AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055466


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055466.t1 MTR_5g007350 74.870 386 12 5 9 309 502 887 7.15e-163 476
MS.gene055466.t1 MTR_4g478190 53.403 382 92 9 9 305 476 856 1.31e-94 298
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055466.t1 AT5G16730 45.845 373 119 11 11 305 484 851 1.47e-62 212
MS.gene055466.t1 AT3G02930 39.142 373 142 8 8 305 440 802 3.60e-48 172
MS.gene055466.t1 AT3G02930 39.142 373 142 8 8 305 442 804 3.64e-48 172
MS.gene055466.t1 AT3G02930 39.142 373 142 8 8 305 442 804 3.64e-48 172
MS.gene055466.t1 AT1G65010 34.521 365 155 16 2 298 986 1334 4.21e-25 106
MS.gene055466.t1 AT1G65010 40.884 181 73 3 8 154 471 651 1.21e-22 99.0
MS.gene055466.t1 AT4G27595 36.986 219 97 4 9 188 459 675 2.31e-19 89.4
MS.gene055466.t1 AT4G27595 31.686 344 153 17 1 304 896 1197 1.80e-14 74.7
MS.gene055466.t1 AT4G27595 36.986 219 97 4 9 188 468 684 2.33e-19 89.4
MS.gene055466.t1 AT4G27595 31.686 344 153 17 1 304 905 1206 1.95e-14 74.3

Find 58 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATTCACATTCTCAGGTTT+TGG 0.207509 5.1:-1840160 None:intergenic
GAAGTTGAAGGAGAGTTTAT+TGG 0.258244 5.1:+1839831 MS.gene055466:CDS
AAGCCTTTGCTTGGCAAGTT+TGG 0.262872 5.1:+1840427 MS.gene055466:CDS
TCTGAGAACTCTACTACTTT+AGG 0.280952 5.1:-1840030 None:intergenic
TTGATCACTTGTTCCTTTGT+TGG 0.293101 5.1:-1840394 None:intergenic
TCCTCTTCAAAGGATTCTTC+TGG 0.326731 5.1:-1840295 None:intergenic
AAAACGAGGACCTCCGATCT+AGG 0.357947 5.1:+1839887 MS.gene055466:CDS
CGAAACACGAATGAGGAAAA+TGG 0.362443 5.1:+1839970 MS.gene055466:CDS
GCAAAGTATTGTTCTATTTG+TGG 0.364116 5.1:-1840486 None:intergenic
TCTGGTTCCGCTCCTTTCTC+TGG 0.369901 5.1:-1840277 None:intergenic
TAACTCCTCCACCTTCTTGA+TGG 0.411635 5.1:-1839920 None:intergenic
GAGAATGGGCATGGAGGAGA+AGG 0.415557 5.1:+1840054 MS.gene055466:CDS
CTTCTTTAAGTGCTTCCTGC+AGG 0.437922 5.1:-1839792 None:intergenic
TTTCACACTGGCTTCTTCCT+CGG 0.439829 5.1:-1839710 None:intergenic
CTAGTATTGAAAATTCTAGA+TGG 0.461383 5.1:+1839559 MS.gene055466:CDS
TGATTCCACTTCCTCTTCAA+AGG 0.461956 5.1:-1840305 None:intergenic
AGCTGAGAGCATGAAGTTGA+AGG 0.471831 5.1:+1839819 MS.gene055466:CDS
