AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene22971


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22971.t1 MTR_7g108830 96.350 137 5 0 1 137 1 137 6.55e-94 269
MS.gene22971.t1 MTR_8g058620 96.350 137 5 0 1 137 1 137 6.55e-94 269
MS.gene22971.t1 MTR_1g088640 60.140 143 50 3 1 137 1 142 2.40e-55 171
MS.gene22971.t1 MTR_1g088640 60.284 141 50 3 1 137 1 139 4.63e-55 171
MS.gene22971.t1 MTR_1g083950 34.615 156 91 5 1 153 1 148 1.77e-20 82.8
MS.gene22971.t1 MTR_1g087200 38.235 136 71 6 6 134 5 134 1.17e-19 80.5
MS.gene22971.t1 MTR_1g088620 81.818 44 8 0 94 137 218 261 4.93e-16 73.6
MS.gene22971.t1 MTR_1g054750 31.429 140 83 4 7 134 21 159 7.17e-15 68.6
MS.gene22971.t1 MTR_1g054765 33.562 146 78 5 7 134 2 146 1.30e-14 67.8
MS.gene22971.t1 MTR_5g065980 35.570 149 80 5 1 134 1 148 3.22e-14 66.6
MS.gene22971.t1 MTR_5g065980 34.868 152 83 5 1 138 1 150 5.79e-14 66.6
MS.gene22971.t1 MTR_5g065980 35.135 148 80 5 1 134 1 146 7.49e-14 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene22971.t1 AT2G47710 62.319 138 50 2 1 137 1 137 4.74e-53 166
MS.gene22971.t1 AT5G49050 45.833 120 62 3 1 119 33 150 6.09e-28 101
MS.gene22971.t1 AT1G09740 38.806 134 72 3 10 134 10 142 7.06e-21 84.0
MS.gene22971.t1 AT1G09740 38.806 134 72 3 10 134 10 142 7.06e-21 84.0
MS.gene22971.t1 AT3G11930 32.867 143 82 4 10 139 35 176 7.81e-19 80.1
MS.gene22971.t1 AT3G11930 32.847 137 79 4 10 134 35 170 1.04e-17 76.6
MS.gene22971.t1 AT3G11930 32.609 138 79 4 10 134 35 171 1.44e-17 76.3
MS.gene22971.t1 AT3G11930 32.374 139 79 4 10 134 35 172 2.22e-17 75.5
MS.gene22971.t1 AT3G58450 34.351 131 75 5 11 134 33 159 7.32e-15 68.9
MS.gene22971.t1 AT3G62550 34.028 144 75 6 1 134 1 134 2.52e-14 66.6
MS.gene22971.t1 AT3G58450 33.333 138 74 6 11 134 33 166 1.09e-12 63.2
MS.gene22971.t1 AT1G68300 33.588 131 79 5 7 134 10 135 1.25e-12 62.4

