AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067921

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067921.t1 MTR_2g076780 67.033 91 29 1 36 126 20 109 2.40e-36 125
MS.gene067921.t1 MTR_8g069080 67.416 89 28 1 38 126 54 141 6.02e-35 122
MS.gene067921.t1 MTR_3g100650 70.370 54 16 0 51 104 78 131 2.64e-22 89.7
MS.gene067921.t1 MTR_5g065440 46.512 86 46 0 19 104 24 109 3.88e-22 89.4
MS.gene067921.t1 MTR_5g032600 63.934 61 20 1 51 109 76 136 1.38e-21 87.8
MS.gene067921.t1 MTR_5g020510 59.615 52 21 0 53 104 99 150 1.56e-21 88.2
MS.gene067921.t1 MTR_1g077020 62.963 54 20 0 51 104 7 60 5.64e-21 84.7
MS.gene067921.t1 MTR_4g134580 56.140 57 25 0 53 109 113 169 2.73e-19 82.8
MS.gene067921.t1 MTR_3g039810 54.545 55 25 0 50 104 17 71 4.85e-19 76.6
MS.gene067921.t1 MTR_8g442330 46.591 88 36 2 62 138 14 101 1.42e-16 71.6
MS.gene067921.t1 MTR_6g012280 55.769 52 21 1 53 102 91 142 1.05e-15 72.8
MS.gene067921.t1 MTR_8g467340 56.140 57 23 1 48 102 59 115 1.47e-15 72.8
MS.gene067921.t1 MTR_7g010300 53.704 54 23 1 51 102 86 139 5.18e-15 70.9
MS.gene067921.t1 MTR_6g012220 52.941 51 20 1 51 101 19 65 3.41e-14 63.9
MS.gene067921.t1 MTR_6g073013 45.902 61 31 2 50 109 16 75 4.68e-13 63.5
MS.gene067921.t1 MTR_7g070643 47.761 67 32 2 27 91 55 120 5.59e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067921.t1 AT4G24660 48.684 76 37 1 51 124 47 122 2.05e-23 91.7
MS.gene067921.t1 AT4G24660 48.684 76 37 1 51 124 47 122 2.26e-23 91.7
MS.gene067921.t1 AT1G75240 62.903 62 22 1 51 111 74 135 8.05e-23 91.7
MS.gene067921.t1 AT1G74660 63.636 55 20 0 50 104 36 90 1.03e-22 86.3
MS.gene067921.t1 AT1G74660 63.636 55 20 0 50 104 36 90 1.63e-22 86.3
MS.gene067921.t1 AT5G65410 67.308 52 17 0 52 103 74 125 5.09e-20 84.0
MS.gene067921.t1 AT2G02540 55.556 54 24 0 51 104 85 138 7.15e-20 84.0
MS.gene067921.t1 AT2G02540 55.556 54 24 0 51 104 85 138 7.15e-20 84.0
MS.gene067921.t1 AT1G14440 57.407 54 23 0 51 104 88 141 1.40e-19 83.2
MS.gene067921.t1 AT1G14440 57.407 54 23 0 51 104 88 141 1.40e-19 83.2
MS.gene067921.t1 AT3G50890 44.872 78 33 1 26 103 43 110 3.86e-19 80.9
MS.gene067921.t1 AT2G18350 42.683 82 43 1 51 132 80 157 7.29e-18 77.8
MS.gene067921.t1 AT3G28917 52.727 55 25 1 51 104 31 85 1.53e-17 73.2
MS.gene067921.t1 AT1G18835 54.545 55 22 1 50 104 23 74 7.19e-17 71.2
MS.gene067921.t1 AT1G69600 44.872 78 41 1 49 124 27 104 1.69e-16 73.9
MS.gene067921.t1 AT3G28920 51.429 70 30 2 51 118 50 117 2.19e-15 71.6
MS.gene067921.t1 AT5G15210 51.471 68 29 2 53 116 56 123 3.73e-15 70.5
MS.gene067921.t1 AT5G60480 48.750 80 37 3 51 127 35 113 9.18e-15 68.9
MS.gene067921.t1 AT5G39760 57.407 54 21 1 53 104 56 109 1.98e-14 69.3
MS.gene067921.t1 AT5G42780 50.000 52 24 1 52 103 63 112 6.62e-11 58.5