AGAATCCTTTGAAGAGGAAG+TGG 0.477114 5.1:+1840300 MS.gene055466:CDS
CTTTAAGTGCTTCCTGCAGG+TGG 0.485278 5.1:-1839789 None:intergenic
CCAAAACCTGAGAATGTGAA+TGG 0.485446 5.1:+1840160 MS.gene055466:CDS
CGTAGCTTTCACGTTCAGCT+TGG 0.490817 5.1:-1839437 None:intergenic
TAGAGTTCTCAGAAGAGAAT+GGG 0.491423 5.1:+1840040 MS.gene055466:CDS
GCTTTCACGTTCAGCTTGGT+TGG 0.501551 5.1:-1839433 None:intergenic
AAGAAGAAGAAGCCTTTGCT+TGG 0.502628 5.1:+1840418 MS.gene055466:CDS
ACAGATGGTGGTGAGACAAA+TGG 0.508326 5.1:+1840331 MS.gene055466:CDS
CTTCCAAACTTGCCAAGCAA+AGG 0.509231 5.1:-1840430 None:intergenic
GTAGAGTTCTCAGAAGAGAA+TGG 0.519533 5.1:+1840039 MS.gene055466:CDS
ATGAAGTATCTGCAGAAGCT+AGG 0.539717 5.1:+1839387 MS.gene055466:CDS
AGCCGAGGTGATCCACCTGC+AGG 0.551762 5.1:+1839777 MS.gene055466:CDS
AAACGAGGACCTCCGATCTA+GGG 0.552396 5.1:+1839888 MS.gene055466:CDS
TTCTGTTGAATTGAAAATGT+GGG 0.553383 5.1:+1840222 MS.gene055466:CDS
TTCTCAGAAGAGAATGGGCA+TGG 0.553671 5.1:+1840045 MS.gene055466:CDS
ATTCTGTTGAATTGAAAATG+TGG 0.555044 5.1:+1840221 MS.gene055466:CDS
GAAGGAAGAAGATGCGAGGA+AGG 0.556127 5.1:+1840189 MS.gene055466:CDS
TCAGATTGAAGATTTAAAGT+CGG 0.558119 5.1:+1839464 MS.gene055466:CDS
AGAGGAAGAAACTCAACTGA+AGG 0.583288 5.1:+1839735 MS.gene055466:CDS
TCAACTGAAGGAGAATATGA+AGG 0.589116 5.1:+1839747 MS.gene055466:CDS
ACCAGAAGAATCCTTTGAAG+AGG 0.592110 5.1:+1840294 MS.gene055466:CDS
TACAACACGAAACACGAATG+AGG 0.595109 5.1:+1839963 MS.gene055466:CDS
ATGATGTGCATCATTAAGCA+TGG 0.600860 5.1:-1839517 None:intergenic
AGCTACCATCAAGAAGGTGG+AGG 0.602776 5.1:+1839915 MS.gene055466:CDS
ACAGAGAACATTGGTGATGG+TGG 0.612489 5.1:+1840364 MS.gene055466:CDS
ATCAGCTACCATCAAGAAGG+TGG 0.613126 5.1:+1839912 MS.gene055466:CDS
TATGAAGGAAGTTGAAGCCG+AGG 0.616102 5.1:+1839762 MS.gene055466:CDS
TGGTAGCTGATTCCCTAGAT+CGG 0.616393 5.1:-1839900 None:intergenic
AGAAGCCAGTGTGAAAAGAG+AGG 0.619361 5.1:+1839717 MS.gene055466:CDS
TGGTGGAAGCTCACCAACAA+AGG 0.619554 5.1:+1840381 MS.gene055466:CDS
GGAATCAGCTACCATCAAGA+AGG 0.621797 5.1:+1839909 MS.gene055466:CDS
GAAGTGGAATCAAAGACAGA+TGG 0.624193 5.1:+1840316 MS.gene055466:CDS
GTGGAATCAAAGACAGATGG+TGG 0.634087 5.1:+1840319 MS.gene055466:CDS
TGATCTTTCTGATAGCGAGA+AGG 0.643086 5.1:+1839993 MS.gene055466:CDS
