AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033495

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033495.t1 MTR_7g080390 98.462 130 2 0 1 130 1 130 7.91e-93 264
MS.gene033495.t1 MTR_7g080760 51.240 121 49 3 10 129 7 118 2.50e-35 118
MS.gene033495.t1 MTR_4g133928 51.948 77 37 0 54 130 47 123 1.99e-21 83.2
MS.gene033495.t1 MTR_0446s0010 58.929 56 23 0 54 109 47 102 4.89e-16 68.9
MS.gene033495.t1 MTR_8g099920 41.772 79 44 2 53 130 59 136 2.70e-11 57.4
MS.gene033495.t1 MTR_8g099920 41.772 79 44 2 53 130 61 138 2.81e-11 57.4
MS.gene033495.t1 MTR_4g118750 35.398 113 67 3 16 123 4 115 5.81e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033495.t1 AT1G65290 72.932 133 26 3 1 130 1 126 4.19e-60 181
MS.gene033495.t1 AT2G44620 52.713 129 53 4 1 129 1 121 1.12e-35 119
MS.gene033495.t1 AT5G47630 37.097 124 71 3 10 130 8 127 8.30e-20 79.3
MS.gene033495.t1 AT5G47630 37.097 124 71 3 10 130 8 127 8.30e-20 79.3
MS.gene033495.t1 AT5G47630 37.097 124 71 3 10 130 8 127 8.30e-20 79.3

Find 36 sgRNAs with CRISPR-Local

Find 93 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTAGAAGGATCAACTTTC+TGG 0.153197 7.3:-27114745 None:intergenic
ATCTTGTCTGCTTCATTATC+AGG 0.242778 7.3:-27116311 None:intergenic
GAAACGACGAAGGAAGAAAT+TGG 0.274656 7.3:-27114648 None:intergenic
TATCCAATCCAAGGTCATTC+TGG 0.280875 7.3:-27116232 None:intergenic
CCAGAAAGTTGATCCTTCTA+AGG 0.310928 7.3:+27114745 MS.gene033495:CDS
GTCGTTTCAGCGAAGAGGTT+AGG 0.325470 7.3:+27114663 MS.gene033495:CDS
TGACCTTGGATTGGATAGTT+TGG 0.330609 7.3:+27116238 MS.gene033495:CDS
ATGGCTCTTGAGGAAGAGTT+TGG 0.348440 7.3:+27116278 MS.gene033495:CDS
TCGTTTCAGCGAAGAGGTTA+GGG 0.350830 7.3:+27114664 MS.gene033495:CDS
AGGAATGAATATACCTTAGA+AGG 0.366704 7.3:-27114758 None:intergenic
TGGCTCTTGAGGAAGAGTTT+GGG 0.415460 7.3:+27116279 MS.gene033495:CDS
ACAATGGCGGCGAGAAGAAC+CGG 0.449215 7.3:+27114548 None:intergenic
TTTCCAGAATGACCTTGGAT+TGG 0.459097 7.3:+27116229 MS.gene033495:CDS
CTTCATTGCATCTCATCCTC+AGG 0.467249 7.3:+27116358 MS.gene033495:CDS
GTAATTGATCAGAGGTAAAC+CGG 0.480151 7.3:-27114567 None:intergenic
AAACGACGAAGGAAGAAATT+GGG 0.492698 7.3:-27114647 None:intergenic
GCTCATTTCCAGAATGACCT+TGG 0.503501 7.3:+27116224 MS.gene033495:CDS
AAAGGCGATTGGTGGTTCAA+TGG 0.507901 7.3:-27114614 None:intergenic
CTCATCCTCAGGCAAAGTAA+TGG 0.513408 7.3:+27116369 MS.gene033495:CDS
TCATTCTGGAAATGAGCACT+TGG 0.522843 7.3:-27116218 None:intergenic
CCTTCGTCGTTTCAGCGAAG+AGG 0.534191 7.3:+27114658 MS.gene033495:CDS
GAGAATCAACTTGCACTCTC+AGG 0.548584 7.3:-27114589 None:intergenic
CATTCTGGAAATGAGCACTT+GGG 0.569313 7.3:-27116217 None:intergenic
GAAGAAGACGGAAAGGCGAT+TGG 0.569472 7.3:-27114625 None:intergenic