Find 31 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGCACCATGCTTCTATTT+TGG 0.216579 7.3:-6195889 MS.gene22971:CDS
CATTGCGATAATAGCGTTAA+AGG 0.227309 7.3:-6195795 MS.gene22971:CDS
TCTACTAATGTTGGCTTCAT+AGG 0.275135 7.3:-6196563 MS.gene22971:CDS
CAATGCAATAGCATGATAAC+TGG 0.326733 7.3:+6195813 None:intergenic
TGAATGGACTCTGGATCATT+TGG 0.356319 7.3:-6196645 MS.gene22971:CDS
ACAAGAACAAGTTTGAAGAT+TGG 0.363933 7.3:+6196605 None:intergenic
GTTGTAGGTAGTCATGGTTA+TGG 0.387360 7.3:-6195867 MS.gene22971:CDS
TTAGCACATACGCTCTTGAA+TGG 0.393024 7.3:-6196661 MS.gene22971:CDS
TTCAAATCGGCCTCAACAAT+AGG 0.394308 7.3:+6196415 None:intergenic
ATTAGTAGAAGGAGAAGGTT+TGG 0.417086 7.3:+6196577 None:intergenic
AACAAGTTTGAAGATTGGAT+TGG 0.418326 7.3:+6196610 None:intergenic
TATTAAAATTACCGATCTCT+TGG 0.443273 7.3:+6196348 None:intergenic
ATGGTTATGGAGCTATAAAA+AGG 0.449333 7.3:-6195854 MS.gene22971:CDS
ACAAGTTTGAAGATTGGATT+GGG 0.449888 7.3:+6196611 None:intergenic
CCTTCTCCTTCTACTAATGT+TGG 0.462856 7.3:-6196572 MS.gene22971:CDS
ATGAAGCCAACATTAGTAGA+AGG 0.466396 7.3:+6196566 None:intergenic
ATACGCTCTTGAATGGACTC+TGG 0.555617 7.3:-6196654 MS.gene22971:CDS
AGACGTAGTAGTGGAAGTTG+TGG 0.557524 7.3:-6195949 MS.gene22971:CDS
GTAGTAGTGGAAGTTGTGGA+TGG 0.560904 7.3:-6195945 MS.gene22971:CDS
AGAAATCTGCACCAAGAGAT+CGG 0.569017 7.3:-6196359 MS.gene22971:intron
CCAACATTAGTAGAAGGAGA+AGG 0.571033 7.3:+6196572 None:intergenic
AATGTTGGCTTCATAGGCCC+TGG 0.571494 7.3:-6196557 MS.gene22971:intron
AAATGTTCTTTGTGATGCTG+TGG 0.577056 7.3:-6195913 MS.gene22971:CDS
GAGAAGCAAGTGATGGTGGT+CGG 0.595765 7.3:-6196701 MS.gene22971:CDS
TGAGATATTACCTATTGTTG+AGG 0.599890 7.3:-6196425 MS.gene22971:CDS
TCAGGTAAAAGACGTAGTAG+TGG 0.600049 7.3:-6195958 MS.gene22971:intron
TTCAGAGAAGCAAGTGATGG+TGG 0.623921 7.3:-6196705 MS.gene22971:CDS
CTACAACCAAAATAGAAGCA+TGG 0.624553 7.3:+6195883 None:intergenic
AGTTTCAGAGAAGCAAGTGA+TGG 0.653690 7.3:-6196708 MS.gene22971:CDS
AATGCAATAGCATGATAACT+GGG 0.658551 7.3:+6195814 None:intergenic
AACAATAGGTAATATCTCAG+CGG 0.699600 7.3:+6196429 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTCTTTCTTTCATTAAATAA+AGG + chr7.3:6196378-6196397 None:intergenic 15.0%
!!! TATTCTCTCATTTTTTATTT+TGG - chr7.3:6196177-6196196 MS.gene22971:intron 15.0%
!! AATATATATACAAACATACC+AGG + chr7.3:6195968-6195987 None:intergenic 20.0%
!! ATATATATACAAACATACCA+GGG + chr7.3:6195967-6195986 None:intergenic 20.0%
! TATTAAAATTACCGATCTCT+TGG + chr7.3:6196159-6196178 None:intergenic 25.0%
! TTGTAACAATGTTTATTCAG+CGG - chr7.3:6196049-6196068 MS.gene22971:intron 25.0%
!!! ACTAGCTTTTTCTTTATATC+AGG - chr7.3:6196528-6196547 MS.gene22971:intron 25.0%
AACAAGTTTGAAGATTGGAT+TGG + chr7.3:6195897-6195916 None:intergenic 30.0%
AACAATAGGTAATATCTCAG+CGG + chr7.3:6196078-6196097 None:intergenic 30.0%
AATGCAATAGCATGATAACT+GGG + chr7.3:6196693-6196712 None:intergenic 30.0%
ACAAGAACAAGTTTGAAGAT+TGG + chr7.3:6195902-6195921 None:intergenic 30.0%
ACAAGTTTGAAGATTGGATT+GGG + chr7.3:6195896-6195915 None:intergenic 30.0%
ATACTGTGTATGCATACATA+TGG - chr7.3:6196493-6196512 MS.gene22971:intron 30.0%
ATGGTTATGGAGCTATAAAA+AGG - chr7.3:6196650-6196669 MS.gene22971:CDS 30.0%
ATGTAACTTTGCATTTGCTT+AGG + chr7.3:6196414-6196433 None:intergenic 30.0%
TGAGATATTACCTATTGTTG+AGG - chr7.3:6196079-6196098 MS.gene22971:intron 30.0%
TGTAACAATGTTTATTCAGC+GGG - chr7.3:6196050-6196069 MS.gene22971:intron 30.0%
! AGTAGCAGTTCTTTTCAAAT+CGG + chr7.3:6196105-6196124 None:intergenic 30.0%
!! GATTGGTGGAAAGTTATTTT+TGG - chr7.3:6196284-6196303 MS.gene22971:intron 30.0%
