AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055810

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055810.t1 MTR_2g090365 92.500 200 15 0 1 200 254 453 1.52e-140 400
MS.gene055810.t1 MTR_2g078310 63.874 191 64 3 10 197 1 189 1.03e-74 224
MS.gene055810.t1 MTR_3g117270 51.562 192 85 5 10 195 1 190 1.09e-62 193
MS.gene055810.t1 MTR_3g117270 51.562 192 85 5 10 195 1 190 1.87e-62 193
MS.gene055810.t1 MTR_3g117270 54.601 163 68 4 10 166 1 163 8.08e-56 174
MS.gene055810.t1 MTR_3g117270 54.601 163 68 4 10 166 1 163 8.80e-56 174
MS.gene055810.t1 MTR_3g117280 50.568 176 81 3 25 199 2 172 1.45e-55 175
MS.gene055810.t1 MTR_5g097190 40.476 126 65 4 82 198 20 144 2.61e-20 87.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055810.t1 AT4G22140 59.296 199 68 3 10 197 1 197 1.38e-75 227
MS.gene055810.t1 AT4G22140 59.296 199 68 3 10 197 1 197 1.71e-75 227
MS.gene055810.t1 AT4G22140 59.296 199 68 3 10 197 1 197 1.71e-75 227
MS.gene055810.t1 AT4G39100 51.099 182 85 3 21 200 14 193 2.78e-61 191
MS.gene055810.t1 AT4G04260 56.970 165 67 3 34 197 10 171 1.18e-54 173
MS.gene055810.t1 AT4G04260 57.895 152 61 2 46 197 10 158 4.32e-52 166
MS.gene055810.t1 AT4G39100 54.362 149 66 2 21 167 14 162 7.71e-52 164
MS.gene055810.t1 AT4G04260 54.286 140 60 3 10 145 1 140 6.13e-41 136

Find 45 sgRNAs with CRISPR-Local

Find 96 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGTTCACCTGATTTAA+AGG 0.193987 2.1:-10665855 MS.gene055810:CDS
AAAGGCATGCCCACGCATTT+AGG 0.253844 2.1:+10665920 None:intergenic
TTCACCTGATTTAAAGGATT+AGG 0.322143 2.1:-10665849 None:intergenic
TCACCTGATTTAAAGGATTA+GGG 0.322613 2.1:-10665848 None:intergenic
ACGATTACTTTAGCAGGTTC+TGG 0.332292 2.1:-10666362 MS.gene055810:CDS
ATTAACCTATCCGGGTTATA+AGG 0.334701 2.1:+10666166 None:intergenic
TTATAACCCGGATAGGTTAA+TGG 0.355817 2.1:-10666164 MS.gene055810:CDS
GATTTCATTGCTTCATCAAA+AGG 0.383487 2.1:+10665902 None:intergenic
ACTTACACTTCAACGCGTTC+AGG 0.403385 2.1:+10666312 None:intergenic
CACAGCACCATTAACCTATC+CGG 0.404617 2.1:+10666157 None:intergenic
AGTCCCTAATCCTTTAAATC+AGG 0.432271 2.1:+10665845 None:intergenic
TTGGTTTGTTCCTGCCAGTA+TGG 0.439578 2.1:+10666613 None:intergenic
CGACAACAAGGCAAGGGAAA+AGG 0.450024 2.1:-10667111 MS.gene055810:CDS
AAAACATACGCGTCCTTCAA+TGG 0.453876 2.1:+10666506 None:intergenic
GGCACCAACACGGTCGTTAG+AGG 0.459119 2.1:-10667070 MS.gene055810:intron
