AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066014

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066014.t1 MTR_1g075430 90.052 191 15 2 1 187 1 191 2.99e-124 348
MS.gene066014.t1 MTR_1g044225 41.146 192 69 11 1 183 5 161 6.81e-24 92.8
MS.gene066014.t1 MTR_7g063220 75.610 41 10 0 12 52 18 58 7.24e-17 73.6
MS.gene066014.t1 MTR_4g064873 58.730 63 19 2 11 69 10 69 3.26e-16 72.8
MS.gene066014.t1 MTR_1g070250 35.632 174 86 8 14 180 34 188 7.25e-14 67.0
MS.gene066014.t1 MTR_4g021270 69.444 36 11 0 18 53 59 94 3.62e-12 63.9
MS.gene066014.t1 MTR_5g014400 52.727 55 25 1 12 65 74 128 1.18e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066014.t1 AT5G43540 68.293 41 13 0 20 60 35 75 8.36e-15 68.2
MS.gene066014.t1 AT3G09290 83.871 31 5 0 18 48 33 63 1.76e-13 65.5
MS.gene066014.t1 AT3G53820 83.871 31 5 0 18 48 19 49 1.28e-12 62.8
MS.gene066014.t1 AT3G23140 55.102 49 21 1 1 48 1 49 8.18e-12 61.2
MS.gene066014.t1 AT5G06070 55.357 56 24 1 4 58 38 93 2.75e-11 60.5
MS.gene066014.t1 AT3G23130 68.571 35 11 0 18 52 45 79 4.91e-11 59.7
MS.gene066014.t1 AT2G37740 33.654 104 51 2 7 110 26 111 7.29e-11 60.1