GAATGTGAATGGAAAACTGA+AGG 0.653191 5.1:+1840171 MS.gene055466:CDS
AACTGAAGGAAGAAGATGCG+AGG 0.658723 5.1:+1840185 MS.gene055466:CDS
TTCCTGCAGGTGGATCACCT+CGG 0.677019 5.1:-1839779 None:intergenic
GTGACAGAGAACATTGGTGA+TGG 0.683202 5.1:+1840361 MS.gene055466:CDS
TCAGAAGAGAATGGGCATGG+AGG 0.685717 5.1:+1840048 MS.gene055466:CDS
TAGCTGATTCCCTAGATCGG+AGG 0.695428 5.1:-1839897 None:intergenic
GCATCTGTGACAGAGAACAT+TGG 0.718063 5.1:+1840355 MS.gene055466:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTCTGTTGAATTGAAAATG+TGG + chr5.1:1840221-1840240 MS.gene055466:CDS 25.0%
! TTCTGTTGAATTGAAAATGT+GGG + chr5.1:1840222-1840241 MS.gene055466:CDS 25.0%
!! AAGACAATGTTTTCTTCTTT+GGG - chr5.1:1840112-1840131 None:intergenic 25.0%
!! CTAGTATTGAAAATTCTAGA+TGG + chr5.1:1839559-1839578 MS.gene055466:CDS 25.0%
!! TCAGATTGAAGATTTAAAGT+CGG + chr5.1:1839464-1839483 MS.gene055466:CDS 25.0%
!!! GAATATTTTTCAAGAAAACG+AGG + chr5.1:1839873-1839892 MS.gene055466:CDS 25.0%
CAAAGAAGAAAACATTGTCT+TGG + chr5.1:1840111-1840130 MS.gene055466:intron 30.0%
CATATTTAAGGAAGAGCTTT+CGG + chr5.1:1840080-1840099 MS.gene055466:intron 30.0%
CGTTGGGAAATGAAATAAAT+AGG + chr5.1:1839665-1839684 MS.gene055466:intron 30.0%
GGGAAATGAAATAAATAGGT+TGG + chr5.1:1839669-1839688 MS.gene055466:intron 30.0%
TTCTTTACTGAAAAAAACCG+AGG + chr5.1:1839693-1839712 MS.gene055466:CDS 30.0%
! CAAGACAATGTTTTCTTCTT+TGG - chr5.1:1840113-1840132 None:intergenic 30.0%
! GTTGGCTAATAGTTTTTCTT+TGG - chr5.1:1839418-1839437 None:intergenic 30.0%
AGGAGAAGGTAGCATATTTA+AGG + chr5.1:1840068-1840087 MS.gene055466:intron 35.0%
ATGATGTGCATCATTAAGCA+TGG - chr5.1:1839520-1839539 None:intergenic 35.0%
ATGGATATTGTGAACTCCAA+GGG + chr5.1:1839578-1839597 MS.gene055466:intron 35.0%
GAAGTTGAAGGAGAGTTTAT+TGG + chr5.1:1839831-1839850 MS.gene055466:CDS 35.0%
GAATGTGAATGGAAAACTGA+AGG + chr5.1:1840171-1840190 MS.gene055466:CDS 35.0%
TAGAGTTCTCAGAAGAGAAT+GGG + chr5.1:1840040-1840059 MS.gene055466:CDS 35.0%
TCAACTGAAGGAGAATATGA+AGG + chr5.1:1839747-1839766 MS.gene055466:CDS 35.0%
TCTGAGAACTCTACTACTTT+AGG - chr5.1:1840033-1840052 None:intergenic 35.0%
TTGATCACTTGTTCCTTTGT+TGG - chr5.1:1840397-1840416 None:intergenic 35.0%
