AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene053225

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene053225.t1 AT2G32070 79.926 269 54 0 9 277 7 275 4.73e-169 469
MS.gene053225.t1 AT1G80780 79.323 266 54 1 9 274 7 271 2.46e-162 452
MS.gene053225.t1 AT1G80780 79.323 266 54 1 9 274 7 271 2.46e-162 452
MS.gene053225.t1 AT1G80780 79.167 264 54 1 9 272 7 269 1.87e-160 447
MS.gene053225.t1 AT5G10960 72.119 269 74 1 8 276 6 273 1.44e-146 412
MS.gene053225.t1 AT1G15920 63.433 268 91 2 7 268 9 275 1.78e-122 351
MS.gene053225.t1 AT1G15920 63.433 268 91 2 7 268 9 275 1.78e-122 351
MS.gene053225.t1 AT3G44260 53.571 280 119 8 1 270 1 279 1.25e-94 280
MS.gene053225.t1 AT5G22250 53.731 268 117 6 10 270 10 277 1.56e-94 280
MS.gene053225.t1 AT1G06450 37.405 262 147 6 15 272 10 258 1.56e-47 162
MS.gene053225.t1 AT1G61470 35.000 240 135 7 16 249 4 228 3.69e-34 125
MS.gene053225.t1 AT3G44240 34.934 229 136 5 27 253 2 219 4.69e-33 121
MS.gene053225.t1 AT1G27820 34.156 243 135 9 16 249 8 234 4.76e-31 117
MS.gene053225.t1 AT1G27890 34.568 243 134 9 16 249 3 229 1.59e-29 113

Find 45 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCATAGTGGATATGATTT+TGG 0.178563 4.2:+92797564 MS.gene053225:CDS
CGATTCAGATCCGTGAAGTT+TGG 0.267035 4.2:+92797106 MS.gene053225:CDS
TACTCACATCTTCTGCATTC+AGG 0.268390 4.2:+92797793 MS.gene053225:CDS
GAATTTCTTTAGTGGATCTT+TGG 0.269835 4.2:+92797827 MS.gene053225:CDS
TATGTTAAAGCTTATACAAT+TGG 0.337330 4.2:+92797290 MS.gene053225:CDS
AAGAACCCAACTTGTGTATC+AGG 0.337532 4.2:-92797621 None:intergenic
CAACTTGCGGCGAAGATGAT+AGG 0.351788 4.2:+92797346 MS.gene053225:CDS
TTGAAAGAGAATTTCTTTAG+TGG 0.358856 4.2:+92797819 MS.gene053225:CDS
GGTATCGATGCTAGGCGTTT+CGG 0.383381 4.2:+92797486 MS.gene053225:CDS
TGTTGGAGGTTAAGAGGGTT+GGG 0.387020 4.2:+92797742 MS.gene053225:CDS
CAGAGTTGTTGGAGGTTAAG+AGG 0.391647 4.2:+92797736 MS.gene053225:CDS
TCACAGCGAATTCTTCTTCA+AGG 0.398899 4.2:-92797137 None:intergenic
AAATATGCAGGGGTCTTGTA+TGG 0.400647 4.2:+92797852 MS.gene053225:CDS
TGATTATCCTTTCATTGCTA+TGG 0.408589 4.2:+92797176 MS.gene053225:CDS
TTGTTGGAGGTTAAGAGGGT+TGG 0.413971 4.2:+92797741 MS.gene053225:CDS
TCCTTTCATTGCTATGGATA+CGG 0.427277 4.2:+92797182 MS.gene053225:CDS
GGTATTGTTCTTCGACCTGT+TGG 0.437734 4.2:+92797213 MS.gene053225:CDS
ATGTTAAAGCTTATACAATT+GGG 0.439850 4.2:+92797291 MS.gene053225:CDS
GATTTGTCATCAAGCGGGTT+CGG 0.446291 4.2:+92797764 MS.gene053225:CDS
GAATAAGCTTGCAGAGTTGT+TGG 0.449673 4.2:+92797725 MS.gene053225:CDS
GCAGGGGTCTTGTATGGGTT+AGG 0.460666 4.2:+92797858 MS.gene053225:CDS
GTATTGTTCTTCGACCTGTT+GGG 0.461121 4.2:+92797214 MS.gene053225:CDS