Find 40 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATCATTGGTGTAGAATT+TGG 0.181529 1.2:-58084619 None:intergenic
TAATTTCCAACATGGTAATT+TGG 0.204844 1.2:-58084756 None:intergenic
AATTCTTCTTCATCACAAAT+TGG 0.251144 1.2:+58084594 MS.gene066014:CDS
TCAGAACAAAATTCCTTTGT+TGG 0.304478 1.2:+58084663 MS.gene066014:CDS
ATTTGTGATGAAGAAGAATT+TGG 0.304515 1.2:-58084591 None:intergenic
GGAGGAAAATGAAGTGGATT+TGG 0.333970 1.2:+58084938 MS.gene066014:CDS
TTCACAAATGCACAAGCTTT+AGG 0.350501 1.2:+58084519 MS.gene066014:CDS
TCATTTCCTCTCCTAACTCT+TGG 0.379355 1.2:-58084912 None:intergenic
ATGGCAATGATCAAGGAAAA+AGG 0.379483 1.2:+58084463 MS.gene066014:CDS
CCTGACTTGAGTCTTCAAAT+AGG 0.388896 1.2:+58084858 MS.gene066014:CDS
GTTGGATATTCATATGATCT+TGG 0.400343 1.2:-58084729 None:intergenic
CCTTAGCTCTATCTTTCCTA+TGG 0.421858 1.2:-58084557 None:intergenic
CTCTTGGTTCAAATGCCAAT+TGG 0.423506 1.2:-58084826 None:intergenic
ATACACATCATCCAAGAGTT+AGG 0.432854 1.2:+58084901 MS.gene066014:CDS
AGTTAGGAGAGGAAATGATC+AGG 0.437027 1.2:+58084917 MS.gene066014:CDS
GAATAACCATGCATATTTGA+AGG 0.444582 1.2:-58084696 None:intergenic
AGTCAGGATGTTGAAGCTCT+TGG 0.457420 1.2:-58084842 None:intergenic
ATGAATTATTCAAGTGAAGA+AGG 0.471381 1.2:+58084435 MS.gene066014:CDS
AACCATGCATATTTGAAGGT+TGG 0.490265 1.2:-58084692 None:intergenic
ACATGGTAATTTGGTGCTGT+TGG 0.496509 1.2:-58084747 None:intergenic
AAAGACCATAGCTTCATCAT+TGG 0.510291 1.2:-58084631 None:intergenic
GATATCAAGGACCATCCAAT+TGG 0.511436 1.2:+58084811 MS.gene066014:CDS
TCAAGTGAAGAAGGTGATGA+TGG 0.515818 1.2:+58084444 MS.gene066014:CDS
CCTATTTGAAGACTCAAGTC+AGG 0.518186 1.2:-58084858 None:intergenic
GGTGATGATGGCAATGATCA+AGG 0.525173 1.2:+58084456 MS.gene066014:CDS
CTACACCAATGATGAAGCTA+TGG 0.526389 1.2:+58084626 MS.gene066014:CDS
TATCAACCTTCAAATGTGGA+TGG 0.533961 1.2:+58084777 MS.gene066014:CDS
TAGGAGAGGAAATGATCAGG+AGG 0.549853 1.2:+58084920 MS.gene066014:CDS
GTGGATTTGGAGCTAAGACT+TGG 0.559049 1.2:+58084951 MS.gene066014:CDS
TGATCAGGAGGAAAATGAAG+TGG 0.559611 1.2:+58084932 MS.gene066014:CDS
TGGTTCAAATGCCAATTGGA+TGG 0.560601 1.2:-58084822 None:intergenic
TACCAACCTTCAAATATGCA+TGG 0.566990 1.2:+58084690 MS.gene066014:CDS
AAATTATCAACCTTCAAATG+TGG 0.579755 1.2:+58084773 MS.gene066014:CDS
ACAGCACCAAATTACCATGT+TGG 0.599662 1.2:+58084750 MS.gene066014:CDS
AGGTTGGTAATTTCCAACAA+AGG 0.601009 1.2:-58084676 None:intergenic
GTGGTCACATGAATATCCAT+AGG 0.605103 1.2:+58084541 MS.gene066014:CDS
AAGGTTGATAATTTCCAACA+TGG 0.615290 1.2:-58084764 None:intergenic
CCATAGGAAAGATAGAGCTA+AGG 0.615552 1.2:+58084557 MS.gene066014:CDS
ACAAATGCACAAGCTTTAGG+TGG 0.646984 1.2:+58084522 MS.gene066014:CDS
CATCATCCAAGAGTTAGGAG+AGG 0.700340 1.2:+58084906 MS.gene066014:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAATTATCAACCTTCAAATG+TGG + chr1.2:58084773-58084792 MS.gene066014:CDS 25.0%
! AATTCTTCTTCATCACAAAT+TGG + chr1.2:58084594-58084613 MS.gene066014:CDS 25.0%
! ATGAATTATTCAAGTGAAGA+AGG + chr1.2:58084435-58084454 MS.gene066014:CDS 25.0%
! ATTTGTGATGAAGAAGAATT+TGG - chr1.2:58084594-58084613 None:intergenic 25.0%
! TAATTTCCAACATGGTAATT+TGG - chr1.2:58084759-58084778 None:intergenic 25.0%
GAATAACCATGCATATTTGA+AGG - chr1.2:58084699-58084718 None:intergenic 30.0%
GTTGGATATTCATATGATCT+TGG - chr1.2:58084732-58084751 None:intergenic 30.0%
TCAGAACAAAATTCCTTTGT+TGG + chr1.2:58084663-58084682 MS.gene066014:CDS 30.0%
TTCATCATTGGTGTAGAATT+TGG - chr1.2:58084622-58084641 None:intergenic 30.0%
! AATGTGGATGGTTTTTCTTA+TGG + chr1.2:58084789-58084808 MS.gene066014:CDS 30.0%
! GGTTTTTCTTATGGATATCA+AGG + chr1.2:58084798-58084817 MS.gene066014:CDS 30.0%
!! AAGGTTGATAATTTCCAACA+TGG - chr1.2:58084767-58084786 None:intergenic 30.0%
!!! GAATTTTGTTCTGAAGCAAA+AGG - chr1.2:58084657-58084676 None:intergenic 30.0%
AAAGACCATAGCTTCATCAT+TGG - chr1.2:58084634-58084653 None:intergenic 35.0%
AACCATGCATATTTGAAGGT+TGG - chr1.2:58084695-58084714 None:intergenic 35.0%
ATACACATCATCCAAGAGTT+AGG + chr1.2:58084901-58084920 MS.gene066014:CDS 35.0%
ATGGCAATGATCAAGGAAAA+AGG + chr1.2:58084463-58084482 MS.gene066014:CDS 35.0%
GAAAAACCATCCACATTTGA+AGG - chr1.2:58084786-58084805 None:intergenic 35.0%
TACCAACCTTCAAATATGCA+TGG + chr1.2:58084690-58084709 MS.gene066014:CDS 35.0%
TATCAACCTTCAAATGTGGA+TGG + chr1.2:58084777-58084796 MS.gene066014:CDS 35.0%
TTCACAAATGCACAAGCTTT+AGG + chr1.2:58084519-58084538 MS.gene066014:CDS 35.0%
! GAATGCACATTTTGCAAAAG+AGG + chr1.2:58084495-58084514 MS.gene066014:CDS 35.0%
!! AGGTTGGTAATTTCCAACAA+AGG - chr1.2:58084679-58084698 None:intergenic 35.0%
ACAGCACCAAATTACCATGT+TGG + chr1.2:58084750-58084769 MS.gene066014:CDS 40.0%
AGTTAGGAGAGGAAATGATC+AGG + chr1.2:58084917-58084936 MS.gene066014:CDS 40.0%
CCATAGGAAAGATAGAGCTA+AGG + chr1.2:58084557-58084576 MS.gene066014:CDS 40.0%
CCTATTTGAAGACTCAAGTC+AGG - chr1.2:58084861-58084880 None:intergenic 40.0%
CTACACCAATGATGAAGCTA+TGG + chr1.2:58084626-58084645 MS.gene066014:CDS 40.0%
CTCTTGGTTCAAATGCCAAT+TGG - chr1.2:58084829-58084848 None:intergenic 40.0%
GATATCAAGGACCATCCAAT+TGG + chr1.2:58084811-58084830 MS.gene066014:CDS 40.0%
GTGGTCACATGAATATCCAT+AGG + chr1.2:58084541-58084560 MS.gene066014:CDS 40.0%
TCAAGTGAAGAAGGTGATGA+TGG + chr1.2:58084444-58084463 MS.gene066014:CDS 40.0%
TCATTTCCTCTCCTAACTCT+TGG - chr1.2:58084915-58084934 None:intergenic 40.0%
TGATCAGGAGGAAAATGAAG+TGG + chr1.2:58084932-58084951 MS.gene066014:CDS 40.0%
TGGTTCAAATGCCAATTGGA+TGG - chr1.2:58084825-58084844 None:intergenic 40.0%
! CCTGACTTGAGTCTTCAAAT+AGG + chr1.2:58084858-58084877 MS.gene066014:CDS 40.0%
! GGAGGAAAATGAAGTGGATT+TGG + chr1.2:58084938-58084957 MS.gene066014:CDS 40.0%
!! ACAAATGCACAAGCTTTAGG+TGG + chr1.2:58084522-58084541 MS.gene066014:CDS 40.0%
!! ACATGGTAATTTGGTGCTGT+TGG - chr1.2:58084750-58084769 None:intergenic 40.0%
!! CCTTAGCTCTATCTTTCCTA+TGG - chr1.2:58084560-58084579 None:intergenic 40.0%
AGTCAGGATGTTGAAGCTCT+TGG - chr1.2:58084845-58084864 None:intergenic 45.0%
CATCATCCAAGAGTTAGGAG+AGG + chr1.2:58084906-58084925 MS.gene066014:CDS 45.0%
TAGGAGAGGAAATGATCAGG+AGG + chr1.2:58084920-58084939 MS.gene066014:CDS 45.0%
! GTGGATTTGGAGCTAAGACT+TGG + chr1.2:58084951-58084970 MS.gene066014:CDS 45.0%
!! GGTGATGATGGCAATGATCA+AGG + chr1.2:58084456-58084475 MS.gene066014:CDS 45.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 58084435 58084998 58084435 ID=MS.gene066014
chr1.2 mRNA 58084435 58084998 58084435 ID=MS.gene066014.t1;Parent=MS.gene066014
chr1.2 exon 58084435 58084998 58084435 ID=MS.gene066014.t1.exon1;Parent=MS.gene066014.t1
chr1.2 CDS 58084435 58084998 58084435 ID=cds.MS.gene066014.t1;Parent=MS.gene066014.t1
Gene Sequence