GTGCTAACGATTACTTTAGC+AGG 0.480077 2.1:-10666368 MS.gene055810:CDS
CAGCAACCTACAGAACATAA+TGG 0.494473 2.1:-10667134 MS.gene055810:CDS
AGGATAATATGAACAGAATG+AGG 0.500778 2.1:-10666563 MS.gene055810:CDS
CGTCCTTCAATGGTTTCCTC+AGG 0.503827 2.1:+10666516 None:intergenic
AAAAGGAACAAATACACAAT+CGG 0.520774 2.1:-10667094 MS.gene055810:CDS
CATAGTGCTGACACAATTGA+AGG 0.525786 2.1:-10666441 MS.gene055810:CDS
TACATGAAGCTTGAAGTTGT+AGG 0.537934 2.1:-10666390 MS.gene055810:CDS
TTGTCGCCATTATGTTCTGT+AGG 0.543808 2.1:+10667128 None:intergenic
CGACCTGAGGAAACCATTGA+AGG 0.551081 2.1:-10666519 MS.gene055810:CDS
GAATGAGGGTCTATGTAAGA+AGG 0.562196 2.1:-10666548 MS.gene055810:CDS
CCGTGTGGAAAAGATTGAGC+AGG 0.565789 2.1:-10666583 MS.gene055810:CDS
TTATGTTCTGTAGGTTGCTG+CGG 0.575653 2.1:+10667137 None:intergenic
CAGGTACCATCCTAAATGCG+TGG 0.581382 2.1:-10665930 MS.gene055810:CDS
ACAGCACCATTAACCTATCC+GGG 0.588194 2.1:+10666158 None:intergenic
AGATGCCTTATAACCCGGAT+AGG 0.594661 2.1:-10666171 MS.gene055810:CDS
GCATGCCCACGCATTTAGGA+TGG 0.615056 2.1:+10665924 None:intergenic
ATAATGGCGACAACAAGGCA+AGG 0.623162 2.1:-10667118 MS.gene055810:CDS
ATGTGAGATGCCTTATAACC+CGG 0.623493 2.1:-10666176 MS.gene055810:CDS
AGGTACCATCCTAAATGCGT+GGG 0.636148 2.1:-10665929 MS.gene055810:CDS
AGAACATAATGGCGACAACA+AGG 0.636635 2.1:-10667123 MS.gene055810:CDS
TGTGTGGAAGTTGCAATCAA+AGG 0.645860 2.1:-10666138 MS.gene055810:intron
GGATAATATGAACAGAATGA+GGG 0.654950 2.1:-10666562 MS.gene055810:CDS
ATAGTGCTGACACAATTGAA+GGG 0.668881 2.1:-10666440 MS.gene055810:CDS
ATTACCTCTAACGACCGTGT+TGG 0.672565 2.1:+10667066 None:intergenic
CACAATCGGAGGCACCAACA+CGG 0.673961 2.1:-10667080 MS.gene055810:CDS
TAATGGCGACAACAAGGCAA+GGG 0.678546 2.1:-10667117 MS.gene055810:CDS
AGGAACAAATACACAATCGG+AGG 0.686184 2.1:-10667091 MS.gene055810:CDS
CAAACCAATCATAGCCCGTG+TGG 0.703357 2.1:-10666598 MS.gene055810:CDS
AAGAAGGTATTATCGACCTG+AGG 0.704026 2.1:-10666532 MS.gene055810:CDS
GATAGGTTAATGGTGCTGTG+TGG 0.736018 2.1:-10666154 MS.gene055810:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTATAATGAATTATTATGC+AGG - chr2.1:10666901-10666920 MS.gene055810:intron 20.0%
!!! AAACACTGATATTTTTTTCT+AGG - chr2.1:10666705-10666724 MS.gene055810:intron 20.0%
!!! AACACTGATATTTTTTTCTA+GGG - chr2.1:10666706-10666725 MS.gene055810:intron 20.0%
!!! ATTTTACTTTTATGTTTCGA+AGG - chr2.1:10666785-10666804 MS.gene055810:intron 20.0%
