AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene82368

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82368.t1 MTR_4g082980 82.878 403 17 5 26 424 96 450 1.70e-177 503
MS.gene82368.t1 MTR_5g043930 42.562 484 157 23 2 424 91 514 9.76e-64 213
MS.gene82368.t1 MTR_4g109340 30.947 433 221 20 33 424 95 490 1.49e-35 137
MS.gene82368.t1 MTR_0160s0030 50.847 59 28 1 366 424 284 341 4.91e-14 73.6
MS.gene82368.t1 MTR_4g100860 48.387 62 29 1 366 424 244 305 2.07e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82368.t1 AT1G26610 36.124 418 188 19 32 424 92 455 4.61e-49 173
MS.gene82368.t1 AT1G26590 29.592 392 169 15 35 420 84 374 2.57e-19 89.4
MS.gene82368.t1 AT1G26590 29.592 392 169 15 35 420 66 356 2.82e-19 89.4
MS.gene82368.t1 AT1G26590 29.592 392 169 15 35 420 66 356 2.82e-19 89.4
MS.gene82368.t1 AT1G26590 29.592 392 169 15 35 420 66 356 2.82e-19 89.4
MS.gene82368.t1 AT1G02030 55.000 60 21 2 365 424 206 259 4.47e-12 66.6
MS.gene82368.t1 AT3G60580 52.632 57 27 0 368 424 224 280 8.43e-12 65.9
MS.gene82368.t1 AT2G45120 47.143 70 32 2 360 424 235 304 9.53e-11 63.2

Find 49 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTCTTCTTCTTCTGTTAA+TGG 0.176069 4.2:+26597092 MS.gene82368:CDS
CTTTCTATTCACAGCTTTAC+TGG 0.265058 4.2:-26597786 None:intergenic
CCTGCTCCTGTGGATGAATA+AGG 0.307720 4.2:+26598022 MS.gene82368:CDS
GGAAATCTAAGAGAAGAATT+AGG 0.339409 4.2:+26597039 MS.gene82368:CDS
CTGCTACTACAATGAATCTA+AGG 0.360047 4.2:+26597018 MS.gene82368:CDS
GATTCGAGGGATTTCAGATA+TGG 0.370754 4.2:+26597380 MS.gene82368:CDS
TCGAAGATTGTTATCAGAAA+TGG 0.375407 4.2:+26597266 MS.gene82368:CDS
ATCTGTTTCTGAGATGGAAC+AGG 0.383756 4.2:+26597124 MS.gene82368:CDS
CCTTCATTGAAAGCACTTTG+TGG 0.392261 4.2:+26596894 MS.gene82368:CDS
AGGTACGATGGATAAGGATT+TGG 0.397075 4.2:+26597541 MS.gene82368:CDS
AGAAAGAAAGCAAACTTTGA+AGG 0.397607 4.2:+26597587 MS.gene82368:CDS
GATTTATCTGCTTCCACCTT+AGG 0.403922 4.2:-26597458 None:intergenic
TTCAGGTCAGGACAAGCATT+AGG 0.413798 4.2:+26597896 MS.gene82368:CDS
TTCTTCATCTGTTTCTGAGA+TGG 0.422661 4.2:+26597118 MS.gene82368:CDS
ACAACTATGTTTAAGAAATC+AGG 0.422976 4.2:+26597521 MS.gene82368:CDS
AAGAAGGAGCTGAAGATGGT+TGG 0.430210 4.2:+26597335 MS.gene82368:CDS
GATCGGTGTTTCGAATAATT+CGG 0.442405 4.2:+26597358 MS.gene82368:CDS