! AGTTTTCCATTCACATTCTC+AGG - chr5.1:1840169-1840188 None:intergenic 35.0%
! TACCACTCTTTTTCTTCAAC+AGG - chr5.1:1840456-1840475 None:intergenic 35.0%
AAGAAGAAGAAGCCTTTGCT+TGG + chr5.1:1840418-1840437 MS.gene055466:CDS 40.0%
AGAGGAAGAAACTCAACTGA+AGG + chr5.1:1839735-1839754 MS.gene055466:CDS 40.0%
AGCCTGTTGAAGAAAAAGAG+TGG + chr5.1:1840451-1840470 MS.gene055466:CDS 40.0%
CCAAAACCTGAGAATGTGAA+TGG + chr5.1:1840160-1840179 MS.gene055466:CDS 40.0%
CGAAACACGAATGAGGAAAA+TGG + chr5.1:1839970-1839989 MS.gene055466:CDS 40.0%
GAAGTGGAATCAAAGACAGA+TGG + chr5.1:1840316-1840335 MS.gene055466:CDS 40.0%
GATGGATATTGTGAACTCCA+AGG + chr5.1:1839577-1839596 MS.gene055466:intron 40.0%
GTAGAGTTCTCAGAAGAGAA+TGG + chr5.1:1840039-1840058 MS.gene055466:CDS 40.0%
TAAGGAAGAGCTTTCGGTTT+CGG + chr5.1:1840086-1840105 MS.gene055466:intron 40.0%
TACAACACGAAACACGAATG+AGG + chr5.1:1839963-1839982 MS.gene055466:CDS 40.0%
TCCTCTTCAAAGGATTCTTC+TGG - chr5.1:1840298-1840317 None:intergenic 40.0%
TGAGAAGAAAACTCGTCGTT+GGG + chr5.1:1839649-1839668 MS.gene055466:intron 40.0%
TGATTCCACTTCCTCTTCAA+AGG - chr5.1:1840308-1840327 None:intergenic 40.0%
! AAAGAGTTTTCGCCAGAGAA+AGG + chr5.1:1840265-1840284 MS.gene055466:CDS 40.0%
! ACCAGAAGAATCCTTTGAAG+AGG + chr5.1:1840294-1840313 MS.gene055466:CDS 40.0%
! AGAATCCTTTGAAGAGGAAG+TGG + chr5.1:1840300-1840319 MS.gene055466:CDS 40.0%
! ATGAAGTATCTGCAGAAGCT+AGG + chr5.1:1839387-1839406 MS.gene055466:CDS 40.0%
! CCATTCACATTCTCAGGTTT+TGG - chr5.1:1840163-1840182 None:intergenic 40.0%
! TGATCTTTCTGATAGCGAGA+AGG + chr5.1:1839993-1840012 MS.gene055466:CDS 40.0%
! TTCTTCCTCTCTTTTCACAC+TGG - chr5.1:1839725-1839744 None:intergenic 40.0%
AACTGAAGGAAGAAGATGCG+AGG + chr5.1:1840185-1840204 MS.gene055466:CDS 45.0%
AAGCCTTTGCTTGGCAAGTT+TGG + chr5.1:1840427-1840446 MS.gene055466:CDS 45.0%
AGAAGCCAGTGTGAAAAGAG+AGG + chr5.1:1839717-1839736 MS.gene055466:CDS 45.0%
ATCAGCTACCATCAAGAAGG+TGG + chr5.1:1839912-1839931 MS.gene055466:CDS 45.0%
CTGAGAAGAAAACTCGTCGT+TGG + chr5.1:1839648-1839667 MS.gene055466:intron 45.0%
CTTCCAAACTTGCCAAGCAA+AGG - chr5.1:1840433-1840452 None:intergenic 45.0%
CTTCTTTAAGTGCTTCCTGC+AGG - chr5.1:1839795-1839814 None:intergenic 45.0%