!!! GGAAAGTTATTTTTGGAGTT+TGG - chr7.3:6196291-6196310 MS.gene22971:intron 30.0%
AAATGTTCTTTGTGATGCTG+TGG - chr7.3:6196591-6196610 MS.gene22971:CDS 35.0%
ATGAAGCCAACATTAGTAGA+AGG + chr7.3:6195941-6195960 None:intergenic 35.0%
ATTAGTAGAAGGAGAAGGTT+TGG + chr7.3:6195930-6195949 None:intergenic 35.0%
CAATGCAATAGCATGATAAC+TGG + chr7.3:6196694-6196713 None:intergenic 35.0%
CATTGCGATAATAGCGTTAA+AGG - chr7.3:6196709-6196728 MS.gene22971:CDS 35.0%
CCTCTATATTCCTATGGATT+GGG + chr7.3:6196260-6196279 None:intergenic 35.0%
CTACAACCAAAATAGAAGCA+TGG + chr7.3:6196624-6196643 None:intergenic 35.0%
TCCTCTATATTCCTATGGAT+TGG + chr7.3:6196261-6196280 None:intergenic 35.0%
TTGCATTTGCTTAGGAACTA+AGG + chr7.3:6196406-6196425 None:intergenic 35.0%
!! TCTACTAATGTTGGCTTCAT+AGG - chr7.3:6195941-6195960 MS.gene22971:CDS 35.0%
!!! ATTTTGGTTGTAGGTAGTCA+TGG - chr7.3:6196631-6196650 MS.gene22971:CDS 35.0%
!!! CATGCTTCTATTTTGGTTGT+AGG - chr7.3:6196622-6196641 MS.gene22971:CDS 35.0%
AGAAATCTGCACCAAGAGAT+CGG - chr7.3:6196145-6196164 MS.gene22971:intron 40.0%
AGACTAATCTCCCAATCCAT+AGG - chr7.3:6196247-6196266 MS.gene22971:intron 40.0%
AGGAATATAGAGGAGTGGAT+TGG - chr7.3:6196267-6196286 MS.gene22971:intron 40.0%
AGTTTCAGAGAAGCAAGTGA+TGG - chr7.3:6195796-6195815 MS.gene22971:CDS 40.0%
CCAACATTAGTAGAAGGAGA+AGG + chr7.3:6195935-6195954 None:intergenic 40.0%
CCCAATCCATAGGAATATAG+AGG - chr7.3:6196257-6196276 MS.gene22971:intron 40.0%
CCTTCTCCTTCTACTAATGT+TGG - chr7.3:6195932-6195951 MS.gene22971:CDS 40.0%
GTTGTAGGTAGTCATGGTTA+TGG - chr7.3:6196637-6196656 MS.gene22971:CDS 40.0%
TAAAGGAAGAACAGAGCTAG+TGG + chr7.3:6196361-6196380 None:intergenic 40.0%
TCAGGTAAAAGACGTAGTAG+TGG - chr7.3:6196546-6196565 MS.gene22971:intron 40.0%
TCCACTCCTCTATATTCCTA+TGG + chr7.3:6196266-6196285 None:intergenic 40.0%
TCCATAGGAATATAGAGGAG+TGG - chr7.3:6196262-6196281 MS.gene22971:intron 40.0%
TTAGCACATACGCTCTTGAA+TGG - chr7.3:6195843-6195862 MS.gene22971:CDS 40.0%
TTCAAATCGGCCTCAACAAT+AGG + chr7.3:6196092-6196111 None:intergenic 40.0%
! TGAATGGACTCTGGATCATT+TGG - chr7.3:6195859-6195878 MS.gene22971:CDS 40.0%
!! AATATAGAGGAGTGGATTGG+TGG - chr7.3:6196270-6196289 MS.gene22971:intron 40.0%
!! GAAGCACCATGCTTCTATTT+TGG - chr7.3:6196615-6196634 MS.gene22971:CDS 40.0%
AAGAACAGAGCTAGTGGAAG+TGG + chr7.3:6196355-6196374 None:intergenic 45.0%
TTCAGAGAAGCAAGTGATGG+TGG - chr7.3:6195799-6195818 MS.gene22971:CDS 45.0%
! AGACGTAGTAGTGGAAGTTG+TGG - chr7.3:6196555-6196574 MS.gene22971:intron 45.0%
! ATACGCTCTTGAATGGACTC+TGG - chr7.3:6195850-6195869 MS.gene22971:CDS 45.0%
! GTAGTAGTGGAAGTTGTGGA+TGG - chr7.3:6196559-6196578 MS.gene22971:CDS 45.0%
!! AATGTTGGCTTCATAGGCCC+TGG - chr7.3:6195947-6195966 MS.gene22971:CDS 50.0%
!! GAGAAGCAAGTGATGGTGGT+CGG - chr7.3:6195803-6195822 MS.gene22971:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 6195788 6196738 6195788 ID=MS.gene22971
chr7.3 mRNA 6195788 6196738 6195788 ID=MS.gene22971.t1;Parent=MS.gene22971
chr7.3 exon 6196558 6196738 6196558 ID=MS.gene22971.t1.exon1;Parent=MS.gene22971.t1
chr7.3 CDS 6196558 6196738 6196558 ID=cds.MS.gene22971.t1;Parent=MS.gene22971.t1
chr7.3 exon 6196360 6196457 6196360 ID=MS.gene22971.t1.exon2;Parent=MS.gene22971.t1
chr7.3 CDS 6196360 6196457 6196360 ID=cds.MS.gene22971.t1;Parent=MS.gene22971.t1
chr7.3 exon 6195788 6195976 6195788 ID=MS.gene22971.t1.exon3;Parent=MS.gene22971.t1
chr7.3 CDS 6195788 6195976 6195788 ID=cds.MS.gene22971.t1;Parent=MS.gene22971.t1
Gene Sequence