! AAAAGGAACAAATACACAAT+CGG - chr2.1:10665898-10665917 MS.gene055810:CDS 25.0%
! AAAATGTTCACCTGATTTAA+AGG - chr2.1:10667137-10667156 MS.gene055810:CDS 25.0%
! AAGTAGATAGTTCAAAAACA+TGG - chr2.1:10666025-10666044 MS.gene055810:intron 25.0%
! GAAATATTTCAATTTCTTGC+AGG - chr2.1:10667043-10667062 MS.gene055810:intron 25.0%
!! ATCAAAGGTAAATTGGATTT+TGG - chr2.1:10666869-10666888 MS.gene055810:intron 25.0%
!! ATTTGAAGCAATTTGCTTAA+CGG + chr2.1:10665982-10666001 None:intergenic 25.0%
!! TCAAAGGTAAATTGGATTTT+GGG - chr2.1:10666870-10666889 MS.gene055810:intron 25.0%
!!! ACACTGATATTTTTTTCTAG+GGG - chr2.1:10666707-10666726 MS.gene055810:intron 25.0%
AGATCTGTAAGGAAATAAAC+TGG + chr2.1:10667016-10667035 None:intergenic 30.0%
AGGATAATATGAACAGAATG+AGG - chr2.1:10666429-10666448 MS.gene055810:CDS 30.0%
AGTTGCAATCAAAGGTAAAT+TGG - chr2.1:10666862-10666881 MS.gene055810:intron 30.0%
GATTTCATTGCTTCATCAAA+AGG + chr2.1:10667093-10667112 None:intergenic 30.0%
GGATAATATGAACAGAATGA+GGG - chr2.1:10666430-10666449 MS.gene055810:CDS 30.0%
TGAATGTATGATGCCAAATA+AGG + chr2.1:10666928-10666947 None:intergenic 30.0%
TTATTATGCAGGACCTTATT+TGG - chr2.1:10666912-10666931 MS.gene055810:intron 30.0%
TTTCTGTCATAAGATCTGTA+AGG + chr2.1:10667027-10667046 None:intergenic 30.0%
! TTTGAAGCAATTTGCTTAAC+GGG + chr2.1:10665981-10666000 None:intergenic 30.0%
!!! GTTTTAAATTGCACTGATTG+TGG + chr2.1:10666271-10666290 None:intergenic 30.0%
ATTAACCTATCCGGGTTATA+AGG + chr2.1:10666829-10666848 None:intergenic 35.0%
TACATGAAGCTTGAAGTTGT+AGG - chr2.1:10666602-10666621 MS.gene055810:CDS 35.0%
TCTAAGAAGTAATGCTGTGT+TGG - chr2.1:10666981-10667000 MS.gene055810:intron 35.0%
TTATAACCCGGATAGGTTAA+TGG - chr2.1:10666828-10666847 MS.gene055810:intron 35.0%
! CGTATGTTTTCATGGAGATA+AGG - chr2.1:10666499-10666518 MS.gene055810:CDS 35.0%
! TCTGGTACAATGCTTTTACT+GGG - chr2.1:10666648-10666667 MS.gene055810:intron 35.0%
! TTCTGGTACAATGCTTTTAC+TGG - chr2.1:10666647-10666666 MS.gene055810:intron 35.0%
!! ATAGTGCTGACACAATTGAA+GGG - chr2.1:10666552-10666571 MS.gene055810:CDS 35.0%
AAAACATACGCGTCCTTCAA+TGG + chr2.1:10666489-10666508 None:intergenic 40.0%
ACGATTACTTTAGCAGGTTC+TGG - chr2.1:10666630-10666649 MS.gene055810:CDS 40.0%
AGAACATAATGGCGACAACA+AGG - chr2.1:10665869-10665888 MS.gene055810:CDS 40.0%
AGGAACAAATACACAATCGG+AGG - chr2.1:10665901-10665920 MS.gene055810:CDS 40.0%
ATGTGAGATGCCTTATAACC+CGG - chr2.1:10666816-10666835 MS.gene055810:intron 40.0%
