AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene86471


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene86471.t1 MTR_7g062720 94.697 132 7 0 1 132 1 132 9.75e-88 261
MS.gene86471.t1 MTR_4g037355 70.769 130 24 3 151 280 1 116 4.19e-54 174
MS.gene86471.t1 MTR_5g061150 61.667 120 46 0 27 146 17 136 1.59e-45 152
MS.gene86471.t1 MTR_4g112730 75.000 64 16 0 138 201 1 64 2.74e-26 100
MS.gene86471.t1 MTR_1g036690 61.628 86 22 3 273 357 5 80 1.56e-23 93.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 66 sgRNAs with CRISPR-Local

Find 86 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGAGGCCCTTAACATTTC+TGG 0.105015 5.1:-15825489 MS.gene86471:CDS
GCATCTCAACACAATCATTT+TGG 0.131367 5.1:-15824913 MS.gene86471:CDS
TTCCACTTCTGGTGGGAAAA+TGG 0.172180 5.1:+15824778 None:intergenic
TCTTAAGTGCTTCATTTATA+TGG 0.216688 5.1:+15825337 None:intergenic
ATCCAATCATATCTTGCTTT+TGG 0.220117 5.1:+15825231 None:intergenic
GATGCTGATTATGATATTTA+TGG 0.234910 5.1:-15824559 MS.gene86471:CDS
AATACTACTCCTTTGGATAT+TGG 0.253196 5.1:-15824529 MS.gene86471:CDS
TCCACTTCTGGTGGGAAAAT+GGG 0.275118 5.1:+15824779 None:intergenic
TTTGTATACTTCAGAATTAT+AGG 0.281074 5.1:+15825173 None:intergenic
TGTTGAGATGCATTCACTTC+AGG 0.293409 5.1:+15824925 None:intergenic
TGCCATAAAAGAAGGAAATA+AGG 0.335057 5.1:-15825403 MS.gene86471:CDS
AGTTGTTTCCAGAAATGTTA+AGG 0.345031 5.1:+15825481 None:intergenic
CACCAGCAGGGCGAGCTTCA+TGG 0.368055 5.1:+15824959 None:intergenic
CGCGGTCGTGGTCGTGGTCG+TGG 0.386944 5.1:-15824859 MS.gene86471:CDS
ATTGATCACCTTGTTGAAGA+TGG 0.391237 5.1:-15824478 MS.gene86471:CDS
GTTGTTTCCAGAAATGTTAA+GGG 0.399743 5.1:+15825482 None:intergenic
TAATTTAATTTCTTGTCTCC+TGG 0.400386 5.1:-15825016 MS.gene86471:CDS
TTTCACGGTATTGTTGTTGC+AGG 0.408251 5.1:+15825058 None:intergenic
CTGGAAACAACTATTTGACT+TGG 0.414379 5.1:-15825470 MS.gene86471:CDS
TACTTAGCTGCTGAAGGAAA+TGG 0.418999 5.1:-15825429 MS.gene86471:CDS
GTTGAGATGCATTCACTTCA+GGG 0.423894 5.1:+15824926 None:intergenic
CGCGGTCGCGGTCGTGGTCG+TGG 0.429172 5.1:-15824865 MS.gene86471:CDS
TAAAGGTCAACCAAATGCTT+TGG 0.429910 5.1:+15824646 None:intergenic
GGTCATGCCCACAATCCTAA+TGG 0.437132 5.1:-15824814 MS.gene86471:CDS
AACCATGAAGCTCGCCCTGC+TGG 0.438159 5.1:-15824961 MS.gene86471:CDS