Find 33 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAATCTCATACAAATTC+TGG 0.264006 8.3:-33702276 MS.gene067921:CDS
CTTGGTGCTCCATTCGTATT+AGG 0.273425 8.3:+33702012 None:intergenic
AAAACTCGCAACAACCATCT+AGG 0.381882 8.3:+33702184 None:intergenic
CGGAATAGGTATCAAATCTC+TGG 0.405626 8.3:+33702068 None:intergenic
TCGGTGCTTGAGGGAGGCAT+GGG 0.407257 8.3:+33702037 None:intergenic
ATTGGAGGTTATGCCCTAGA+TGG 0.417532 8.3:-33702198 MS.gene067921:CDS
TAGTTTCAATGTAAATTTCA+AGG 0.418371 8.3:-33702247 MS.gene067921:CDS
TACCTTTACCTTTGCCTGAA+GGG 0.423012 8.3:-33701972 MS.gene067921:CDS
AAGAACCATGCTTCTAGCAT+TGG 0.427928 8.3:-33702216 MS.gene067921:CDS
GTCGGTGCTTGAGGGAGGCA+TGG 0.433723 8.3:+33702036 None:intergenic
CTACCTTTACCTTTGCCTGA+AGG 0.448320 8.3:-33701973 MS.gene067921:CDS
CATGGGGCACGAAACGGAAT+AGG 0.453733 8.3:+33702054 None:intergenic
AACCATGCTTCTAGCATTGG+AGG 0.458109 8.3:-33702213 MS.gene067921:CDS
ACCTTTACCTTTGCCTGAAG+GGG 0.466467 8.3:-33701971 MS.gene067921:CDS
AGAGAATTTGTTGTGCCCCT+TGG 0.493217 8.3:+33701994 None:intergenic
TATTAGGAGTCGGTGCTTGA+GGG 0.513450 8.3:+33702028 None:intergenic
GGGAGGCATGGGGCACGAAA+CGG 0.516338 8.3:+33702048 None:intergenic
TCAAGCGTTTGCATGTTAAG+TGG 0.523492 8.3:-33702399 None:intergenic
GTATTAGGAGTCGGTGCTTG+AGG 0.525905 8.3:+33702027 None:intergenic
CAAGCGTTTGCATGTTAAGT+GGG 0.536716 8.3:-33702398 None:intergenic
CCTTTACCTTTGCCTGAAGG+GGG 0.553422 8.3:-33701970 MS.gene067921:CDS
GTTGTTCCTTCATCTCCAGC+AGG 0.554844 8.3:+33702159 None:intergenic
TAATGACAGCGAAGAAGAGA+TGG 0.573167 8.3:-33702364 MS.gene067921:CDS
AAACTCGCAACAACCATCTA+GGG 0.589045 8.3:+33702185 None:intergenic
TAATACGAATGGAGCACCAA+GGG 0.591087 8.3:-33702010 MS.gene067921:CDS
CGGTGCTTGAGGGAGGCATG+GGG 0.596577 8.3:+33702038 None:intergenic
GCTCCATTCGTATTAGGAGT+CGG 0.606348 8.3:+33702018 None:intergenic
GCACCGACTCCTAATACGAA+TGG 0.608215 8.3:-33702021 MS.gene067921:CDS
AACCTCCAATGCTAGAAGCA+TGG 0.609063 8.3:+33702211 None:intergenic
CAGCGAAGAAGAGATGGTGA+TGG 0.618618 8.3:-33702358 MS.gene067921:CDS
TAGGAGTCGGTGCTTGAGGG+AGG 0.643360 8.3:+33702031 None:intergenic
CTAATACGAATGGAGCACCA+AGG 0.673742 8.3:-33702011 MS.gene067921:CDS
AATACGAATGGAGCACCAAG+GGG 0.737465 8.3:-33702009 MS.gene067921:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAGTTTCAATGTAAATTTCA+AGG - chr8.3:33702100-33702119 MS.gene067921:CDS 20.0%
AGCACCACATTTAAAAAACT+CGG + chr8.3:33702213-33702232 None:intergenic 30.0%
GAAGAATCTCATACAAATTC+TGG - chr8.3:33702071-33702090 MS.gene067921:CDS 30.0%
!!! ACAACCGAGTTTTTTAAATG+TGG - chr8.3:33702206-33702225 MS.gene067921:CDS 30.0%
AAAACTCGCAACAACCATCT+AGG + chr8.3:33702166-33702185 None:intergenic 40.0%
AAACTCGCAACAACCATCTA+GGG + chr8.3:33702165-33702184 None:intergenic 40.0%
AAGAACCATGCTTCTAGCAT+TGG - chr8.3:33702131-33702150 MS.gene067921:CDS 40.0%
CGGAATAGGTATCAAATCTC+TGG + chr8.3:33702282-33702301 None:intergenic 40.0%
TAATGACAGCGAAGAAGAGA+TGG - chr8.3:33701983-33702002 MS.gene067921:CDS 40.0%
TACCTTTACCTTTGCCTGAA+GGG - chr8.3:33702375-33702394 MS.gene067921:CDS 40.0%
! TAATACGAATGGAGCACCAA+GGG - chr8.3:33702337-33702356 MS.gene067921:CDS 40.0%
! TTTTTACCTGCTGGAGATGA+AGG - chr8.3:33702182-33702201 MS.gene067921:CDS 40.0%
AACCTCCAATGCTAGAAGCA+TGG + chr8.3:33702139-33702158 None:intergenic 45.0%
ACCTTTACCTTTGCCTGAAG+GGG - chr8.3:33702376-33702395 MS.gene067921:CDS 45.0%
ATTGGAGGTTATGCCCTAGA+TGG - chr8.3:33702149-33702168 MS.gene067921:CDS 45.0%
CTACCTTTACCTTTGCCTGA+AGG - chr8.3:33702374-33702393 MS.gene067921:CDS 45.0%
GCTCCATTCGTATTAGGAGT+CGG + chr8.3:33702332-33702351 None:intergenic 45.0%
! AACCATGCTTCTAGCATTGG+AGG - chr8.3:33702134-33702153 MS.gene067921:CDS 45.0%
! AATACGAATGGAGCACCAAG+GGG - chr8.3:33702338-33702357 MS.gene067921:CDS 45.0%
! CTAATACGAATGGAGCACCA+AGG - chr8.3:33702336-33702355 MS.gene067921:CDS 45.0%
! TATTAGGAGTCGGTGCTTGA+GGG + chr8.3:33702322-33702341 None:intergenic 45.0%
! TGTTGCGAGTTTTTACCTGC+TGG - chr8.3:33702173-33702192 MS.gene067921:CDS 45.0%
!! AGAGAATTTGTTGTGCCCCT+TGG + chr8.3:33702356-33702375 None:intergenic 45.0%
!! CTTGGTGCTCCATTCGTATT+AGG + chr8.3:33702338-33702357 None:intergenic 45.0%
AATATGCCCCCTTCAGGCAA+AGG + chr8.3:33702386-33702405 None:intergenic 50.0%
CAGCGAAGAAGAGATGGTGA+TGG - chr8.3:33701989-33702008 MS.gene067921:CDS 50.0%
CCTTTACCTTTGCCTGAAGG+GGG - chr8.3:33702377-33702396 MS.gene067921:CDS 50.0%
GTTGTTCCTTCATCTCCAGC+AGG + chr8.3:33702191-33702210 None:intergenic 50.0%
! GTATTAGGAGTCGGTGCTTG+AGG + chr8.3:33702323-33702342 None:intergenic 50.0%
!! GCACCGACTCCTAATACGAA+TGG - chr8.3:33702326-33702345 MS.gene067921:CDS 50.0%
CATGGGGCACGAAACGGAAT+AGG + chr8.3:33702296-33702315 None:intergenic 55.0%
CCCCCTTCAGGCAAAGGTAA+AGG + chr8.3:33702380-33702399 None:intergenic 55.0%
! TAGGAGTCGGTGCTTGAGGG+AGG + chr8.3:33702319-33702338 None:intergenic 60.0%
! TCGGTGCTTGAGGGAGGCAT+GGG + chr8.3:33702313-33702332 None:intergenic 60.0%
! CGGTGCTTGAGGGAGGCATG+GGG + chr8.3:33702312-33702331 None:intergenic 65.0%
! GGGAGGCATGGGGCACGAAA+CGG + chr8.3:33702302-33702321 None:intergenic 65.0%
! GTCGGTGCTTGAGGGAGGCA+TGG + chr8.3:33702314-33702333 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 33701960 33702409 33701960 ID=MS.gene067921
chr8.3 mRNA 33701960 33702409 33701960 ID=MS.gene067921.t1;Parent=MS.gene067921
chr8.3 exon 33701960 33702409 33701960 ID=MS.gene067921.t1.exon1;Parent=MS.gene067921.t1
chr8.3 CDS 33701960 33702409 33701960 ID=cds.MS.gene067921.t1;Parent=MS.gene067921.t1
Gene Sequence