GAAGACGGAAAGGCGATTGG+TGG 0.580452 7.3:-27114622 None:intergenic
GAATTCCATTACTTTGCCTG+AGG 0.593411 7.3:-27116374 None:intergenic
AGAGATTGTGATGGCTCTTG+AGG 0.598690 7.3:+27116268 MS.gene033495:CDS
CGTTTCAGCGAAGAGGTTAG+GGG 0.604330 7.3:+27114665 MS.gene033495:CDS
GGATGCTGTAGAGATTGTGA+TGG 0.619499 7.3:+27116259 MS.gene033495:CDS
AAATTGGGAAGAAGACGGAA+AGG 0.623328 7.3:-27114632 None:intergenic
GGAAGAAATTGGGAAGAAGA+CGG 0.626548 7.3:-27114637 None:intergenic
CATCCAAACTATCCAATCCA+AGG 0.636485 7.3:-27116241 None:intergenic
TACGTTTCTCGACAAATCTG+AGG 0.640218 7.3:+27114688 MS.gene033495:CDS
ATTCTGGAAATGAGCACTTG+GGG 0.645151 7.3:-27116216 None:intergenic
CCTCTTCGCTGAAACGACGA+AGG 0.663136 7.3:-27114658 None:intergenic
ACTCTCAGGTAATTGATCAG+AGG 0.675792 7.3:-27114575 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTATTTCCGATAATT+AGG + chr7.3:27114894-27114913 MS.gene033495:intron 15.0%
!! AACTAAAACAATGTTATTAT+CGG - chr7.3:27115645-27115664 None:intergenic 15.0%
!! TACAAAAATATATAAATCCT+TGG + chr7.3:27115488-27115507 MS.gene033495:intron 15.0%
!!! ATTGTTTTCATATAAGTTAT+AGG + chr7.3:27114995-27115014 MS.gene033495:intron 15.0%
!!! TTGTTTTCATATAAGTTATA+GGG + chr7.3:27114996-27115015 MS.gene033495:intron 15.0%
!!! TTTAACTTTATTTTACCTTT+TGG - chr7.3:27115106-27115125 None:intergenic 15.0%
!! TGATGAATGAAACAATAATT+AGG - chr7.3:27114814-27114833 None:intergenic 20.0%
!! TTCACTTTATCTTTAGTTAT+AGG - chr7.3:27114971-27114990 None:intergenic 20.0%
!!! AACATTGTTTTAGTTATATG+AGG + chr7.3:27115650-27115669 MS.gene033495:intron 20.0%
!!! ATTTTTGTATTGCATTTTAG+TGG - chr7.3:27115477-27115496 None:intergenic 20.0%
!!! TAAGCTAGATTATTTTCTTA+AGG - chr7.3:27115290-27115309 None:intergenic 20.0%
! AAGTGATTACTTCATTTAAG+AGG + chr7.3:27115756-27115775 MS.gene033495:intron 25.0%
! AATTGAGTGTAATTCTTACA+TGG - chr7.3:27115566-27115585 None:intergenic 25.0%
! ATAAACTTGTGAGACTAATT+GGG - chr7.3:27115991-27116010 None:intergenic 25.0%
! ATATAAGAATTGCTCATTGA+TGG - chr7.3:27115441-27115460 None:intergenic 25.0%
! ATTAACGTGATGTTATTGTT+AGG + chr7.3:27114833-27114852 MS.gene033495:intron 25.0%
! CAATTCTTATATGAAGCTAA+AGG + chr7.3:27115449-27115468 MS.gene033495:intron 25.0%
! GAAACGAATGATAATAATAG+AGG - chr7.3:27114781-27114800 None:intergenic 25.0%
! GTATATGCTATAAGCTATAT+TGG + chr7.3:27115134-27115153 MS.gene033495:intron 25.0%
! TAAGCTACTTATATACCAAA+AGG + chr7.3:27115088-27115107 MS.gene033495:intron 25.0%
! TACTTCATTTAAGAGGATTA+AGG + chr7.3:27115763-27115782 MS.gene033495:intron 25.0%
! TATAAACTTGTGAGACTAAT+TGG - chr7.3:27115992-27116011 None:intergenic 25.0%
! TATAAATCCTTGGATTTGAT+TGG + chr7.3:27115498-27115517 MS.gene033495:intron 25.0%