GAAGATCAACAAGGCTATGA+TGG 0.459880 4.2:+26596947 MS.gene82368:CDS
AGAAGGAGCTGAAGATGGTT+GGG 0.464454 4.2:+26597336 MS.gene82368:CDS
CCTTATTCATCCACAGGAGC+AGG 0.473629 4.2:-26598022 None:intergenic
GAAATCAGGTACGATGGATA+AGG 0.482279 4.2:+26597535 MS.gene82368:CDS
AATGAAGAAATCTATGAGAA+TGG 0.504427 4.2:+26597629 MS.gene82368:CDS
CCACAAAGTGCTTTCAATGA+AGG 0.507655 4.2:-26596894 None:intergenic
AGCAGATAAATCTGGATTTG+AGG 0.507748 4.2:+26597469 MS.gene82368:CDS
GTTTGTTGCGGAGAAGAAGA+AGG 0.510689 4.2:+26597319 MS.gene82368:CDS
AAGGTGGAAGCAGATAAATC+TGG 0.519283 4.2:+26597461 MS.gene82368:CDS
TCTTCTTCTTCTGTTAATGG+TGG 0.530303 4.2:+26597095 MS.gene82368:CDS
TTTCGAATAATTCGGATTCG+AGG 0.532430 4.2:+26597366 MS.gene82368:CDS
GAAGAAGAAGGAGCTGAAGA+TGG 0.533199 4.2:+26597331 MS.gene82368:CDS
TTCGAATAATTCGGATTCGA+GGG 0.541551 4.2:+26597367 MS.gene82368:CDS
GAAAGCACTTTGTGGTCACA+TGG 0.555106 4.2:+26596902 MS.gene82368:CDS
TCTCAATCTACCTGCTCCTG+TGG 0.555313 4.2:+26598012 MS.gene82368:CDS
TTTCAAGCTATGAATTCAAG+AGG 0.573385 4.2:+26597435 MS.gene82368:CDS
CAACAAGGCTATGATGGAGG+AGG 0.578283 4.2:+26596953 MS.gene82368:CDS
CTATGAATTCAAGAGGCCTA+AGG 0.586326 4.2:+26597442 MS.gene82368:CDS
AACAACAAGAAGAGGTTGCT+AGG 0.606113 4.2:+26597147 MS.gene82368:CDS
TAATGCTCGTGAGTTTGTTG+CGG 0.608198 4.2:+26597307 MS.gene82368:CDS
TGAATTCAAGAGGCCTAAGG+TGG 0.609568 4.2:+26597445 MS.gene82368:CDS
AGGTCAGGACAAGCATTAGG+AGG 0.611093 4.2:+26597899 MS.gene82368:CDS
GGAACAGGAACAACAAGAAG+AGG 0.611508 4.2:+26597139 MS.gene82368:CDS
AAGAAATTATCAAGCAACAA+GGG 0.615423 4.2:+26597806 MS.gene82368:CDS
TGCTACTGCTGCAACCACAT+TGG 0.618871 4.2:+26596824 MS.gene82368:CDS
GAGCTGAAGATGGTTGGGAT+CGG 0.620650 4.2:+26597341 MS.gene82368:CDS
CCATTAACAGAAGAAGAAGA+AGG 0.621252 4.2:-26597092 None:intergenic
GTTTAAGAAATCAGGTACGA+TGG 0.632267 4.2:+26597529 MS.gene82368:CDS
AAAGAAATTATCAAGCAACA+AGG 0.646880 4.2:+26597805 MS.gene82368:CDS
GATCAACAAGGCTATGATGG+AGG 0.660663 4.2:+26596950 MS.gene82368:CDS
AGATTGAGATCAATCAAACA+AGG 0.701265 4.2:-26597998 None:intergenic
GAAAGAGAAGAAGATCAACA+AGG 0.702925 4.2:+26596938 MS.gene82368:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTATGAAATATGAGTTTTT+TGG + chr4.2:26597659-26597678 MS.gene82368:CDS 20.0%