ATTGCAGTGCAATGTTGAAG+AGG + chr2.1:10666105-10666124 None:intergenic 40.0%
CAGCAACCTACAGAACATAA+TGG - chr2.1:10665858-10665877 MS.gene055810:CDS 40.0%
CTATGTAAACGACGCTGATA+TGG + chr2.1:10666305-10666324 None:intergenic 40.0%
GAATGAGGGTCTATGTAAGA+AGG - chr2.1:10666444-10666463 MS.gene055810:CDS 40.0%
GTGCTAACGATTACTTTAGC+AGG - chr2.1:10666624-10666643 MS.gene055810:CDS 40.0%
TGGTGTGGTTACGAATAATG+TGG + chr2.1:10666158-10666177 None:intergenic 40.0%
TGTGTGGAAGTTGCAATCAA+AGG - chr2.1:10666854-10666873 MS.gene055810:intron 40.0%
TTATGTTCTGTAGGTTGCTG+CGG + chr2.1:10665858-10665877 None:intergenic 40.0%
TTGTCGCCATTATGTTCTGT+AGG + chr2.1:10665867-10665886 None:intergenic 40.0%
! AAGCAATTTGCTTAACGGGA+AGG + chr2.1:10665977-10665996 None:intergenic 40.0%
! AGTTTGCTCCACAGTTGTTA+GGG + chr2.1:10666193-10666212 None:intergenic 40.0%
! CTGGTACAATGCTTTTACTG+GGG - chr2.1:10666649-10666668 MS.gene055810:intron 40.0%
! GCTTCAAATCGTTCCTTTTG+CGG - chr2.1:10665993-10666012 MS.gene055810:intron 40.0%
! TCCACAGTTGTTAGGGTTTT+GGG + chr2.1:10666186-10666205 None:intergenic 40.0%
!! AAGAAGGTATTATCGACCTG+AGG - chr2.1:10666460-10666479 MS.gene055810:CDS 40.0%
!! CATAGTGCTGACACAATTGA+AGG - chr2.1:10666551-10666570 MS.gene055810:CDS 40.0%
!! TAAGGAGAGAAGGGTTTTGA+GGG + chr2.1:10665952-10665971 None:intergenic 40.0%
ACAGCACCATTAACCTATCC+GGG + chr2.1:10666837-10666856 None:intergenic 45.0%
ACTTACACTTCAACGCGTTC+AGG + chr2.1:10666683-10666702 None:intergenic 45.0%
ACTTCACTCGATTCCGCAAA+AGG + chr2.1:10666009-10666028 None:intergenic 45.0%
AGATGCCTTATAACCCGGAT+AGG - chr2.1:10666821-10666840 MS.gene055810:intron 45.0%
AGGTACCATCCTAAATGCGT+GGG - chr2.1:10667063-10667082 MS.gene055810:intron 45.0%
ATAATGGCGACAACAAGGCA+AGG - chr2.1:10665874-10665893 MS.gene055810:CDS 45.0%
ATTACCTCTAACGACCGTGT+TGG + chr2.1:10665929-10665948 None:intergenic 45.0%
CACAGCACCATTAACCTATC+CGG + chr2.1:10666838-10666857 None:intergenic 45.0%
CTGCCATAACAGCGAAATTG+CGG + chr2.1:10666082-10666101 None:intergenic 45.0%
TAATGGCGACAACAAGGCAA+GGG - chr2.1:10665875-10665894 MS.gene055810:CDS 45.0%
! CAGTTTGCTCCACAGTTGTT+AGG + chr2.1:10666194-10666213 None:intergenic 45.0%
! CCACAGTTGTTAGGGTTTTG+GGG + chr2.1:10666185-10666204 None:intergenic 45.0%
! CCTGCTCAATCTTTTCCACA+CGG + chr2.1:10666412-10666431 None:intergenic 45.0%
! CTCCACAGTTGTTAGGGTTT+TGG + chr2.1:10666187-10666206 None:intergenic 45.0%