! TCCAAACATTACCTAATTAT+CGG - chr7.3:27114908-27114927 None:intergenic 25.0%
!!! TAACTTGTTTGAAAACAGTT+TGG - chr7.3:27115879-27115898 None:intergenic 25.0%
AAACATTTCATACGCTACTT+TGG + chr7.3:27115261-27115280 MS.gene033495:intron 30.0%
AAAGCTGGTAGCAATATTAA+AGG - chr7.3:27115412-27115431 None:intergenic 30.0%
AAAGTAGCGTATGAAATGTT+TGG - chr7.3:27115262-27115281 None:intergenic 30.0%
AACATAACCAATCAAATCCA+AGG - chr7.3:27115508-27115527 None:intergenic 30.0%
AAGAAGTTAGAAACAGCTTA+TGG + chr7.3:27115936-27115955 MS.gene033495:intron 30.0%
ACAAATAAACCAATCCAAAC+AGG + chr7.3:27116021-27116040 MS.gene033495:intron 30.0%
ACTTCAAACAGTAAAGTGTA+AGG - chr7.3:27116080-27116099 None:intergenic 30.0%
AGGAATGAATATACCTTAGA+AGG - chr7.3:27114761-27114780 None:intergenic 30.0%
CAAATAAACCAATCCAAACA+GGG + chr7.3:27116022-27116041 MS.gene033495:intron 30.0%
CTTATACTCTCTTGTTAACA+TGG + chr7.3:27116163-27116182 MS.gene033495:intron 30.0%
TCCGATAATTAGGTAATGTT+TGG + chr7.3:27114904-27114923 MS.gene033495:intron 30.0%
TTAGGTAATGTTTGGATCAA+CGG + chr7.3:27114912-27114931 MS.gene033495:intron 30.0%
! TTGGATTTGATTGGTTATGT+TGG + chr7.3:27115507-27115526 MS.gene033495:intron 30.0%
!! TTGAAGTGTGTTTGTCATTT+TGG + chr7.3:27116093-27116112 MS.gene033495:intron 30.0%
AAACGACGAAGGAAGAAATT+GGG - chr7.3:27114650-27114669 None:intergenic 35.0%
ATCTTGTCTGCTTCATTATC+AGG - chr7.3:27116314-27116333 None:intergenic 35.0%
CATCTACTCATGTAAGCATT+CGG - chr7.3:27115357-27115376 None:intergenic 35.0%
CTAGCTTATAGATGTGTCAT+TGG + chr7.3:27115302-27115321 MS.gene033495:intron 35.0%
CTGATAAATGGAAAGAAGCA+CGG - chr7.3:27116192-27116211 None:intergenic 35.0%
CTGGTAGCAATATTAAAGGA+AGG - chr7.3:27115408-27115427 None:intergenic 35.0%
GATGAAATTATCACTGCCAA+GGG + chr7.3:27115720-27115739 MS.gene033495:intron 35.0%
GTAATTGATCAGAGGTAAAC+CGG - chr7.3:27114570-27114589 None:intergenic 35.0%
! TAAGCTATCTTAGAGAGCAT+AGG + chr7.3:27115912-27115931 MS.gene033495:intron 35.0%
! TGATAAATGGAAAGAAGCAC+GGG - chr7.3:27116191-27116210 None:intergenic 35.0%
AAATTGGGAAGAAGACGGAA+AGG - chr7.3:27114635-27114654 None:intergenic 40.0%
ACATTGTTCAGGAGAGCTTA+TGG - chr7.3:27115334-27115353 None:intergenic 40.0%
ACTCTCAGGTAATTGATCAG+AGG - chr7.3:27114578-27114597 None:intergenic 40.0%
ACTTGGGGTAACCTGATAAA+TGG - chr7.3:27116204-27116223 None:intergenic 40.0%
AGCGTATGAAATGTTTGGCT+TGG - chr7.3:27115257-27115276 None:intergenic 40.0%
AGCTTATCTACGAGACTCTT+TGG - chr7.3:27115226-27115245 None:intergenic 40.0%
AGTACACAATTGCTTGCAGA+GGG - chr7.3:27116130-27116149 None:intergenic 40.0%
CATCCAAACTATCCAATCCA+AGG - chr7.3:27116244-27116263 None:intergenic 40.0%