! AAAGAAATTATCAAGCAACA+AGG + chr4.2:26597805-26597824 MS.gene82368:CDS 25.0%
! AAGAAATTATCAAGCAACAA+GGG + chr4.2:26597806-26597825 MS.gene82368:CDS 25.0%
! AATGAAGAAATCTATGAGAA+TGG + chr4.2:26597629-26597648 MS.gene82368:CDS 25.0%
! ACAACTATGTTTAAGAAATC+AGG + chr4.2:26597521-26597540 MS.gene82368:CDS 25.0%
!! ATCAAATTTTGCAAAGAATG+TGG + chr4.2:26596861-26596880 MS.gene82368:CDS 25.0%
!! CATAAAAGATCACATTTTGT+TGG + chr4.2:26597923-26597942 MS.gene82368:CDS 25.0%
!! CTGAAAATTTTGTAGCAAAT+TGG - chr4.2:26597881-26597900 None:intergenic 25.0%
!! TCAAATTTTGCAAAGAATGT+GGG + chr4.2:26596862-26596881 MS.gene82368:CDS 25.0%
!!! AGAGATTTTTTTGGTCATAA+GGG + chr4.2:26597188-26597207 MS.gene82368:CDS 25.0%
!!! CAATTTGCTACAAAATTTTC+AGG + chr4.2:26597879-26597898 MS.gene82368:CDS 25.0%
!!! TAGAGATTTTTTTGGTCATA+AGG + chr4.2:26597187-26597206 MS.gene82368:CDS 25.0%
!!! TGAGTTTTTTGGTTATGAAA+AGG + chr4.2:26597670-26597689 MS.gene82368:CDS 25.0%
!!! TTGTTGTCTAGAGATTTTTT+TGG + chr4.2:26597179-26597198 MS.gene82368:CDS 25.0%
AGAAAGAAAGCAAACTTTGA+AGG + chr4.2:26597587-26597606 MS.gene82368:CDS 30.0%
AGATTGAGATCAATCAAACA+AGG - chr4.2:26598001-26598020 None:intergenic 30.0%
GGAAATCTAAGAGAAGAATT+AGG + chr4.2:26597039-26597058 MS.gene82368:CDS 30.0%
TCGAAGATTGTTATCAGAAA+TGG + chr4.2:26597266-26597285 MS.gene82368:CDS 30.0%
TTTCAAGCTATGAATTCAAG+AGG + chr4.2:26597435-26597454 MS.gene82368:CDS 30.0%
! AAAAGATCACATTTTGTTGG+AGG + chr4.2:26597926-26597945 MS.gene82368:CDS 30.0%
! CATTTCATTTTGTTCCAATG+TGG - chr4.2:26596841-26596860 None:intergenic 30.0%
AGCAGATAAATCTGGATTTG+AGG + chr4.2:26597469-26597488 MS.gene82368:CDS 35.0%
CCATTAACAGAAGAAGAAGA+AGG - chr4.2:26597095-26597114 None:intergenic 35.0%
CCTTCTTCTTCTTCTGTTAA+TGG + chr4.2:26597092-26597111 MS.gene82368:CDS 35.0%
CTGCTACTACAATGAATCTA+AGG + chr4.2:26597018-26597037 MS.gene82368:CDS 35.0%
CTTTCTATTCACAGCTTTAC+TGG - chr4.2:26597789-26597808 None:intergenic 35.0%
GAAAGAGAAGAAGATCAACA+AGG + chr4.2:26596938-26596957 MS.gene82368:CDS 35.0%
GTTTAAGAAATCAGGTACGA+TGG + chr4.2:26597529-26597548 MS.gene82368:CDS 35.0%
TCTTCTTCTTCTGTTAATGG+TGG + chr4.2:26597095-26597114 MS.gene82368:CDS 35.0%
TTCGAATAATTCGGATTCGA+GGG + chr4.2:26597367-26597386 MS.gene82368:CDS 35.0%
TTTCGAATAATTCGGATTCG+AGG + chr4.2:26597366-26597385 MS.gene82368:CDS 35.0%
