AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056920


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056920.t1 MTR_1g058540 95.918 196 8 0 1 196 1 196 2.61e-120 338
MS.gene056920.t1 MTR_1g058570 77.041 196 43 1 1 196 1 194 3.19e-93 270
MS.gene056920.t1 MTR_1g058560 80.102 196 38 1 1 196 1 195 1.15e-91 266
MS.gene056920.t1 MTR_2g086740 52.857 210 83 1 2 195 10 219 2.30e-59 185
MS.gene056920.t1 MTR_7g011090 45.263 190 100 1 7 196 1 186 3.33e-52 166
MS.gene056920.t1 MTR_4g081880 42.197 173 100 0 23 195 14 186 2.16e-47 154
MS.gene056920.t1 MTR_5g041900 40.722 194 102 2 4 196 5 186 1.46e-41 139
MS.gene056920.t1 MTR_2g086740 49.645 141 55 1 2 126 10 150 6.56e-34 118
MS.gene056920.t1 MTR_0004s0210 34.615 156 87 4 37 189 7 150 4.06e-18 77.8
MS.gene056920.t1 MTR_0097s0070 34.167 120 73 3 73 189 69 185 1.64e-12 63.9
MS.gene056920.t1 MTR_3g064310 27.564 156 96 3 42 193 49 191 4.83e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056920.t1 AT2G36100 54.950 202 84 2 2 196 5 206 3.24e-68 207
MS.gene056920.t1 AT3G11550 60.500 200 74 1 2 196 5 204 2.73e-64 197
MS.gene056920.t1 AT2G27370 55.978 184 74 1 12 195 43 219 6.75e-64 197
MS.gene056920.t1 AT5G06200 58.586 198 77 2 2 195 5 201 1.03e-63 196
MS.gene056920.t1 AT5G15290 44.000 150 84 0 27 176 17 166 4.56e-44 145
MS.gene056920.t1 AT1G14160 40.000 165 99 0 32 196 45 209 8.32e-42 140
MS.gene056920.t1 AT1G03700 30.769 169 99 3 21 189 1 151 1.95e-17 76.3
MS.gene056920.t1 AT1G17200 26.984 189 125 5 9 193 2 181 2.36e-14 68.9
MS.gene056920.t1 AT4G03540 32.258 124 75 2 55 178 26 140 1.06e-13 66.2
MS.gene056920.t1 AT3G06390 27.820 133 91 2 38 165 37 169 5.71e-11 59.7

Find 42 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGCCATTTGCAACCAATT+TGG 0.187527 1.1:-45418809 MS.gene056920:CDS
GTTGGTTGTGATGTCTTCTT+TGG 0.281389 1.1:-45418720 MS.gene056920:CDS
GTGATGTCTTCTTTGGCTCT+TGG 0.299534 1.1:-45418713 MS.gene056920:CDS
TCTTAGAACAAAATCCATTA+TGG 0.318159 1.1:+45419876 None:intergenic
ATGATGGTTACTATGGAAAA+TGG 0.329026 1.1:+45419467 None:intergenic
TGATGTCTTCTTTGGCTCTT+GGG 0.348436 1.1:-45418712 MS.gene056920:CDS
AGCAGCTGCCATGGTTTACT+TGG 0.359773 1.1:-45418861 MS.gene056920:CDS
GGCATTTGTGGGTGGCTACC+TGG 0.401958 1.1:-45419501 MS.gene056920:CDS
AATGTCAACCACTATTGATA+TGG 0.415102 1.1:-45419983 MS.gene056920:CDS
AGGGCGAATGATGGTTACTA+TGG 0.422728 1.1:+45419460 None:intergenic
CATAACTAGCTTCAAATTGA+AGG 0.426220 1.1:+45419773 None:intergenic
ATTGGAGCCACTGCAAGGCC+TGG 0.429435 1.1:-45419919 MS.gene056920:CDS