CCTTAGAAGGATCAACTTTC+TGG - chr7.3:27114748-27114767 None:intergenic 40.0%
CGATGAAATTATCACTGCCA+AGG + chr7.3:27115719-27115738 MS.gene033495:intron 40.0%
CGTGCTTCTTTCCATTTATC+AGG + chr7.3:27116190-27116209 MS.gene033495:intron 40.0%
CTTAAGAGAGATCAAACCCT+TGG - chr7.3:27115739-27115758 None:intergenic 40.0%
GAAACGACGAAGGAAGAAAT+TGG - chr7.3:27114651-27114670 None:intergenic 40.0%
GCTTATCTACGAGACTCTTT+GGG - chr7.3:27115225-27115244 None:intergenic 40.0%
GGAAGAAATTGGGAAGAAGA+CGG - chr7.3:27114640-27114659 None:intergenic 40.0%
GTTTACACTATAGCCCTGTT+TGG - chr7.3:27116038-27116057 None:intergenic 40.0%
TAAGCATTCGGACATTGTTC+AGG - chr7.3:27115345-27115364 None:intergenic 40.0%
TACGTTTCTCGACAAATCTG+AGG + chr7.3:27114688-27114707 MS.gene033495:CDS 40.0%
TAGTACACAATTGCTTGCAG+AGG - chr7.3:27116131-27116150 None:intergenic 40.0%
TATCCAATCCAAGGTCATTC+TGG - chr7.3:27116235-27116254 None:intergenic 40.0%
TTTCCAGAATGACCTTGGAT+TGG + chr7.3:27116229-27116248 MS.gene033495:CDS 40.0%
! ATTCTGGAAATGAGCACTTG+GGG - chr7.3:27116219-27116238 None:intergenic 40.0%
! CATTCTGGAAATGAGCACTT+GGG - chr7.3:27116220-27116239 None:intergenic 40.0%
! CCAGAAAGTTGATCCTTCTA+AGG + chr7.3:27114745-27114764 MS.gene033495:CDS 40.0%
! TCATTCTGGAAATGAGCACT+TGG - chr7.3:27116221-27116240 None:intergenic 40.0%
! TGACCTTGGATTGGATAGTT+TGG + chr7.3:27116238-27116257 MS.gene033495:CDS 40.0%
AGAGATTGTGATGGCTCTTG+AGG + chr7.3:27116268-27116287 MS.gene033495:CDS 45.0%
ATGGCTCTTGAGGAAGAGTT+TGG + chr7.3:27116278-27116297 MS.gene033495:CDS 45.0%
CACTATAGCCCTGTTTGGAT+TGG - chr7.3:27116033-27116052 None:intergenic 45.0%
CTTCATTGCATCTCATCCTC+AGG + chr7.3:27116358-27116377 MS.gene033495:CDS 45.0%
CTTGTGAGACTAATTGGGAG+AGG - chr7.3:27115986-27116005 None:intergenic 45.0%
GAGAATCAACTTGCACTCTC+AGG - chr7.3:27114592-27114611 None:intergenic 45.0%
GCTCATTTCCAGAATGACCT+TGG + chr7.3:27116224-27116243 MS.gene033495:CDS 45.0%
GGATGCTGTAGAGATTGTGA+TGG + chr7.3:27116259-27116278 MS.gene033495:CDS 45.0%
TCGTTTCAGCGAAGAGGTTA+GGG + chr7.3:27114664-27114683 MS.gene033495:CDS 45.0%
TGGCTCTTGAGGAAGAGTTT+GGG + chr7.3:27116279-27116298 MS.gene033495:CDS 45.0%
! AAAGGCGATTGGTGGTTCAA+TGG - chr7.3:27114617-27114636 None:intergenic 45.0%
! CATTGATGGCATCGTAAAGC+TGG - chr7.3:27115427-27115446 None:intergenic 45.0%
CGTTTCAGCGAAGAGGTTAG+GGG + chr7.3:27114665-27114684 MS.gene033495:CDS 50.0%
GAAGAAGACGGAAAGGCGAT+TGG - chr7.3:27114628-27114647 None:intergenic 50.0%
GTCGTTTCAGCGAAGAGGTT+AGG + chr7.3:27114663-27114682 MS.gene033495:CDS 50.0%
CCTCTTCGCTGAAACGACGA+AGG - chr7.3:27114661-27114680 None:intergenic 55.0%
CCTTCGTCGTTTCAGCGAAG+AGG + chr7.3:27114658-27114677 MS.gene033495:CDS 55.0%