TGACATGAATACTACTCCTT+TGG 0.440582 5.1:-15824536 MS.gene86471:CDS
GGGAATGGAGCTACACCAGC+AGG 0.445287 5.1:+15824946 None:intergenic
CGTGGTCGCGGTCGCGGTCG+TGG 0.450743 5.1:-15824871 MS.gene86471:CDS
CGTGGTCGTGGTCGCGGTCG+CGG 0.452026 5.1:-15824877 MS.gene86471:CDS
CCACTTCTGGTGGGAAAATG+GGG 0.456004 5.1:+15824780 None:intergenic
TCTCTCAAAACTTCACTTTG+AGG 0.457299 5.1:-15825505 MS.gene86471:CDS
ATGTCGTACTCCAAAGCATT+TGG 0.465557 5.1:-15824656 MS.gene86471:CDS
TTTGGGAGCGCTCGTGGTCG+TGG 0.467855 5.1:-15824895 MS.gene86471:CDS
TCCCAAAAGCAAGATATGAT+TGG 0.468237 5.1:-15825233 MS.gene86471:CDS
TGAAAGATCCACTTGTGCTC+TGG 0.468533 5.1:-15825299 MS.gene86471:CDS
CATTGTTCTGTTCAGCAACC+AGG 0.470715 5.1:+15824998 None:intergenic
AGCGCTCGTGGTCGTGGTCG+TGG 0.471808 5.1:-15824889 MS.gene86471:CDS
ACTCATTATGCTTATAAAGA+TGG 0.483040 5.1:-15824586 MS.gene86471:CDS
CGTGGTCGTGGTCGTGGTCG+CGG 0.491270 5.1:-15824883 MS.gene86471:CDS
TGCAACAACAATACCGTGAA+AGG 0.496092 5.1:-15825056 MS.gene86471:CDS
AAAGTATCTGTTATCGATGT+GGG 0.505636 5.1:-15824702 MS.gene86471:CDS
TTGTTGTTGCAGGAGCATAT+TGG 0.511014 5.1:+15825068 None:intergenic
AGTTTATTCCAGAGCACAAG+TGG 0.512360 5.1:+15825291 None:intergenic
GATGCATTCACTTCAGGGAA+TGG 0.514758 5.1:+15824931 None:intergenic
GCAACAACAATACCGTGAAA+GGG 0.516930 5.1:-15825055 MS.gene86471:CDS
GAAAAGAATGAAAATGAGAA+GGG 0.529787 5.1:-15824748 MS.gene86471:CDS
TAAGTACATTTCAGTATCTA+CGG 0.532057 5.1:+15825446 None:intergenic
TGGAAACAACTATTTGACTT+GGG 0.534823 5.1:-15825469 MS.gene86471:CDS
TGAAAAGAATGAAAATGAGA+AGG 0.541748 5.1:-15824749 MS.gene86471:CDS
AATATGCATGGTCGTGGTCG+TGG 0.544688 5.1:-15824835 MS.gene86471:CDS
AATGGAGATGCCATAAAAGA+AGG 0.547076 5.1:-15825411 MS.gene86471:CDS
GAGCATATTGGATGCATGAA+AGG 0.556835 5.1:+15825080 None:intergenic
AAGAATGAAAATGAGAAGGG+TGG 0.573649 5.1:-15824745 MS.gene86471:CDS
GAAAGTATCTGTTATCGATG+TGG 0.574435 5.1:-15824703 MS.gene86471:CDS
GAAATGTACTTAGCTGCTGA+AGG 0.580070 5.1:-15825435 MS.gene86471:CDS
ACTTCTCAATTAGAATTGTG+TGG 0.587587 5.1:-15825147 MS.gene86471:CDS
CAACAACAATACCGTGAAAG+GGG 0.610582 5.1:-15825054 MS.gene86471:CDS
AAGAAATCACCAATATCCAA+AGG 0.617484 5.1:+15824520 None:intergenic
AGTATCTGTTATCGATGTGG+GGG 0.620042 5.1:-15824700 MS.gene86471:CDS