>MS.gene067921

ATGTTAAGTGGGCAAGTGCGAACTAATGACAGCGAAGAAGAGATGGTGATGGCTACTAAAGTCAACGAAGTGATGATTAAATCATCACAAGAGAAAATATCAACTCAAGTTGAAGAATCTCATACAAATTCTGGAAGAAATAGTTTCAATGTAAATTTCAAGGAATGTTTAAAGAACCATGCTTCTAGCATTGGAGGTTATGCCCTAGATGGTTGTTGCGAGTTTTTACCTGCTGGAGATGAAGGAACAACCGAGTTTTTTAAATGTGGTGCTTGTAGCTGTCATAGAAACTTTCATAGAAAAGATCTTGATGTTGTTTCCAGAGATTTGATACCTATTCCGTTTCGTGCCCCATGCCTCCCTCAAGCACCGACTCCTAATACGAATGGAGCACCAAGGGGCACAACAAATTCTCTACCTTTACCTTTGCCTGAAGGGGGCATATTTTAA
Protein sequence

>MS.gene067921.t1

MLSGQVRTNDSEEEMVMATKVNEVMIKSSQEKISTQVEESHTNSGRNSFNVNFKECLKNHASSIGGYALDGCCEFLPAGDEGTTEFFKCGACSCHRNFHRKDLDVVSRDLIPIPFRAPCLPQAPTPNTNGAPRGTTNSLPLPLPEGGIF