ATGGCAATCAAGACTCAAAC+TGG 0.433393 1.1:-45418832 MS.gene056920:CDS
ATCTCCAAATTGGTTGCAAA+TGG 0.439108 1.1:+45418805 None:intergenic
TGTTATTGCAATGGCATTTG+TGG 0.446696 1.1:-45419513 MS.gene056920:CDS
GTTATTGCAATGGCATTTGT+GGG 0.458726 1.1:-45419512 MS.gene056920:CDS
TGATTCTGCCATATCAATAG+TGG 0.478795 1.1:+45419975 None:intergenic
ATCATTCGCCCTCATGCACC+TGG 0.484461 1.1:-45419449 MS.gene056920:CDS
TGGTTACTATGGAAAATGGT+AGG 0.486275 1.1:+45419471 None:intergenic
TGGTGCTTCAGCAGCTGCCA+TGG 0.489524 1.1:-45418870 MS.gene056920:CDS
TGAAGGAACTGAGTGAAGAA+AGG 0.493692 1.1:+45419790 None:intergenic
CCACTGCAAGGCCTGGAGGA+TGG 0.524990 1.1:-45419912 MS.gene056920:CDS
TGCAGCAAGAGAAGCTGCTA+TGG 0.527344 1.1:+45419846 None:intergenic
CCATCCTCCAGGCCTTGCAG+TGG 0.532661 1.1:+45419912 None:intergenic
ATGAGGAAAAGCCTTGGTCC+AGG 0.542585 1.1:+45419431 None:intergenic
CTTTAATTGGAGCCACTGCA+AGG 0.554612 1.1:-45419924 MS.gene056920:CDS
GGTTACTATGGAAAATGGTA+GGG 0.561081 1.1:+45419472 None:intergenic
AGCCTTGGTCCAGGTGCATG+AGG 0.573726 1.1:+45419440 None:intergenic
AGGTGCATGAGGGCGAATGA+TGG 0.573876 1.1:+45419451 None:intergenic
GCCCTCATGCACCTGGACCA+AGG 0.587519 1.1:-45419442 MS.gene056920:CDS
TGCTGAAGCACCACTAGCAG+TGG 0.592321 1.1:+45418880 None:intergenic
AATCTGATCACTAGTTGCCA+TGG 0.596028 1.1:+45419816 None:intergenic
ATTGCAATGGCATTTGTGGG+TGG 0.596308 1.1:-45419509 MS.gene056920:CDS
ATGACATTAGCCACTGCTAG+TGG 0.602800 1.1:-45418890 MS.gene056920:CDS
ATGGTTTACTTGGCACACAA+TGG 0.608727 1.1:-45418851 MS.gene056920:CDS
GCGATGATGAGGAAAAGCCT+TGG 0.613791 1.1:+45419425 None:intergenic
GCCTTGGTCCAGGTGCATGA+GGG 0.623258 1.1:+45419441 None:intergenic
GGAGCCACTGCAAGGCCTGG+AGG 0.665040 1.1:-45419916 MS.gene056920:CDS
TTACTGTGTCTGCGATGATG+AGG 0.667059 1.1:+45419414 None:intergenic
TCTTGCTGCAACTATCACCA+TGG 0.694318 1.1:-45419833 MS.gene056920:CDS
AAAATGGTAGGGATAAGACC+AGG 0.708096 1.1:+45419483 None:intergenic
ATTGTGTGCCAAGTAAACCA+TGG 0.791669 1.1:+45418853 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAAATCAATAAAGCAA+TGG + chr1.1:45419461-45419480 None:intergenic 15.0%
!! ACTCAAATTAAGAATTAATT+AGG + chr1.1:45419312-45419331 None:intergenic 15.0%
!! TAAGAATTAATTAGGAAATT+AGG + chr1.1:45419304-45419323 None:intergenic 15.0%
!! TCATGTAAAAAAAATTTGAA+GGG + chr1.1:45419355-45419374 None:intergenic 15.0%
!! TTCATGTAAAAAAAATTTGA+AGG + chr1.1:45419356-45419375 None:intergenic 15.0%
!!! AAATTATTTGTTTAAGTTAG+AGG + chr1.1:45418973-45418992 None:intergenic 15.0%
!!! AGAAACTATTATTTTAAAAG+TGG - chr1.1:45419685-45419704 MS.gene056920:intron 15.0%