! CTGCTCAATCTTTTCCACAC+GGG + chr2.1:10666411-10666430 None:intergenic 45.0%
! GAAGGACGCGTATGTTTTCA+TGG - chr2.1:10666491-10666510 MS.gene055810:CDS 45.0%
! GTAAGGAGAGAAGGGTTTTG+AGG + chr2.1:10665953-10665972 None:intergenic 45.0%
! TGTGTTTTGCTACGCCATAC+TGG - chr2.1:10666365-10666384 MS.gene055810:CDS 45.0%
! TTGCTTAACGGGAAGGTGTA+AGG + chr2.1:10665970-10665989 None:intergenic 45.0%
!! GATAGGTTAATGGTGCTGTG+TGG - chr2.1:10666838-10666857 MS.gene055810:intron 45.0%
!! TTGGTTTGTTCCTGCCAGTA+TGG + chr2.1:10666382-10666401 None:intergenic 45.0%
!! TTTTCCACACGGGCTATGAT+TGG + chr2.1:10666401-10666420 None:intergenic 45.0%
!!! TGTTAGGGTTTTGGGGTAGT+TGG + chr2.1:10666178-10666197 None:intergenic 45.0%
CAAACCAATCATAGCCCGTG+TGG - chr2.1:10666394-10666413 MS.gene055810:CDS 50.0%
CAGCCGCAATTTCGCTGTTA+TGG - chr2.1:10666076-10666095 MS.gene055810:intron 50.0%
CAGGTACCATCCTAAATGCG+TGG - chr2.1:10667062-10667081 MS.gene055810:intron 50.0%
CCCCAAAACCCTAACAACTG+TGG - chr2.1:10666182-10666201 MS.gene055810:CDS 50.0%
CCGTGTGGAAAAGATTGAGC+AGG - chr2.1:10666409-10666428 MS.gene055810:CDS 50.0%
CGAAATTGCGGCTGCAATTG+CGG + chr2.1:10666070-10666089 None:intergenic 50.0%
CGACAACAAGGCAAGGGAAA+AGG - chr2.1:10665881-10665900 MS.gene055810:CDS 50.0%
CGACCTGAGGAAACCATTGA+AGG - chr2.1:10666473-10666492 MS.gene055810:CDS 50.0%
CGTCCTTCAATGGTTTCCTC+AGG + chr2.1:10666479-10666498 None:intergenic 50.0%
GACACACATTGCGGTCATTG+TGG + chr2.1:10666241-10666260 None:intergenic 50.0%
! AAAGGCATGCCCACGCATTT+AGG + chr2.1:10667075-10667094 None:intergenic 50.0%
! GGGAAGGTGTAAGGAGAGAA+GGG + chr2.1:10665961-10665980 None:intergenic 50.0%
! TTTTGCTACGCCATACTGGC+AGG - chr2.1:10666369-10666388 MS.gene055810:CDS 50.0%
GCATGCCCACGCATTTAGGA+TGG + chr2.1:10667071-10667090 None:intergenic 55.0%
GGATGCTGCGACACACATTG+CGG + chr2.1:10666250-10666269 None:intergenic 55.0%
! CGGGAAGGTGTAAGGAGAGA+AGG + chr2.1:10665962-10665981 None:intergenic 55.0%
!! CACAATCGGAGGCACCAACA+CGG - chr2.1:10665912-10665931 MS.gene055810:CDS 55.0%
!!! GGGTTTTGGGGTAGTTGGTG+TGG + chr2.1:10666173-10666192 None:intergenic 55.0%
GGCACCAACACGGTCGTTAG+AGG - chr2.1:10665922-10665941 MS.gene055810:CDS 60.0%
TGCGGCTGCAATTGCGGTTG+CGG + chr2.1:10666064-10666083 None:intergenic 60.0%
GCGGCTGCAATTGCGGTTGC+GGG + chr2.1:10666063-10666082 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 10665850 10667164 10665850 ID=MS.gene055810