! GATCGGTGTTTCGAATAATT+CGG + chr4.2:26597358-26597377 MS.gene82368:CDS 35.0%
! TTTTGCAAAGAATGTGGGAA+AGG + chr4.2:26596867-26596886 MS.gene82368:CDS 35.0%
!! TTCTTCATCTGTTTCTGAGA+TGG + chr4.2:26597118-26597137 MS.gene82368:CDS 35.0%
!!! TGCTACAAAATTTTCAGGTC+AGG + chr4.2:26597884-26597903 MS.gene82368:CDS 35.0%
AACAACAAGAAGAGGTTGCT+AGG + chr4.2:26597147-26597166 MS.gene82368:CDS 40.0%
AAGGTGGAAGCAGATAAATC+TGG + chr4.2:26597461-26597480 MS.gene82368:CDS 40.0%
AGGTACGATGGATAAGGATT+TGG + chr4.2:26597541-26597560 MS.gene82368:CDS 40.0%
CTATGAATTCAAGAGGCCTA+AGG + chr4.2:26597442-26597461 MS.gene82368:CDS 40.0%
GAAATCAGGTACGATGGATA+AGG + chr4.2:26597535-26597554 MS.gene82368:CDS 40.0%
GAAGATCAACAAGGCTATGA+TGG + chr4.2:26596947-26596966 MS.gene82368:CDS 40.0%
GATTCGAGGGATTTCAGATA+TGG + chr4.2:26597380-26597399 MS.gene82368:CDS 40.0%
GATTTATCTGCTTCCACCTT+AGG - chr4.2:26597461-26597480 None:intergenic 40.0%
! CCACAAAGTGCTTTCAATGA+AGG - chr4.2:26596897-26596916 None:intergenic 40.0%
!! ATCTGTTTCTGAGATGGAAC+AGG + chr4.2:26597124-26597143 MS.gene82368:CDS 40.0%
!! CCTTCATTGAAAGCACTTTG+TGG + chr4.2:26596894-26596913 MS.gene82368:CDS 40.0%
!! TAATGCTCGTGAGTTTGTTG+CGG + chr4.2:26597307-26597326 MS.gene82368:CDS 40.0%
AAGAAGGAGCTGAAGATGGT+TGG + chr4.2:26597335-26597354 MS.gene82368:CDS 45.0%
AGAAGGAGCTGAAGATGGTT+GGG + chr4.2:26597336-26597355 MS.gene82368:CDS 45.0%
GAAGAAGAAGGAGCTGAAGA+TGG + chr4.2:26597331-26597350 MS.gene82368:CDS 45.0%
GATCAACAAGGCTATGATGG+AGG + chr4.2:26596950-26596969 MS.gene82368:CDS 45.0%
GGAACAGGAACAACAAGAAG+AGG + chr4.2:26597139-26597158 MS.gene82368:CDS 45.0%
TGAATTCAAGAGGCCTAAGG+TGG + chr4.2:26597445-26597464 MS.gene82368:CDS 45.0%
TTCAGGTCAGGACAAGCATT+AGG + chr4.2:26597896-26597915 MS.gene82368:CDS 45.0%
! CTGGTATGAGATTTTGCAGC+AGG - chr4.2:26597770-26597789 None:intergenic 45.0%
! GTTTGTTGCGGAGAAGAAGA+AGG + chr4.2:26597319-26597338 MS.gene82368:CDS 45.0%
!! GAAAGCACTTTGTGGTCACA+TGG + chr4.2:26596902-26596921 MS.gene82368:CDS 45.0%
AGGTCAGGACAAGCATTAGG+AGG + chr4.2:26597899-26597918 MS.gene82368:CDS 50.0%
GAGCTGAAGATGGTTGGGAT+CGG + chr4.2:26597341-26597360 MS.gene82368:CDS 50.0%
TCTCAATCTACCTGCTCCTG+TGG + chr4.2:26598012-26598031 MS.gene82368:CDS 50.0%