!! AATGTTTATTGTAAATATGC+AGG - chr1.1:45419144-45419163 MS.gene056920:intron 20.0%
!! ATGAACATATATATTCTAGT+AGG - chr1.1:45419371-45419390 MS.gene056920:intron 20.0%
!!! GTTAAGTACTTTTAAAAAAC+TGG - chr1.1:45419656-45419675 MS.gene056920:intron 20.0%
! AATGAGGAAATGAACTATTA+AGG - chr1.1:45419571-45419590 MS.gene056920:intron 25.0%
! GGTCATTTGAAAATAAATAG+AGG + chr1.1:45419440-45419459 None:intergenic 25.0%
! TCTTAGAACAAAATCCATTA+TGG + chr1.1:45418812-45418831 None:intergenic 25.0%
!! AATGAAAAAGCTGCTTTAAT+TGG - chr1.1:45418748-45418767 MS.gene056920:CDS 25.0%
!!! ATGGATTTTGTTCTAAGATT+AGG - chr1.1:45418814-45418833 MS.gene056920:CDS 25.0%
ATGATGGTTACTATGGAAAA+TGG + chr1.1:45419221-45419240 None:intergenic 30.0%
ATTACTCCTTGTGTTTCTTT+CGG - chr1.1:45419414-45419433 MS.gene056920:intron 30.0%
GAAGATAAATTGCTACAATG+AGG - chr1.1:45419555-45419574 MS.gene056920:intron 30.0%
TAATGTCATAAACACCTACA+CGG + chr1.1:45419784-45419803 None:intergenic 30.0%
TGGACTAAATAAATACACCT+AGG + chr1.1:45419018-45419037 None:intergenic 30.0%
! AATACACCTAGGTTTTACAA+TGG + chr1.1:45419007-45419026 None:intergenic 30.0%
! CATAACTAGCTTCAAATTGA+AGG + chr1.1:45418915-45418934 None:intergenic 30.0%
! GTGTAGTTCAAATTTTGTGT+TGG + chr1.1:45419038-45419057 None:intergenic 30.0%
!!! CAGGTTTTTTGTTATTGCAA+TGG - chr1.1:45419163-45419182 MS.gene056920:intron 30.0%
!!! TATTGCTGTGGTTGTTTTAA+TGG - chr1.1:45419941-45419960 MS.gene056920:CDS 30.0%
ATCTCCAAATTGGTTGCAAA+TGG + chr1.1:45419883-45419902 None:intergenic 35.0%
GAGCACAAAAATCTCCAAAT+TGG + chr1.1:45419893-45419912 None:intergenic 35.0%
GAGGTTTAAATGTGACATAC+TGG + chr1.1:45418954-45418973 None:intergenic 35.0%
GGTTACTATGGAAAATGGTA+GGG + chr1.1:45419216-45419235 None:intergenic 35.0%
GTTATTGCAATGGCATTTGT+GGG - chr1.1:45419173-45419192 MS.gene056920:intron 35.0%
TGATTCTGCCATATCAATAG+TGG + chr1.1:45418713-45418732 None:intergenic 35.0%
TGGTTACTATGGAAAATGGT+AGG + chr1.1:45419217-45419236 None:intergenic 35.0%
TGTTATTGCAATGGCATTTG+TGG - chr1.1:45419172-45419191 MS.gene056920:intron 35.0%
! AAACTCAAACTTTTCCGTGT+AGG - chr1.1:45419767-45419786 MS.gene056920:CDS 35.0%
! GAAAAAAGGCATAGCCATAA+TGG - chr1.1:45418795-45418814 MS.gene056920:CDS 35.0%
! GATTTTTGTGCTCAAACAAG+TGG - chr1.1:45419900-45419919 MS.gene056920:CDS 35.0%
!! TGTGTCATGTTTTATTGCTG+TGG - chr1.1:45419929-45419948 MS.gene056920:CDS 35.0%
!!! TGTGGTTGTTTTAATGGTGT+TGG - chr1.1:45419947-45419966 MS.gene056920:CDS 35.0%
AAAATGGTAGGGATAAGACC+AGG + chr1.1:45419205-45419224 None:intergenic 40.0%
AATCTGATCACTAGTTGCCA+TGG + chr1.1:45418872-45418891 None:intergenic 40.0%