>MS.gene22971

ATGGCTCAAGTTTCAGAGAAGCAAGTGATGGTGGTCGGAGTCGACGACAGTGAATTTAGCACATACGCTCTTGAATGGACTCTGGATCATTTGGTTACTACACTTCCCAATCCAATCTTCAAACTTGTTCTTGTTTTTGCCAAACCTTCTCCTTCTACTAATGTTGGCTTCATAGGCCCTGGTATGTTTGTATATATATTGTTTGTTTCTTCTTAATTATGATATTTCATATTAAATGCGATCTCGTTGTTGATGATGATTTTGTAACAATGTTTATTCAGCGGGAGCCGCTGAGATATTACCTATTGTTGAGGCCGATTTGAAAAGAACTGCTACTATTGTTATTGAAAGAGCTCAAGAAATCTGCACCAAGAGATCGGTAATTTTAATATTCTCTCATTTTTTATTTTGGATGTTCATGCTAATTAATATGCATGATACATTGCATATAAGTAATCAAGACTAATCTCCCAATCCATAGGAATATAGAGGAGTGGATTGGTGGAAAGTTATTTTTGGAGTTTGGTGAAAAGATGAATAATAGTGAAAATTCATCATTTCAAACCACTTCCACTAGCTCTGTTCTTCCTTTATTTAATGAAAGAAAGAACTAATCCTTAGTTCCTAAGCAAATGCAAAGTTACATTTTACAGTTGATTATTTGATTTTACTTCATTTTTTGATGTCTCAGAATCAAAGTTCAATATACTGTGTATGCATACATATGGATTATCATCTGAACTAGCTTTTTCTTTATATCAGGTAAAAGACGTAGTAGTGGAAGTTGTGGATGGAGATGCTAGAAATGTTCTTTGTGATGCTGTGGAGAAGCACCATGCTTCTATTTTGGTTGTAGGTAGTCATGGTTATGGAGCTATAAAAAGGTATGTGTTCATTCAGATCCCAGTTATCATGCTATTGCATTGCGATAATAGCGTTAAAGGAGTCTGA

Protein sequence

>MS.gene22971.t1

MAQVSEKQVMVVGVDDSEFSTYALEWTLDHLVTTLPNPIFKLVLVFAKPSPSTNVGFIGPAGAAEILPIVEADLKRTATIVIERAQEICTKRSVKDVVVEVVDGDARNVLCDAVEKHHASILVVGSHGYGAIKRYVFIQIPVIMLLHCDNSVKGV