AGAGTTGTTGGAGGTTAAGA+GGG 0.462475 4.2:+92797737 MS.gene053225:CDS
TAGAGAATTTAATGTTAATG+AGG 0.462708 4.2:+92797392 MS.gene053225:CDS
AATTTACCTGATACACAAGT+TGG 0.472874 4.2:+92797615 MS.gene053225:CDS
ATTTACCTGATACACAAGTT+GGG 0.507490 4.2:+92797616 MS.gene053225:CDS
GGATCTTTGGAGAAATATGC+AGG 0.509118 4.2:+92797840 MS.gene053225:CDS
CTATCATCTTCGCCGCAAGT+TGG 0.526576 4.2:-92797345 None:intergenic
GGTTATCGCTCCAAACTTCA+CGG 0.529023 4.2:-92797116 None:intergenic
TTTGTAATAGTCTTCATGGT+GGG 0.534821 4.2:+92797700 MS.gene053225:CDS
GTTTGATATCATACAGCATA+GGG 0.539432 4.2:-92797665 None:intergenic
TATGGGTTAGGTGTTGAGAA+TGG 0.543159 4.2:+92797870 MS.gene053225:CDS
ATGAACATGGTATCGATGCT+AGG 0.555439 4.2:+92797478 MS.gene053225:CDS
TAAGCTTGCAGAGTTGTTGG+AGG 0.562547 4.2:+92797728 MS.gene053225:CDS
TGTTTGATATCATACAGCAT+AGG 0.581668 4.2:-92797666 None:intergenic
ACAGGTCGAAGAACAATACC+AGG 0.581710 4.2:-92797210 None:intergenic
CATGGAAATCTTCCAACTTG+CGG 0.583679 4.2:+92797333 MS.gene053225:CDS
TCCGTATCCATAGCAATGAA+AGG 0.583831 4.2:-92797183 None:intergenic
GTTGGGATTTGTCATCAAGC+GGG 0.588282 4.2:+92797759 MS.gene053225:CDS
AATATGCAGGGGTCTTGTAT+GGG 0.597633 4.2:+92797853 MS.gene053225:CDS
GGTTGGGATTTGTCATCAAG+CGG 0.598328 4.2:+92797758 MS.gene053225:CDS
GCTATGGATACGGAATTCCC+TGG 0.614374 4.2:+92797192 MS.gene053225:CDS
GATCTTTGGAGAAATATGCA+GGG 0.629100 4.2:+92797841 MS.gene053225:CDS
ATCTTTGGAGAAATATGCAG+GGG 0.683756 4.2:+92797842 MS.gene053225:CDS
CAGGTCGAAGAACAATACCA+GGG 0.748306 4.2:-92797209 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGTTAAAGCTTATACAATT+GGG + chr4.2:92797291-92797310 MS.gene053225:CDS 20.0%
!! TAGAGAATTTAATGTTAATG+AGG + chr4.2:92797392-92797411 MS.gene053225:CDS 20.0%
!! TATGTTAAAGCTTATACAAT+TGG + chr4.2:92797290-92797309 MS.gene053225:CDS 20.0%
!! TTCAAGAAAAATAATGAACA+TGG + chr4.2:92797465-92797484 MS.gene053225:CDS 20.0%
!!! ACATATCAACATTATCTTTT+AGG - chr4.2:92797275-92797294 None:intergenic 20.0%
!!! CATATCAACATTATCTTTTA+GGG - chr4.2:92797274-92797293 None:intergenic 20.0%
!!! TTTTGAATGATAATGTTCAT+TGG + chr4.2:92797535-92797554 MS.gene053225:CDS 20.0%
! TTGAAAGAGAATTTCTTTAG+TGG + chr4.2:92797819-92797838 MS.gene053225:CDS 25.0%
!!! AAGTTTTGTAATAGTCTTCA+TGG + chr4.2:92797696-92797715 MS.gene053225:CDS 25.0%
!!! TTTCATAGTGGATATGATTT+TGG + chr4.2:92797564-92797583 MS.gene053225:CDS 25.0%
AATTTACCTGATACACAAGT+TGG + chr4.2:92797615-92797634 MS.gene053225:CDS 30.0%
ATTTACCTGATACACAAGTT+GGG + chr4.2:92797616-92797635 MS.gene053225:CDS 30.0%
GTTTGATATCATACAGCATA+GGG - chr4.2:92797668-92797687 None:intergenic 30.0%