GAAGACGGAAAGGCGATTGG+TGG - chr7.3:27114625-27114644 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 27114551 27116388 27114551 ID=MS.gene033495
chr7.3 mRNA 27114551 27116388 27114551 ID=MS.gene033495.t1;Parent=MS.gene033495
chr7.3 exon 27114551 27114766 27114551 ID=MS.gene033495.t1.exon1;Parent=MS.gene033495.t1
chr7.3 CDS 27114551 27114766 27114551 ID=cds.MS.gene033495.t1;Parent=MS.gene033495.t1
chr7.3 exon 27116212 27116388 27116212 ID=MS.gene033495.t1.exon2;Parent=MS.gene033495.t1
chr7.3 CDS 27116212 27116388 27116212 ID=cds.MS.gene033495.t1;Parent=MS.gene033495.t1
Gene Sequence

>MS.gene033495

ATGGCGGCGAGAAGAACCGGTTTACCTCTGATCAATTACCTGAGAGTGCAAGTTGATTCTCGTCCATTGAACCACCAATCGCCTTTCCGTCTTCTTCCCAATTTCTTCCTTCGTCGTTTCAGCGAAGAGGTTAGGGGTACGTTTCTCGACAAATCTGAGGTCACAGATCGCGTCGTTTCTTGCGTCAAAAACTTCCAGAAAGTTGATCCTTCTAAGGTATATTCATTCCTCTATTATTATCATTCGTTTCTTTTCAATCTCCTAATTATTGTTTCATTCATCATTAACGTGATGTTATTGTTAGGTTTAGCTGTTAACTTTGCTTATTTTCACTTATTTTGCAAAAAATTATTTCCGATAATTAGGTAATGTTTGGATCAACGGATTAATTAAGCACTAATAGCATACATGTTTATTCCTATAACTAAAGATAAAGTGAATTACATTGTTTTCATATAAGTTATAGGGCGTGTTTCGATAAACAACTTGTTTGCAGCTTATAGCATATCATGATAAGTGCATATGCATAAGCTTACATAAGCTACTTATATACCAAAAGGTAAAATAAAGTTAAATTATTTTTGTATATGCTATAAGCTATATTGGAGAACTTGTGAAAATAAACTGAAAAAAGCTTATGAAAATTGTCATAAGCTGTTTTCATAAGTTCTCCCAAAGAGTCTCGTAGATAAGCTCAAATAAGCCAAGCCAAACATTTCATACGCTACTTTGGAGACCTTAAGAAAATAATCTAGCTTATAGATGTGTCATTGGTTGTTTCCATAAGCTCTCCTGAACAATGTCCGAATGCTTACATGAGTAGATGAGCTCAAATAAATCAAACAGACTCATGACCTTCCTTTAATATTGCTACCAGCTTTACGATGCCATCAATGAGCAATTCTTATATGAAGCTAAAGGCACCACTAAAATGCAATACAAAAATATATAAATCCTTGGATTTGATTGGTTATGTTGGTAGATTTTTTCTAAAATTCTGTAGATATTGTATCCATGTAAGAATTACACTCAATTCTCAAATATCATTTTTAAGCTACTCTTGTTTGTAGACATCATATAACAAGTAGCAACCGATAATAACATTGTTTTAGTTATATGAGGTGCATTCTATGCTAGAATCTTTCATCAAAATAAATATTATTGTTTGCGATGAAATTATCACTGCCAAGGGTTTGATCTCTCTTAAGTGATTACTTCATTTAAGAGGATTAAGGCTTTGTTTAGATAAACTTACAGCTTAATCAATTGATTATCATATAAGTGCTTAAGTATAAGCAATTTCTATTACATGAGATGAAATAAAGCCAAACTGTTTTCAAACAAGTTATTAGCTGTTTTCATAAGCTATCTTAGAGAGCATAGGAAAGAAGTTAGAAACAGCTTATGGACATGTCGTAAGCTGTTTAAATAACCTCTCCCAATTAGTCTCACAAGTTTATATGCTAGTATACAAATAAACCAATCCAAACAGGGCTATAGTGTAAACTTGCACAACTGTTAAATAACCTTACACTTTACTGTTTGAAGTGTGTTTGTCATTTTGGAGAATTCAAGACCCTCTGCAAGCAATTGTGTACTATTTTAATTTTAGCTTATACTCTCTTGTTAACATGGAGCCCGTGCTTCTTTCCATTTATCAGGTTACCCCAAGTGCTCATTTCCAGAATGACCTTGGATTGGATAGTTTGGATGCTGTAGAGATTGTGATGGCTCTTGAGGAAGAGTTTGGGTTTGAGATTCCTGATAATGAAGCAGACAAGATCAACTCTGTTAATCTTGCAGTTGACTTCATTGCATCTCATCCTCAGGCAAAGTAA
Protein sequence

>MS.gene033495.t1

MAARRTGLPLINYLRVQVDSRPLNHQSPFRLLPNFFLRRFSEEVRGTFLDKSEVTDRVVSCVKNFQKVDPSKVTPSAHFQNDLGLDSLDAVEIVMALEEEFGFEIPDNEADKINSVNLAVDFIASHPQAK