chr2.1 mRNA 10665850 10667164 10665850 ID=MS.gene055810.t1;Parent=MS.gene055810
chr2.1 exon 10667071 10667164 10667071 ID=MS.gene055810.t1.exon1;Parent=MS.gene055810.t1
chr2.1 CDS 10667071 10667164 10667071 ID=cds.MS.gene055810.t1;Parent=MS.gene055810.t1
chr2.1 exon 10666318 10666657 10666318 ID=MS.gene055810.t1.exon2;Parent=MS.gene055810.t1
chr2.1 CDS 10666318 10666657 10666318 ID=cds.MS.gene055810.t1;Parent=MS.gene055810.t1
chr2.1 exon 10666139 10666207 10666139 ID=MS.gene055810.t1.exon3;Parent=MS.gene055810.t1
chr2.1 CDS 10666139 10666207 10666139 ID=cds.MS.gene055810.t1;Parent=MS.gene055810.t1
chr2.1 exon 10665850 10665949 10665850 ID=MS.gene055810.t1.exon4;Parent=MS.gene055810.t1
chr2.1 CDS 10665850 10665949 10665850 ID=cds.MS.gene055810.t1;Parent=MS.gene055810.t1
Gene Sequence

>MS.gene055810

ATGCGCCGCAGCAACCTACAGAACATAATGGCGACAACAAGGCAAGGGAAAAGGAACAAATACACAATCGGAGGCACCAACACGGTCGTTAGAGGTAATCCCTCAAAACCCTTCTCTCCTTACACCTTCCCGTTAAGCAAATTGCTTCAAATCGTTCCTTTTGCGGAATCGAGTGAAGTAGATAGTTCAAAAACATGGTTTCAAATTGCACCCGCAACCGCAATTGCAGCCGCAATTTCGCTGTTATGGCAGCCTCTTCAACATTGCACTGCAATTGCGATGTGATCTTCAATCACGTGTGTGTACCACATTATTCGTAACCACACCAACTACCCCAAAACCCTAACAACTGTGGAGCAAACTGAAACTTCTAAAAATTTATTTCACGCCACAATGACCGCAATGTGTGTCGCAGCATCCACAATCAGTGCAATTTAAAACAATATTCAAAACCATATCAGCGTCGTTTACATAGATTATGATTTTGCTTTTTTGTTTTTGTTGCAGCTAAAGACTGTGTTTTGCTACGCCATACTGGCAGGAACAAACCAATCATAGCCCGTGTGGAAAAGATTGAGCAGGATAATATGAACAGAATGAGGGTCTATGTAAGAAGGTATTATCGACCTGAGGAAACCATTGAAGGACGCGTATGTTTTCATGGAGATAAGGAGCTGTTTTTGTCTAATCATTATGATGTTCATAGTGCTGACACAATTGAAGGGAAGTGTTTTGTGCACACTTTGAAGAACTACATGAAGCTTGAAGTTGTAGGTGCTAACGATTACTTTAGCAGGTTCTGGTACAATGCTTTTACTGGGGCTATGACACCTGAACGCGTTGAAGTGTAAGTCTAAACACTGATATTTTTTTCTAGGGGAATTTTGAGTATTTGATAAGTTTTTTTTTTTTTTTTTTTAAAATAAATTTTGTTGATTTTACTTTTATGTTTCGAAGGTTGTGCAAATGTGAGATGCCTTATAACCCGGATAGGTTAATGGTGCTGTGTGGAAGTTGCAATCAAAGGTAAATTGGATTTTGGGTTTATGTATGTATAATGAATTATTATGCAGGACCTTATTTGGCATCATACATTCATTAAAACAAAAAATTTGTTGTATTTACAGAGAATCTAAGAAGTAATGCTGTGTTGGTTTTATGAACCAGTTTATTTCCTTACAGATCTTATGACAGAAATATTTCAATTTCTTGCAGGTACCATCCTAAATGCGTGGGCATGCCTTTTGATGAAGCAATGAAATCAGAAGATTTTAGATTTGTTTGTTCAAAATGTTCACCTGATTTAAAGGATTAG
Protein sequence

>MS.gene055810.t1

MRRSNLQNIMATTRQGKRNKYTIGGTNTVVRAKDCVLLRHTGRNKPIIARVEKIEQDNMNRMRVYVRRYYRPEETIEGRVCFHGDKELFLSNHYDVHSADTIEGKCFVHTLKNYMKLEVVGANDYFSRFWYNAFTGAMTPERVEVLCKCEMPYNPDRLMVLCGSCNQRYHPKCVGMPFDEAMKSEDFRFVCSKCSPDLKD