CGTGGAAATATGCATGGTCG+TGG 0.624916 5.1:-15824841 MS.gene86471:CDS
CTTCATTTATATGGTGACGA+AGG 0.627090 5.1:+15825346 None:intergenic
AAGTATCTGTTATCGATGTG+GGG 0.635242 5.1:-15824701 MS.gene86471:CDS
TCACGATTCCATCTTCAACA+AGG 0.635824 5.1:+15824470 None:intergenic
CGTGGTCGTGGAAATATGCA+TGG 0.646225 5.1:-15824847 MS.gene86471:CDS
GGAATGGAGCTACACCAGCA+GGG 0.651331 5.1:+15824947 None:intergenic
CAAGTGGATCTTTCACAGTG+AGG 0.718603 5.1:+15825307 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAAAAAACAAAGGAAAAA+TGG - chr5.1:15825361-15825380 MS.gene86471:CDS 20.0%
!! TTTGTATACTTCAGAATTAT+AGG + chr5.1:15824805-15824824 None:intergenic 20.0%
! ACTCATTATGCTTATAAAGA+TGG - chr5.1:15825389-15825408 MS.gene86471:CDS 25.0%
! GAAAAGAATGAAAATGAGAA+GGG - chr5.1:15825227-15825246 MS.gene86471:CDS 25.0%
! TAAGTACATTTCAGTATCTA+CGG + chr5.1:15824532-15824551 None:intergenic 25.0%
! TCTTAAGTGCTTCATTTATA+TGG + chr5.1:15824641-15824660 None:intergenic 25.0%
! TGAAAAGAATGAAAATGAGA+AGG - chr5.1:15825226-15825245 MS.gene86471:CDS 25.0%
!! GATGCTGATTATGATATTTA+TGG - chr5.1:15825416-15825435 MS.gene86471:CDS 25.0%
!! TAATTTAATTTCTTGTCTCC+TGG - chr5.1:15824959-15824978 MS.gene86471:CDS 25.0%
!!! TTTCATTATTTTTCCACTTC+TGG + chr5.1:15825211-15825230 None:intergenic 25.0%
!!! TTTTTAGTGATTGCTGATAA+AGG + chr5.1:15825349-15825368 None:intergenic 25.0%
AAGAAATCACCAATATCCAA+AGG + chr5.1:15825458-15825477 None:intergenic 30.0%
AATACTACTCCTTTGGATAT+TGG - chr5.1:15825446-15825465 MS.gene86471:CDS 30.0%
ACTTCTCAATTAGAATTGTG+TGG - chr5.1:15824828-15824847 MS.gene86471:CDS 30.0%
CAGCAATCACTAAAAAACAA+AGG - chr5.1:15825353-15825372 MS.gene86471:CDS 30.0%
TGCCATAAAAGAAGGAAATA+AGG - chr5.1:15824572-15824591 MS.gene86471:CDS 30.0%
! AAAGTATCTGTTATCGATGT+GGG - chr5.1:15825273-15825292 MS.gene86471:CDS 30.0%
! AGTTGTTTCCAGAAATGTTA+AGG + chr5.1:15824497-15824516 None:intergenic 30.0%
! ATCCAATCATATCTTGCTTT+TGG + chr5.1:15824747-15824766 None:intergenic 30.0%
! CATCTCAACACAATCATTTT+GGG - chr5.1:15825063-15825082 MS.gene86471:CDS 30.0%
! GAATTTTCCATTAGGATTGT+GGG + chr5.1:15825171-15825190 None:intergenic 30.0%
! GTTGTTTCCAGAAATGTTAA+GGG + chr5.1:15824496-15824515 None:intergenic 30.0%
! TGAATTTTCCATTAGGATTG+TGG + chr5.1:15825172-15825191 None:intergenic 30.0%
