MS.gene33737:CDS 30.0%
GTCTTCTTACAATTCCTTTA+TGG - chr4.4:23274681-23274700 MS.gene33737:CDS 30.0%
! TGAGCTTTATGCAATTATCA+AGG - chr4.4:23274156-23274175 MS.gene33737:CDS 30.0%
!!! TGAAATGAGCAATTAGCTTT+TGG + chr4.4:23274249-23274268 None:intergenic 30.0%
CAATTATCAAGGCTACTGAA+AGG - chr4.4:23274167-23274186 MS.gene33737:CDS 35.0%
CACTCTATCTCATATTCCTT+TGG + chr4.4:23274226-23274245 None:intergenic 35.0%
CGAGGGGAAAATAAAAATGA+AGG - chr4.4:23274576-23274595 MS.gene33737:CDS 35.0%
GATTGGAAGGTTATCAAAGA+TGG - chr4.4:23274603-23274622 MS.gene33737:CDS 35.0%
GGATTCCTTGAAACTTAACA+TGG - chr4.4:23274474-23274493 MS.gene33737:CDS 35.0%
TGATGAATTGACAGAACAAC+AGG - chr4.4:23274633-23274652 MS.gene33737:CDS 35.0%
TTCCTTGAAACTTAACATGG+TGG - chr4.4:23274477-23274496 MS.gene33737:CDS 35.0%
! AAATGAAGGATTGGATTGGA+AGG - chr4.4:23274590-23274609 MS.gene33737:CDS 35.0%
! ATTTGCTGATACCTATAGGA+TGG - chr4.4:23274315-23274334 MS.gene33737:CDS 35.0%
!! AGAGATTTGCTGATACCTAT+AGG - chr4.4:23274311-23274330 MS.gene33737:CDS 35.0%
!! TTTATTTTCCCCTCGAAATC+AGG + chr4.4:23274571-23274590 None:intergenic 35.0%
AGCCACCATGTTAAGTTTCA+AGG + chr4.4:23274482-23274501 None:intergenic 40.0%
ATTAACCGTCTTGTGGTATC+TGG - chr4.4:23274352-23274371 MS.gene33737:CDS 40.0%
TCAGCAAATCTCTCAATGCT+AGG + chr4.4:23274304-23274323 None:intergenic 40.0%
CCATAAAGATCTGAGAGCAG+AGG + chr4.4:23274520-23274539 None:intergenic 45.0%
CCTCTGCTCTCAGATCTTTA+TGG - chr4.4:23274517-23274536 MS.gene33737:CDS 45.0%
GAAACTTAACATGGTGGCTG+TGG - chr4.4:23274483-23274502 MS.gene33737:CDS 45.0%
GAGATCAAAGTGAAGCTGTC+TGG + chr4.4:23274659-23274678 None:intergenic 45.0%
GCTAGGAACAGTGTCCTTAA+GGG + chr4.4:23274287-23274306 None:intergenic 45.0%
TGCTAGGAACAGTGTCCTTA+AGG + chr4.4:23274288-23274307 None:intergenic 45.0%
! ATTTTCCCCTCGAAATCAGG+CGG + chr4.4:23274568-23274587 None:intergenic 45.0%
! ATTTTGCCGCCTGATTTCGA+GGG - chr4.4:23274559-23274578 MS.gene33737:CDS 45.0%
AACCCTAGCTTCCACCCTTA+AGG - chr4.4:23274270-23274289 MS.gene33737:CDS 50.0%
ACAAGACGGTTAATCGCAGC+CGG + chr4.4:23274346-23274365 None:intergenic 50.0%
AGGAACAGTGTCCTTAAGGG+TGG + chr4.4:23274284-23274303 None:intergenic 50.0%
ATTGGGCAGAGCTGCCATAA+AGG + chr4.4:23274698-23274717 None:intergenic 50.0%
GTCCTTAAGGGTGGAAGCTA+GGG + chr4.4:23274275-23274294 None:intergenic 50.0%
TAACATGGTGGCTGTGGATC+AGG - chr4.4:23274489-23274508 MS.gene33737:CDS 50.0%
TGTCCTTAAGGGTGGAAGCT+AGG + chr4.4:23274276-23274295 None:intergenic 50.0%
! GATTTTGCCGCCTGATTTCG+AGG - chr4.4:23274558-23274577 MS.gene33737:CDS 50.0%
! TACCTATAGGATGGAGTGCC+CGG - chr4.4:23274324-23274343 MS.gene33737:CDS 50.0%
! TTTTGCCGCCTGATTTCGAG+GGG - chr4.4:23274560-23274579 MS.gene33737:CDS 50.0%
CAAGACGGTTAATCGCAGCC+GGG + chr4.4:23274345-23274364 None:intergenic 55.0%
CTGAACACACTCAGCCACAG+TGG + chr4.4:23274437-23274456 None:intergenic 55.0%
GCACGCCAGATACCACAAGA+CGG + chr4.4:23274360-23274379 None:intergenic 55.0%
GGCTGCGATTAACCGTCTTG+TGG - chr4.4:23274345-23274364 MS.gene33737:CDS 55.0%
AGCCGGGCACTCCATCCTAT+AGG + chr4.4:23274329-23274348 None:intergenic 60.0%
ATCTGGCGTGCCTGCTACAG+TGG - chr4.4:23274369-23274388 MS.gene33737:CDS 60.0%
ATGGCAGCTCTGCCCAATGC+TGG - chr4.4:23274700-23274719 MS.gene33737:CDS 60.0%
TGCCTGCTACAGTGGAGCAC+CGG - chr4.4:23274377-23274396 MS.gene33737:CDS 60.0%
AGCAGCCGGTGTGTCCACCT+CGG - chr4.4:23274408-23274427 MS.gene33737:CDS 65.0%
! GCCTGCTACAGTGGAGCACC+GGG - chr4.4:23274378-23274397 MS.gene33737:CDS 65.0%
AGCCACAGTGGCAGCCGAGG+TGG + chr4.4:23274425-23274444 None:intergenic 70.0%
CACCGGGCTACTGCAGCAGC+CGG - chr4.4:23274394-23274413 MS.gene33737:CDS 70.0%
CTCAGCCACAGTGGCAGCCG+AGG + chr4.4:23274428-23274447 None:intergenic 70.0%
GCCCGGTGCTCCACTGTAGC+AGG + chr4.4:23274382-23274401 None:intergenic 70.0%
GGCAGCCGAGGTGGACACAC+CGG + chr4.4:23274416-23274435 None:intergenic 70.0%
GTCCACCTCGGCTGCCACTG+TGG - chr4.4:23274420-23274439 MS.gene33737:CDS 70.0%
! CACCGGCTGCTGCAGTAGCC+CGG + chr4.4:23274399-23274418 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 23274097 23274729 23274097 ID=MS.gene33737
chr4.4 mRNA 23274097 23274729 23274097 ID=MS.gene33737.t1;Parent=MS.gene33737
chr4.4 exon 23274097 23274729 23274097 ID=MS.gene33737.t1.exon1;Parent=MS.gene33737.t1
chr4.4 CDS 23274097 23274729 23274097 ID=cds.MS.gene33737.t1;Parent=MS.gene33737.t1
Gene Sequence