TGATTATCCTTTCATTGCTA+TGG + chr4.2:92797176-92797195 MS.gene053225:CDS 30.0%
TGTTTGATATCATACAGCAT+AGG - chr4.2:92797669-92797688 None:intergenic 30.0%
TTTGTAATAGTCTTCATGGT+GGG + chr4.2:92797700-92797719 MS.gene053225:CDS 30.0%
! CATTGGATAACTTTTCATAG+TGG + chr4.2:92797552-92797571 MS.gene053225:CDS 30.0%
! GAATTTCTTTAGTGGATCTT+TGG + chr4.2:92797827-92797846 MS.gene053225:CDS 30.0%
! TTTTGTAATAGTCTTCATGG+TGG + chr4.2:92797699-92797718 MS.gene053225:CDS 30.0%
!! AAGATGATAGGTTTTGTATC+TGG + chr4.2:92797358-92797377 MS.gene053225:CDS 30.0%
!!! CAACATTATCTTTTAGGGTT+TGG - chr4.2:92797269-92797288 None:intergenic 30.0%
!!! TCGTTTTGAGGTAAAATTAG+CGG - chr4.2:92797081-92797100 None:intergenic 30.0%
TCCTTTCATTGCTATGGATA+CGG + chr4.2:92797182-92797201 MS.gene053225:CDS 35.0%
! ATCTTTGGAGAAATATGCAG+GGG + chr4.2:92797842-92797861 MS.gene053225:CDS 35.0%
! GATCTTTGGAGAAATATGCA+GGG + chr4.2:92797841-92797860 MS.gene053225:CDS 35.0%
!!! ATTGAGCTTTTGAGACAAAG+TGG + chr4.2:92797435-92797454 MS.gene053225:CDS 35.0%
!!! CTTACTTTTTCTGATGAGCA+TGG + chr4.2:92797315-92797334 MS.gene053225:CDS 35.0%
!!! TTGCTTTTGAAATTCCCAAC+AGG - chr4.2:92797231-92797250 None:intergenic 35.0%
AAGAACCCAACTTGTGTATC+AGG - chr4.2:92797624-92797643 None:intergenic 40.0%
AGAGTTGTTGGAGGTTAAGA+GGG + chr4.2:92797737-92797756 MS.gene053225:CDS 40.0%
CATGGAAATCTTCCAACTTG+CGG + chr4.2:92797333-92797352 MS.gene053225:CDS 40.0%
GAATAAGCTTGCAGAGTTGT+TGG + chr4.2:92797725-92797744 MS.gene053225:CDS 40.0%
GTATTGTTCTTCGACCTGTT+GGG + chr4.2:92797214-92797233 MS.gene053225:CDS 40.0%
TACTCACATCTTCTGCATTC+AGG + chr4.2:92797793-92797812 MS.gene053225:CDS 40.0%
TCACAGCGAATTCTTCTTCA+AGG - chr4.2:92797140-92797159 None:intergenic 40.0%
TCCGTATCCATAGCAATGAA+AGG - chr4.2:92797186-92797205 None:intergenic 40.0%
! AAATATGCAGGGGTCTTGTA+TGG + chr4.2:92797852-92797871 MS.gene053225:CDS 40.0%
! AATATGCAGGGGTCTTGTAT+GGG + chr4.2:92797853-92797872 MS.gene053225:CDS 40.0%
! GGATCTTTGGAGAAATATGC+AGG + chr4.2:92797840-92797859 MS.gene053225:CDS 40.0%
! GTGAGCTTTTGATGTCATCT+GGG + chr4.2:92797508-92797527 MS.gene053225:CDS 40.0%
!! ATGAACATGGTATCGATGCT+AGG + chr4.2:92797478-92797497 MS.gene053225:CDS 40.0%
!! TATGGGTTAGGTGTTGAGAA+TGG + chr4.2:92797870-92797889 MS.gene053225:CDS 40.0%
!! TGAATCGAATCGTCGTTTTG+AGG - chr4.2:92797093-92797112 None:intergenic 40.0%
ACAGGTCGAAGAACAATACC+AGG - chr4.2:92797213-92797232 None:intergenic 45.0%
CAGAGTTGTTGGAGGTTAAG+AGG + chr4.2:92797736-92797755 MS.gene053225:CDS 45.0%
CAGGTCGAAGAACAATACCA+GGG - chr4.2:92797212-92797231 None:intergenic 45.0%
CGATTCAGATCCGTGAAGTT+TGG + chr4.2:92797106-92797125 MS.gene053225:CDS 45.0%