>MS.gene066014

ATGAATTATTCAAGTGAAGAAGGTGATGATGGCAATGATCAAGGAAAAAGGCGTTCTTATGAATGCACATTTTGCAAAAGAGGATTCACAAATGCACAAGCTTTAGGTGGTCACATGAATATCCATAGGAAAGATAGAGCTAAGGCTAGTAAGCAACCAAATTCTTCTTCATCACAAATTGGAACCAAATTCTACACCAATGATGAAGCTATGGTCTTTCCTTTTGCTTCAGAACAAAATTCCTTTGTTGGAAATTACCAACCTTCAAATATGCATGGTTATTCATATGAACAACCAAGATCATATGAATATCCAACAGCACCAAATTACCATGTTGGAAATTATCAACCTTCAAATGTGGATGGTTTTTCTTATGGATATCAAGGACCATCCAATTGGCATTTGAACCAAGAGCTTCAACATCCTGACTTGAGTCTTCAAATAGGTTCAAGTCATTATGTTGATAATACACATCATCCAAGAGTTAGGAGAGGAAATGATCAGGAGGAAAATGAAGTGGATTTGGAGCTAAGACTTGGTCAAGATTCAAGATTCATATCATAG
Protein sequence

>MS.gene066014.t1

MNYSSEEGDDGNDQGKRRSYECTFCKRGFTNAQALGGHMNIHRKDRAKASKQPNSSSSQIGTKFYTNDEAMVFPFASEQNSFVGNYQPSNMHGYSYEQPRSYEYPTAPNYHVGNYQPSNVDGFSYGYQGPSNWHLNQELQHPDLSLQIGSSHYVDNTHHPRVRRGNDQEENEVDLELRLGQDSRFIS