>MS.gene33737

ATGACGGAGGTTAAGCTCTGGAATGACAAGCGCGAGAGAGAAATGTATGACAACTTTGCTGAGCTTTATGCAATTATCAAGGCTACTGAAAGGCTTGAGAAAGCTTATGTTAGAGATATAATATCACCAAAGGAATATGAGATAGAGTGCCAAAAGCTAATTGCTCATTTCAAAACCCTAGCTTCCACCCTTAAGGACACTGTTCCTAGCATTGAGAGATTTGCTGATACCTATAGGATGGAGTGCCCGGCTGCGATTAACCGTCTTGTGGTATCTGGCGTGCCTGCTACAGTGGAGCACCGGGCTACTGCAGCAGCCGGTGTGTCCACCTCGGCTGCCACTGTGGCTGAGTGTGTTCAGAATTTTATTACATCGATGGATTCCTTGAAACTTAACATGGTGGCTGTGGATCAGGTGCATCCTCTGCTCTCAGATCTTTATGGTTCACTCAATAAATTGACGATTTTGCCGCCTGATTTCGAGGGGAAAATAAAAATGAAGGATTGGATTGGAAGGTTATCAAAGATGGGTGCAGCTGATGAATTGACAGAACAACAGGCCAGACAGCTTCACTTTGATCTCGAGTCTTCTTACAATTCCTTTATGGCAGCTCTGCCCAATGCTGGCACTTGA
Protein sequence

>MS.gene33737.t1

MTEVKLWNDKREREMYDNFAELYAIIKATERLEKAYVRDIISPKEYEIECQKLIAHFKTLASTLKDTVPSIERFADTYRMECPAAINRLVVSGVPATVEHRATAAAGVSTSAATVAECVQNFITSMDSLKLNMVAVDQVHPLLSDLYGSLNKLTILPPDFEGKIKMKDWIGRLSKMGAADELTEQQARQLHFDLESSYNSFMAALPNAGT