ATGGCAATCAAGACTCAAAC+TGG - chr1.1:45419853-45419872 MS.gene056920:CDS 40.0%
ATGGTTTACTTGGCACACAA+TGG - chr1.1:45419834-45419853 MS.gene056920:CDS 40.0%
ATTGTGTGCCAAGTAAACCA+TGG + chr1.1:45419835-45419854 None:intergenic 40.0%
GTTGGTTGTGATGTCTTCTT+TGG - chr1.1:45419965-45419984 MS.gene056920:CDS 40.0%
TGAAGGAACTGAGTGAAGAA+AGG + chr1.1:45418898-45418917 None:intergenic 40.0%
! ACACCTAGGTTTTACAATGG+AGG + chr1.1:45419004-45419023 None:intergenic 40.0%
! CACCTAGGTTTTACAATGGA+GGG + chr1.1:45419003-45419022 None:intergenic 40.0%
! CTTGCCATTTGCAACCAATT+TGG - chr1.1:45419876-45419895 MS.gene056920:CDS 40.0%
!! TGATGTCTTCTTTGGCTCTT+GGG - chr1.1:45419973-45419992 MS.gene056920:CDS 40.0%
AGGGCGAATGATGGTTACTA+TGG + chr1.1:45419228-45419247 None:intergenic 45.0%
ATGACATTAGCCACTGCTAG+TGG - chr1.1:45419795-45419814 MS.gene056920:CDS 45.0%
ATTGCAATGGCATTTGTGGG+TGG - chr1.1:45419176-45419195 MS.gene056920:intron 45.0%
CTCCCTCCATTGTAAAACCT+AGG - chr1.1:45418998-45419017 MS.gene056920:intron 45.0%
CTTTAATTGGAGCCACTGCA+AGG - chr1.1:45418761-45418780 MS.gene056920:CDS 45.0%
TAGAGGCCGAAAGAAACACA+AGG + chr1.1:45419423-45419442 None:intergenic 45.0%
TCTTGCTGCAACTATCACCA+TGG - chr1.1:45418852-45418871 MS.gene056920:CDS 45.0%
TTACTGTGTCTGCGATGATG+AGG + chr1.1:45419274-45419293 None:intergenic 45.0%
!! GTGATGTCTTCTTTGGCTCT+TGG - chr1.1:45419972-45419991 MS.gene056920:CDS 45.0%
!!! ATGCCTTTTTTCCATCCTCC+AGG + chr1.1:45418787-45418806 None:intergenic 45.0%
AGCAGCTGCCATGGTTTACT+TGG - chr1.1:45419824-45419843 MS.gene056920:CDS 50.0%
AGGCCTGGAGGATGGAAAAA+AGG - chr1.1:45418781-45418800 MS.gene056920:CDS 50.0%
ATGAGGAAAAGCCTTGGTCC+AGG + chr1.1:45419257-45419276 None:intergenic 50.0%
GCGATGATGAGGAAAAGCCT+TGG + chr1.1:45419263-45419282 None:intergenic 50.0%
TGCAGCAAGAGAAGCTGCTA+TGG + chr1.1:45418842-45418861 None:intergenic 50.0%
AGGTGCATGAGGGCGAATGA+TGG + chr1.1:45419237-45419256 None:intergenic 55.0%
ATCATTCGCCCTCATGCACC+TGG - chr1.1:45419236-45419255 MS.gene056920:intron 55.0%
! TGCTGAAGCACCACTAGCAG+TGG + chr1.1:45419808-45419827 None:intergenic 55.0%
AGCCTTGGTCCAGGTGCATG+AGG + chr1.1:45419248-45419267 None:intergenic 60.0%
ATTGGAGCCACTGCAAGGCC+TGG - chr1.1:45418766-45418785 MS.gene056920:CDS 60.0%
GCCTTGGTCCAGGTGCATGA+GGG + chr1.1:45419247-45419266 None:intergenic 60.0%
GGCATTTGTGGGTGGCTACC+TGG - chr1.1:45419184-45419203 MS.gene056920:intron 60.0%
TGGTGCTTCAGCAGCTGCCA+TGG - chr1.1:45419815-45419834 MS.gene056920:CDS 60.0%
CCACTGCAAGGCCTGGAGGA+TGG - chr1.1:45418773-45418792 MS.gene056920:CDS 65.0%