! TGGAAACAACTATTTGACTT+GGG - chr5.1:15824506-15824525 MS.gene86471:CDS 30.0%
!! ATTATTTTTCCACTTCTGGT+GGG + chr5.1:15825207-15825226 None:intergenic 30.0%
!! TCCAATCATATCTTGCTTTT+GGG + chr5.1:15824746-15824765 None:intergenic 30.0%
!!! ATTTTTGAAATCCCCTTTCA+CGG + chr5.1:15824935-15824954 None:intergenic 30.0%
!!! TGCCTTATTTCCTTCTTTTA+TGG + chr5.1:15824577-15824596 None:intergenic 30.0%
AAGAATGAAAATGAGAAGGG+TGG - chr5.1:15825230-15825249 MS.gene86471:CDS 35.0%
AAGTATCTGTTATCGATGTG+GGG - chr5.1:15825274-15825293 MS.gene86471:CDS 35.0%
AATGGAGATGCCATAAAAGA+AGG - chr5.1:15824564-15824583 MS.gene86471:CDS 35.0%
ATTGATCACCTTGTTGAAGA+TGG - chr5.1:15825497-15825516 MS.gene86471:CDS 35.0%
CTGGAAACAACTATTTGACT+TGG - chr5.1:15824505-15824524 MS.gene86471:CDS 35.0%
TAAAGGTCAACCAAATGCTT+TGG + chr5.1:15825332-15825351 None:intergenic 35.0%
TCCCAAAAGCAAGATATGAT+TGG - chr5.1:15824742-15824761 MS.gene86471:CDS 35.0%
TCTCTCAAAACTTCACTTTG+AGG - chr5.1:15824470-15824489 MS.gene86471:CDS 35.0%
TGACATGAATACTACTCCTT+TGG - chr5.1:15825439-15825458 MS.gene86471:CDS 35.0%
! CTTCATTTATATGGTGACGA+AGG + chr5.1:15824632-15824651 None:intergenic 35.0%
! GCATCTCAACACAATCATTT+TGG - chr5.1:15825062-15825081 MS.gene86471:CDS 35.0%
!! AATCATATCTTGCTTTTGGG+AGG + chr5.1:15824743-15824762 None:intergenic 35.0%
!! CATTATTTTTCCACTTCTGG+TGG + chr5.1:15825208-15825227 None:intergenic 35.0%
!! GAAAGTATCTGTTATCGATG+TGG - chr5.1:15825272-15825291 MS.gene86471:CDS 35.0%
!!! TGCTTTTGCTTTTTGTTGCT+CGG + chr5.1:15824601-15824620 None:intergenic 35.0%
AGTATCTGTTATCGATGTGG+GGG - chr5.1:15825275-15825294 MS.gene86471:CDS 40.0%
AGTTTATTCCAGAGCACAAG+TGG + chr5.1:15824687-15824706 None:intergenic 40.0%
CAACAACAATACCGTGAAAG+GGG - chr5.1:15824921-15824940 MS.gene86471:CDS 40.0%
GAAATGTACTTAGCTGCTGA+AGG - chr5.1:15824540-15824559 MS.gene86471:CDS 40.0%
GAGCATATTGGATGCATGAA+AGG + chr5.1:15824898-15824917 None:intergenic 40.0%
GCAACAACAATACCGTGAAA+GGG - chr5.1:15824920-15824939 MS.gene86471:CDS 40.0%
GTTGAGATGCATTCACTTCA+GGG + chr5.1:15825052-15825071 None:intergenic 40.0%
TACTTAGCTGCTGAAGGAAA+TGG - chr5.1:15824546-15824565 MS.gene86471:CDS 40.0%
TCACGATTCCATCTTCAACA+AGG + chr5.1:15825508-15825527 None:intergenic 40.0%