GGTATTGTTCTTCGACCTGT+TGG + chr4.2:92797213-92797232 MS.gene053225:CDS 45.0%
GGTTATCGCTCCAAACTTCA+CGG - chr4.2:92797119-92797138 None:intergenic 45.0%
GGTTGGGATTTGTCATCAAG+CGG + chr4.2:92797758-92797777 MS.gene053225:CDS 45.0%
GTTGGGATTTGTCATCAAGC+GGG + chr4.2:92797759-92797778 MS.gene053225:CDS 45.0%
TAAGCTTGCAGAGTTGTTGG+AGG + chr4.2:92797728-92797747 MS.gene053225:CDS 45.0%
TGTTGGAGGTTAAGAGGGTT+GGG + chr4.2:92797742-92797761 MS.gene053225:CDS 45.0%
TTGTTGGAGGTTAAGAGGGT+TGG + chr4.2:92797741-92797760 MS.gene053225:CDS 45.0%
! GATTTGTCATCAAGCGGGTT+CGG + chr4.2:92797764-92797783 MS.gene053225:CDS 45.0%
! GGTGAGCTTTTGATGTCATC+TGG + chr4.2:92797507-92797526 MS.gene053225:CDS 45.0%
CAACTTGCGGCGAAGATGAT+AGG + chr4.2:92797346-92797365 MS.gene053225:CDS 50.0%
CTATCATCTTCGCCGCAAGT+TGG - chr4.2:92797348-92797367 None:intergenic 50.0%
GCTATGGATACGGAATTCCC+TGG + chr4.2:92797192-92797211 MS.gene053225:CDS 50.0%
!! GGTATCGATGCTAGGCGTTT+CGG + chr4.2:92797486-92797505 MS.gene053225:CDS 50.0%
! GCAGGGGTCTTGTATGGGTT+AGG + chr4.2:92797858-92797877 MS.gene053225:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 92797075 92797908 92797075 ID=MS.gene053225
chr4.2 mRNA 92797075 92797908 92797075 ID=MS.gene053225.t1;Parent=MS.gene053225
chr4.2 exon 92797075 92797908 92797075 ID=MS.gene053225.t1.exon1;Parent=MS.gene053225.t1
chr4.2 CDS 92797075 92797908 92797075 ID=cds.MS.gene053225.t1;Parent=MS.gene053225.t1
Gene Sequence

>MS.gene053225

ATGCCGCTAATTTTACCTCAAAACGACGATTCGATTCAGATCCGTGAAGTTTGGAGCGATAACCTTGAAGAAGAATTCGCTGTGATTCGAGAAATTGTTGATGATTATCCTTTCATTGCTATGGATACGGAATTCCCTGGTATTGTTCTTCGACCTGTTGGGAATTTCAAAAGCAATTATGATTATCATTACCAAACCCTAAAAGATAATGTTGATATGTTAAAGCTTATACAATTGGGTCTTACTTTTTCTGATGAGCATGGAAATCTTCCAACTTGCGGCGAAGATGATAGGTTTTGTATCTGGCAATTCAATTTTAGAGAATTTAATGTTAATGAGGATGTTTTTGCAAATGATTCAATTGAGCTTTTGAGACAAAGTGGAATTGATTTCAAGAAAAATAATGAACATGGTATCGATGCTAGGCGTTTCGGTGAGCTTTTGATGTCATCTGGGATTGTTTTGAATGATAATGTTCATTGGATAACTTTTCATAGTGGATATGATTTTGGTTATTTGTTGAAGTTGTTGACTTGTCAAAATTTACCTGATACACAAGTTGGGTTCTTTAATTTGATTAACATGTATTTCCCTATGCTGTATGATATCAAACATTTGATGAAGTTTTGTAATAGTCTTCATGGTGGGTTGAATAAGCTTGCAGAGTTGTTGGAGGTTAAGAGGGTTGGGATTTGTCATCAAGCGGGTTCGGATAGTTTACTCACATCTTCTGCATTCAGGAAATTGAAAGAGAATTTCTTTAGTGGATCTTTGGAGAAATATGCAGGGGTCTTGTATGGGTTAGGTGTTGAGAATGGACAGAGTACTCATTAA
Protein sequence

>MS.gene053225.t1

MPLILPQNDDSIQIREVWSDNLEEEFAVIREIVDDYPFIAMDTEFPGIVLRPVGNFKSNYDYHYQTLKDNVDMLKLIQLGLTFSDEHGNLPTCGEDDRFCIWQFNFREFNVNEDVFANDSIELLRQSGIDFKKNNEHGIDARRFGELLMSSGIVLNDNVHWITFHSGYDFGYLLKLLTCQNLPDTQVGFFNLINMYFPMLYDIKHLMKFCNSLHGGLNKLAELLEVKRVGICHQAGSDSLLTSSAFRKLKENFFSGSLEKYAGVLYGLGVENGQSTH