CCATCCTCCAGGCCTTGCAG+TGG + chr1.1:45418776-45418795 None:intergenic 65.0%
GCCCTCATGCACCTGGACCA+AGG - chr1.1:45419243-45419262 MS.gene056920:intron 65.0%
GGAGCCACTGCAAGGCCTGG+AGG - chr1.1:45418769-45418788 MS.gene056920:CDS 70.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 45418703 45420004 45418703 ID=MS.gene056920
chr1.1 mRNA 45418703 45420004 45418703 ID=MS.gene056920.t1;Parent=MS.gene056920
chr1.1 exon 45419754 45420004 45419754 ID=MS.gene056920.t1.exon1;Parent=MS.gene056920.t1
chr1.1 CDS 45419754 45420004 45419754 ID=cds.MS.gene056920.t1;Parent=MS.gene056920.t1
chr1.1 exon 45419418 45419541 45419418 ID=MS.gene056920.t1.exon2;Parent=MS.gene056920.t1
chr1.1 CDS 45419418 45419541 45419418 ID=cds.MS.gene056920.t1;Parent=MS.gene056920.t1
chr1.1 exon 45418703 45418918 45418703 ID=MS.gene056920.t1.exon3;Parent=MS.gene056920.t1
chr1.1 CDS 45418703 45418918 45418703 ID=cds.MS.gene056920.t1;Parent=MS.gene056920.t1
Gene Sequence

>MS.gene056920

ATGTCAACCACTATTGATATGGCAGAATCAAGCAACGCTCATGTTAATGAAAAAGCTGCTTTAATTGGAGCCACTGCAAGGCCTGGAGGATGGAAAAAAGGCATAGCCATAATGGATTTTGTTCTAAGATTAGGTGCCATAGCAGCTTCTCTTGCTGCAACTATCACCATGGCAACTAGTGATCAGATTCTTCCTTTCTTCACTCAGTTCCTTCAATTTGAAGCTAGTTATGATAGCTTTTCAACTTTCCAGTATGTCACATTTAAACCTCTAACTTAAACAAATAATTTATATACTCCCTCCATTGTAAAACCTAGGTGTATTTATTTAGTCCAACACAAAATTTGAACTACACACATATTTATATACTTTTTATTTATATTTTGTTATTAATTTTGTGCTATATTCATAGAAATTAAATTAATTATGTCAAAAAATATTAATGTTTATTGTAAATATGCAGGTTTTTTGTTATTGCAATGGCATTTGTGGGTGGCTACCTGGTCTTATCCCTACCATTTTCCATAGTAACCATCATTCGCCCTCATGCACCTGGACCAAGGCTTTTCCTCATCATCGCAGACACAGTAATTATGCTCCTAATTTCCTAATTAATTCTTAATTTGAGTAAAATAATTTTACTTGAGAACCCTTCAAATTTTTTTTACATGAACATATATATTCTAGTAGGAACACATTTTAAATATAATTATTACTCCTTGTGTTTCTTTCGGCCTCTATTTATTTTCAAATGACCATTGCTTTATTGATTTTTTTTTAATATTCACATGTTATTTTCAAGATTAAAATTACATTTTTTTGCAATGTATAGTCATAATTAATTTATTTCAAGAAGATAAATTGCTACAATGAGGAAATGAACTATTAAGGATATAACAATAAAAATACTAACAATTTTATATAAAAAATAAAATAATACATTGATTTATTTAGTTAAGTACTTTTAAAAAACTGGAAAAAGAGAAACTATTATTTTAAAAGTGGTACTAGTAAATGTTTTATAATTATTTTTGTAAAGATTTGAAATTTTAGATTAAAGTTACAAACTCAAACTTTTCCGTGTAGGTGTTTATGACATTAGCCACTGCTAGTGGTGCTTCAGCAGCTGCCATGGTTTACTTGGCACACAATGGCAATCAAGACTCAAACTGGCTTGCCATTTGCAACCAATTTGGAGATTTTTGTGCTCAAACAAGTGGAGCAGTTGTGTCATGTTTTATTGCTGTGGTTGTTTTAATGGTGTTGGTTGTGATGTCTTCTTTGGCTCTTGGGAAGCATTGA

Protein sequence

>MS.gene056920.t1

MSTTIDMAESSNAHVNEKAALIGATARPGGWKKGIAIMDFVLRLGAIAASLAATITMATSDQILPFFTQFLQFEASYDSFSTFQFFVIAMAFVGGYLVLSLPFSIVTIIRPHAPGPRLFLIIADTVFMTLATASGASAAAMVYLAHNGNQDSNWLAICNQFGDFCAQTSGAVVSCFIAVVVLMVLVVMSSLALGKH