GCATCTGTGACAGAGAACAT+TGG + chr5.1:1840355-1840374 MS.gene055466:CDS 45.0%
GGAATCAGCTACCATCAAGA+AGG + chr5.1:1839909-1839928 MS.gene055466:CDS 45.0%
GTGACAGAGAACATTGGTGA+TGG + chr5.1:1840361-1840380 MS.gene055466:CDS 45.0%
GTGGAATCAAAGACAGATGG+TGG + chr5.1:1840319-1840338 MS.gene055466:CDS 45.0%
TAACTCCTCCACCTTCTTGA+TGG - chr5.1:1839923-1839942 None:intergenic 45.0%
TATGAAGGAAGTTGAAGCCG+AGG + chr5.1:1839762-1839781 MS.gene055466:CDS 45.0%
TTCTCAGAAGAGAATGGGCA+TGG + chr5.1:1840045-1840064 MS.gene055466:CDS 45.0%
! ACAGATGGTGGTGAGACAAA+TGG + chr5.1:1840331-1840350 MS.gene055466:CDS 45.0%
! AGCTGAGAGCATGAAGTTGA+AGG + chr5.1:1839819-1839838 MS.gene055466:CDS 45.0%
! TGGTAGCTGATTCCCTAGAT+CGG - chr5.1:1839903-1839922 None:intergenic 45.0%
!! ACAGAGAACATTGGTGATGG+TGG + chr5.1:1840364-1840383 MS.gene055466:CDS 45.0%
!! TTTCACACTGGCTTCTTCCT+CGG - chr5.1:1839713-1839732 None:intergenic 45.0%
AAAACGAGGACCTCCGATCT+AGG + chr5.1:1839887-1839906 MS.gene055466:CDS 50.0%
AAACGAGGACCTCCGATCTA+GGG + chr5.1:1839888-1839907 MS.gene055466:CDS 50.0%
AGCTACCATCAAGAAGGTGG+AGG + chr5.1:1839915-1839934 MS.gene055466:CDS 50.0%
CGTAGCTTTCACGTTCAGCT+TGG - chr5.1:1839440-1839459 None:intergenic 50.0%
CTTTAAGTGCTTCCTGCAGG+TGG - chr5.1:1839792-1839811 None:intergenic 50.0%
GAAGGAAGAAGATGCGAGGA+AGG + chr5.1:1840189-1840208 MS.gene055466:CDS 50.0%
GCTTTCACGTTCAGCTTGGT+TGG - chr5.1:1839436-1839455 None:intergenic 50.0%
TCAGAAGAGAATGGGCATGG+AGG + chr5.1:1840048-1840067 MS.gene055466:CDS 50.0%
TGGTGGAAGCTCACCAACAA+AGG + chr5.1:1840381-1840400 MS.gene055466:CDS 50.0%
TGTGAACTCCAAGGGAGAGT+GGG + chr5.1:1839586-1839605 MS.gene055466:intron 50.0%
TTGTGAACTCCAAGGGAGAG+TGG + chr5.1:1839585-1839604 MS.gene055466:intron 50.0%
! GTTTTCGCCAGAGAAAGGAG+CGG + chr5.1:1840270-1840289 MS.gene055466:CDS 50.0%
! TAGCTGATTCCCTAGATCGG+AGG - chr5.1:1839900-1839919 None:intergenic 50.0%
GAGAATGGGCATGGAGGAGA+AGG + chr5.1:1840054-1840073 MS.gene055466:CDS 55.0%
TTCCTGCAGGTGGATCACCT+CGG - chr5.1:1839782-1839801 None:intergenic 55.0%
TTTCTGCTCCCACTCTCCCT+TGG - chr5.1:1839597-1839616 None:intergenic 55.0%
! TCTGGTTCCGCTCCTTTCTC+TGG - chr5.1:1840280-1840299 None:intergenic 55.0%