TGCAACAACAATACCGTGAA+AGG - chr5.1:15824919-15824938 MS.gene86471:CDS 40.0%
TGTTGAGATGCATTCACTTC+AGG + chr5.1:15825053-15825072 None:intergenic 40.0%
! ATGTCGTACTCCAAAGCATT+TGG - chr5.1:15825319-15825338 MS.gene86471:CDS 40.0%
! TTGTTGTTGCAGGAGCATAT+TGG + chr5.1:15824910-15824929 None:intergenic 40.0%
! TTTCACGGTATTGTTGTTGC+AGG + chr5.1:15824920-15824939 None:intergenic 40.0%
! TTTGAGGCCCTTAACATTTC+TGG - chr5.1:15824486-15824505 MS.gene86471:CDS 40.0%
!! TCTTGCTTTTGGGAGGATAA+TGG + chr5.1:15824736-15824755 None:intergenic 40.0%
!!! GGGGTTCTGAATTTTCCATT+AGG + chr5.1:15825179-15825198 None:intergenic 40.0%
CAAGTGGATCTTTCACAGTG+AGG + chr5.1:15824671-15824690 None:intergenic 45.0%
CATTGTTCTGTTCAGCAACC+AGG + chr5.1:15824980-15824999 None:intergenic 45.0%
GATGCATTCACTTCAGGGAA+TGG + chr5.1:15825047-15825066 None:intergenic 45.0%
TCCACTTCTGGTGGGAAAAT+GGG + chr5.1:15825199-15825218 None:intergenic 45.0%
TGAAAGATCCACTTGTGCTC+TGG - chr5.1:15824676-15824695 MS.gene86471:CDS 45.0%
TGTTATCGATGTGGGGGAAA+AGG - chr5.1:15825281-15825300 MS.gene86471:CDS 45.0%
TTCCACTTCTGGTGGGAAAA+TGG + chr5.1:15825200-15825219 None:intergenic 45.0%
AATATGCATGGTCGTGGTCG+TGG - chr5.1:15825140-15825159 MS.gene86471:CDS 50.0%
CCACTTCTGGTGGGAAAATG+GGG + chr5.1:15825198-15825217 None:intergenic 50.0%
CGTGGAAATATGCATGGTCG+TGG - chr5.1:15825134-15825153 MS.gene86471:CDS 50.0%
CGTGGTCGTGGAAATATGCA+TGG - chr5.1:15825128-15825147 MS.gene86471:CDS 50.0%
GATGTGGGGGAAAAGGTCAT+TGG - chr5.1:15825288-15825307 MS.gene86471:CDS 50.0%
GGTCATGCCCACAATCCTAA+TGG - chr5.1:15825161-15825180 MS.gene86471:CDS 50.0%
!!! AATCATTTTGGGAGCGCTCG+TGG - chr5.1:15825074-15825093 MS.gene86471:CDS 50.0%
GGAATGGAGCTACACCAGCA+GGG + chr5.1:15825031-15825050 None:intergenic 55.0%
! CCCCATTTTCCCACCAGAAG+TGG - chr5.1:15825195-15825214 MS.gene86471:CDS 55.0%
AACCATGAAGCTCGCCCTGC+TGG - chr5.1:15825014-15825033 MS.gene86471:CDS 60.0%
GGGAATGGAGCTACACCAGC+AGG + chr5.1:15825032-15825051 None:intergenic 60.0%
CACCAGCAGGGCGAGCTTCA+TGG + chr5.1:15825019-15825038 None:intergenic 65.0%
!! TTTGGGAGCGCTCGTGGTCG+TGG - chr5.1:15825080-15825099 MS.gene86471:CDS 65.0%
AGCGCTCGTGGTCGTGGTCG+TGG - chr5.1:15825086-15825105 MS.gene86471:CDS 70.0%