TGCTACTGCTGCAACCACAT+TGG + chr4.2:26596824-26596843 MS.gene82368:CDS 50.0%
! CAACAAGGCTATGATGGAGG+AGG + chr4.2:26596953-26596972 MS.gene82368:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 26596768 26598042 26596768 ID=MS.gene82368
chr4.2 mRNA 26596768 26598042 26596768 ID=MS.gene82368.t1;Parent=MS.gene82368
chr4.2 exon 26596768 26598042 26596768 ID=MS.gene82368.t1.exon1;Parent=MS.gene82368.t1
chr4.2 CDS 26596768 26598042 26596768 ID=cds.MS.gene82368.t1;Parent=MS.gene82368.t1
Gene Sequence

>MS.gene82368

ATGAGGTTTGTGCATTCTCATCATCATCATCATCATCATCATCATCATGCTGCTGCTGCTACTGCTGCAACCACATTGGAACAAAATGAAATGATCAAATTTTGCAAAGAATGTGGGAAAGGTTTTCCTTCATTGAAAGCACTTTGTGGTCACATGGCTTCTCATTCTGAGAAAGAGAAGAAGATCAACAAGGCTATGATGGAGGAGGATACTCAATCTGATGATACTGATGATGATGATGTTTGTGTTGCTGCTACTACAATGAATCTAAGGAAATCTAAGAGAAGAATTAGGTTCAAGTCTATTACTCTTTCAAATCAACAACCTTCTTCTTCTTCTGTTAATGGTGGTTCTTCATCTGTTTCTGAGATGGAACAGGAACAACAAGAAGAGGTTGCTAGGTGTTTGATGTTGTTGTCTAGAGATTTTTTTGGTCATAAGGGTCGTTTTATTTCTGAATCTTCTGATAATAACAATGAGATTGTTCTAGAGACGAAATCGAAGATTGTTATCAGAAATGGTAACAAATTTGTAGCTAATAATGCTCGTGAGTTTGTTGCGGAGAAGAAGAAGGAGCTGAAGATGGTTGGGATCGGTGTTTCGAATAATTCGGATTCGAGGGATTTCAGATATGGTTCAAAGAAGATCAAATTTGCAGATTCAAGTGTTTCAAGCTATGAATTCAAGAGGCCTAAGGTGGAAGCAGATAAATCTGGATTTGAGGATATTAGAAGCAAATACAATAACAATGTAACAACTATGTTTAAGAAATCAGGTACGATGGATAAGGATTTGGATCATGATACAAAGTTCGATTCGAGAAAGAAAGCAAACTTTGAAGGATTTTCTTTTAGCAACAAAAATGAAGAAATCTATGAGAATGGTAGCAAAAGTATGAAATATGAGTTTTTTGGTTATGAAAAGGAAAATGACATTTCTTATGATTCAACAACAGATGTTGAGAGTGATGAAGAAAACAGTTCAGAAAGCGATTCTTTTCCTGCTGCAAAATCTCATACCAGTAAAGCTGTGAATAGAAAGAAATTATCAAGCAACAAGGGTAAGAATAAGAAGAAGTTGAAGTCAAAGAAAAGCAAAGAATATGAATGTCCAATTTGCTACAAAATTTTCAGGTCAGGACAAGCATTAGGAGGACATAAAAGATCACATTTTGTTGGAGGATCTGAAGAGAACACTTTTGTGATCAAACAAGCTGCTGCTGCTGCTGTTCCTTGTTTGATTGATCTCAATCTACCTGCTCCTGTGGATGAATAA
Protein sequence

>MS.gene82368.t1

MRFVHSHHHHHHHHHHAAAATAATTLEQNEMIKFCKECGKGFPSLKALCGHMASHSEKEKKINKAMMEEDTQSDDTDDDDVCVAATTMNLRKSKRRIRFKSITLSNQQPSSSSVNGGSSSVSEMEQEQQEEVARCLMLLSRDFFGHKGRFISESSDNNNEIVLETKSKIVIRNGNKFVANNAREFVAEKKKELKMVGIGVSNNSDSRDFRYGSKKIKFADSSVSSYEFKRPKVEADKSGFEDIRSKYNNNVTTMFKKSGTMDKDLDHDTKFDSRKKANFEGFSFSNKNEEIYENGSKSMKYEFFGYEKENDISYDSTTDVESDEENSSESDSFPAAKSHTSKAVNRKKLSSNKGKNKKKLKSKKSKEYECPICYKIFRSGQALGGHKRSHFVGGSEENTFVIKQAAAAAVPCLIDLNLPAPVDE