AGCCGAGGTGATCCACCTGC+AGG + chr5.1:1839777-1839796 MS.gene055466:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 1839387 1840495 1839387 ID=MS.gene055466
chr5.1 mRNA 1839387 1840495 1839387 ID=MS.gene055466.t1;Parent=MS.gene055466
chr5.1 exon 1839387 1839586 1839387 ID=MS.gene055466.t1.exon1;Parent=MS.gene055466.t1
chr5.1 CDS 1839387 1839586 1839387 ID=cds.MS.gene055466.t1;Parent=MS.gene055466.t1
chr5.1 exon 1839687 1840075 1839687 ID=MS.gene055466.t1.exon2;Parent=MS.gene055466.t1
chr5.1 CDS 1839687 1840075 1839687 ID=cds.MS.gene055466.t1;Parent=MS.gene055466.t1
chr5.1 exon 1840155 1840495 1840155 ID=MS.gene055466.t1.exon3;Parent=MS.gene055466.t1
chr5.1 CDS 1840155 1840495 1840155 ID=cds.MS.gene055466.t1;Parent=MS.gene055466.t1
Gene Sequence

>MS.gene055466

ATGAAGTATCTGCAGAAGCTAGGAGATACCAAAGAAAAACTATTAGCCAACCAAGCTGAACGTGAAAGCTACGTGACTCAGATTGAAGATTTAAAGTCGGATTTAGAAGCTAGCAAAGAAAAATATGAGTCCATGCTTAATGATGCACATCATGAGATTGATGTTCTTACATCTAGTATTGAAAATTCTAGATGGATATTGTGAACTCCAAGGGAGAGTGGGAGCAGAAAGAACATGATCTTGTCGAGTGCATAAAGAGAACTGAGAAGAAAACTCGTCGTTGGGAAATGAAATAAATAGGTTGGTTTCTTTACTGAAAAAAACCGAGGAAGAAGCCAGTGTGAAAAGAGAGGAAGAAACTCAACTGAAGGAGAATATGAAGGAAGTTGAAGCCGAGGTGATCCACCTGCAGGAAGCACTTAAAGAAGCACAAGCTGAGAGCATGAAGTTGAAGGAGAGTTTATTGGATAAAGAAAACGAGTTTCAGAATATTTTTCAAGAAAACGAGGACCTCCGATCTAGGGAATCAGCTACCATCAAGAAGGTGGAGGAGTTATCTAAGTCGCTCGAAGAAGCTACAACACGAAACACGAATGAGGAAAATGGTGATCTTTCTGATAGCGAGAAGGACTACGATTTGCTTCCTAAAGTAGTAGAGTTCTCAGAAGAGAATGGGCATGGAGGAGAAGGTAGCATATTTAAGGAAGAGCTTTCGGTTTCGGCCCAAAGAAGAAAACATTGTCTTGGATGACAAGTTTGAAAAAACAGAATCTCCAAAACCTGAGAATGTGAATGGAAAACTGAAGGAAGAAGATGCGAGGAAGGAGAAAGATGATTCTGTTGAATTGAAAATGTGGGAGAGCTGCAAGATAGAGAAAAAAGAGTTTTCGCCAGAGAAAGGAGCGGAACCAGAAGAATCCTTTGAAGAGGAAGTGGAATCAAAGACAGATGGTGGTGAGACAAATGGAGCATCTGTGACAGAGAACATTGGTGATGGTGGAAGCTCACCAACAAAGGAACAAGTGATCAAGAAGAAGAAGAAGCCTTTGCTTGGCAAGTTTGGAAGCCTGTTGAAGAAAAAGAGTGGTAGCAATAGCAACCACAAATAG

Protein sequence

>MS.gene055466.t1

MKYLQKLGDTKEKLLANQAERESYVTQIEDLKSDLEASKEKYESMLNDAHHEIDVLTSSIENSRWILLVSLLKKTEEEASVKREEETQLKENMKEVEAEVIHLQEALKEAQAESMKLKESLLDKENEFQNIFQENEDLRSRESATIKKVEELSKSLEEATTRNTNEENGDLSDSEKDYDLLPKVVEFSEENGHGGEESPKPENVNGKLKEEDARKEKDDSVELKMWESCKIEKKEFSPEKGAEPEESFEEEVESKTDGGETNGASVTENIGDGGSSPTKEQVIKKKKKPLLGKFGSLLKKKSGSNSNHK