CGTGGTCGTGGTCGTGGTCG+CGG - chr5.1:15825092-15825111 MS.gene86471:CDS 70.0%
CGCGGTCGTGGTCGTGGTCG+TGG - chr5.1:15825116-15825135 MS.gene86471:CDS 75.0%
CGTGGTCGTGGTCGCGGTCG+CGG - chr5.1:15825098-15825117 MS.gene86471:CDS 75.0%
! CGCGGTCGCGGTCGTGGTCG+TGG - chr5.1:15825110-15825129 MS.gene86471:CDS 80.0%
! CGTGGTCGCGGTCGCGGTCG+TGG - chr5.1:15825104-15825123 MS.gene86471:CDS 80.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 15824462 15825535 15824462 ID=MS.gene86471
chr5.1 mRNA 15824462 15825535 15824462 ID=MS.gene86471.t1;Parent=MS.gene86471
chr5.1 exon 15824462 15825535 15824462 ID=MS.gene86471.t1.exon1;Parent=MS.gene86471.t1
chr5.1 CDS 15824462 15825535 15824462 ID=cds.MS.gene86471.t1;Parent=MS.gene86471.t1
Gene Sequence

>MS.gene86471

ATGTCAAATCTCTCAAAACTTCACTTTGAGGCCCTTAACATTTCTGGAAACAACTATTTGACTTGGGCCGTAGATACTGAAATGTACTTAGCTGCTGAAGGAAATGGAGATGCCATAAAAGAAGGAAATAAGGCATCCGAGCAACAAAAAGCAAAAGCATTAATATTCCTTCGTCACCATATAAATGAAGCACTTAAGAATGAATACCTCACTGTGAAAGATCCACTTGTGCTCTGGAATAAACTAAAAGAAAGATATGAGCACTTGAAAGCCATTATCCTCCCAAAAGCAAGATATGATTGGATGCACTTGCGCTTACAAGACTTCAAGTCTGTAACTGCCTATAATTCTGAAGTATACAAAATTACTTCTCAATTAGAATTGTGTGGTGAAAAAATAGCAGATACAGATCTGTTAGAGAAAACATTTTCAACCTTTCATGCATCCAATATGCTCCTGCAACAACAATACCGTGAAAGGGGATTTCAAAAATACTCTAATTTAATTTCTTGTCTCCTGGTTGCTGAACAGAACAATGAACTTCTAATGAAAAACCATGAAGCTCGCCCTGCTGGTGTAGCTCCATTCCCTGAAGTGAATGCATCTCAACACAATCATTTTGGGAGCGCTCGTGGTCGTGGTCGTGGTCGCGGTCGCGGTCGTGGTCGTGGTCGTGGAAATATGCATGGTCGTGGTCGTGGTCATGCCCACAATCCTAATGGAAAATTCAGAACCCCATTTTCCCACCAGAAGTGGAAAAATAATGAAAAGAATGAAAATGAGAAGGGTGGACAAAGTAGCAAAACAAATGAAAGTATCTGTTATCGATGTGGGGGAAAAGGTCATTGGTCTCGTACATGTCGTACTCCAAAGCATTTGGTTGACCTTTATCAGCAATCACTAAAAAACAAAGGAAAAATGGTTGAAACTCATTATGCTTATAAAGATGGTGATGATGCTGATTATGATATTTATGGTGACATGAATACTACTCCTTTGGATATTGGTGATTTCTTTGAAAATCAAAATGAAAAAATTGATCACCTTGTTGAAGATGGAATCGTGAAGAAATAG

Protein sequence

>MS.gene86471.t1

MSNLSKLHFEALNISGNNYLTWAVDTEMYLAAEGNGDAIKEGNKASEQQKAKALIFLRHHINEALKNEYLTVKDPLVLWNKLKERYEHLKAIILPKARYDWMHLRLQDFKSVTAYNSEVYKITSQLELCGEKIADTDLLEKTFSTFHASNMLLQQQYRERGFQKYSNLISCLLVAEQNNELLMKNHEARPAGVAPFPEVNASQHNHFGSARGRGRGRGRGRGRGRGNMHGRGRGHAHNPNGKFRTPFSHQKWKNNEKNENEKGGQSSKTNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLKNKGKMVETHYAYKDGDDADYDIYGDMNTTPLDIGDFFENQNEKIDHLVEDGIVKK