AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene87121


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene87121.t1 MTR_0064s0160 68.720 211 63 2 32 239 234 444 1.84e-98 294
MS.gene87121.t1 MTR_1g061330 69.231 208 58 3 32 235 172 377 1.01e-95 285
MS.gene87121.t1 MTR_5g048160 58.209 201 67 6 32 217 193 391 3.76e-66 210
MS.gene87121.t1 MTR_0115s0020 56.500 200 69 7 34 217 201 398 4.50e-63 202
MS.gene87121.t1 MTR_5g097330 28.042 189 127 5 31 218 223 403 1.22e-14 72.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 42 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAAGATATCTTCAGGTTTC+TGG 0.094666 7.4:+63109267 MS.gene87121:CDS
CATTTCTCTAATCCCTTTAC+AGG 0.173221 7.4:-63109072 None:intergenic
TGGTAACTTTATGAGGATTT+TGG 0.244298 7.4:-63108481 None:intergenic
TTTGGGTGATGAAAGATTAT+TGG 0.255893 7.4:+63109103 MS.gene87121:CDS
TAGAGAAATGGTTTGATGTT+TGG 0.304726 7.4:+63109085 MS.gene87121:CDS
ATGGGAGTAATAGGTTTCTT+TGG 0.307329 7.4:+63109196 MS.gene87121:CDS
AATAAGAGCTGCTAGATATA+TGG 0.316809 7.4:+63109302 MS.gene87121:CDS
GAATTAGAATGCTCAATCTT+TGG 0.332900 7.4:-63108982 None:intergenic
AGAGAAATGGTTTGATGTTT+GGG 0.342077 7.4:+63109086 MS.gene87121:CDS
CAATTGCTGGTAACTTTATG+AGG 0.343221 7.4:-63108488 None:intergenic
ACATGGTTGATGAACGGTTT+AGG 0.361566 7.4:+63108947 MS.gene87121:CDS
GTCATTGTTTATCCTGTAAA+GGG 0.361651 7.4:+63109060 MS.gene87121:CDS
CAGTGATTTATAAGCTTGTT+GGG 0.370830 7.4:+63109169 MS.gene87121:CDS
CCAGTGATTTATAAGCTTGT+TGG 0.381944 7.4:+63109168 MS.gene87121:CDS
GCAAATCCATTTGCAAATCA+TGG 0.393739 7.4:+63108523 MS.gene87121:CDS
TGGAAATATAAGATATCTTC+AGG 0.405673 7.4:+63109260 MS.gene87121:CDS
TTGGGTGATGAAAGATTATT+GGG 0.410457 7.4:+63109104 MS.gene87121:CDS
CTGTAAAGGGATTAGAGAAA+TGG 0.411920 7.4:+63109073 MS.gene87121:CDS
ATGAAAGATTATTGGGATGA+AGG 0.412972 7.4:+63109111 MS.gene87121:CDS
TGTCATTGTTTATCCTGTAA+AGG 0.431563 7.4:+63109059 MS.gene87121:CDS
ATTATTGGGATGAAGGGTCT+TGG 0.438909 7.4:+63109118 MS.gene87121:CDS
TGGATCAAGTTATATAGTAT+TGG 0.438963 7.4:+63109138 MS.gene87121:CDS
TGAGAAATTGTTGTCATTGG+TGG 0.444567 7.4:+63108881 MS.gene87121:CDS
TTGTGAGAAATTGTTGTCAT+TGG 0.448499 7.4:+63108878 MS.gene87121:CDS
GAGAAATTGTTGTCATTGGT+GGG 0.458222 7.4:+63108882 MS.gene87121:CDS
AGCTAACCATGATTTGCAAA+TGG 0.467521 7.4:-63108529 None:intergenic
TTGGTGTTGTATGAAGTTGA+TGG 0.475663 7.4:+63109237 MS.gene87121:CDS
GAAAGATAGCAATGAGAGGT+TGG 0.477079 7.4:+63109218 MS.gene87121:CDS
ATACTATCAGATTCATCAAA+AGG 0.487770 7.4:-63109033 None:intergenic
GAAGAACCCCAAATATCAAA+AGG 0.492126 7.4:-63108841 None:intergenic
ATTGAGCATTCTAATTCCTC+AGG 0.497942 7.4:+63108988 MS.gene87121:CDS
TTTGATGAATCTGATAGTAT+TGG 0.502831 7.4:+63109036 MS.gene87121:CDS
AGCTTATAAATCACTGGCAC+AGG 0.536304 7.4:-63109162 None:intergenic
TGAAAGATTATTGGGATGAA+GGG 0.540379 7.4:+63109112 MS.gene87121:CDS
CCAACAAGCTTATAAATCAC+TGG 0.548782 7.4:-63109168 None:intergenic
CTTCAAAGAGGAAATGAAAG+TGG 0.549958 7.4:+63109339 MS.gene87121:CDS
AGAAATTGTTGTCATTGGTG+GGG 0.553459 7.4:+63108883 MS.gene87121:CDS
CCCCAAATATCAAAAGGAAG+AGG 0.561584 7.4:-63108835 None:intergenic
CATTTGACATGGTTGATGAA+CGG 0.564625 7.4:+63108941 MS.gene87121:CDS
GTGTTGTATGAAGTTGATGG+TGG 0.574427 7.4:+63109240 MS.gene87121:CDS
AGTCTTGTTTCACTTCAAAG+AGG 0.582727 7.4:+63109327 MS.gene87121:CDS
TTTGGAAAGATAGCAATGAG+AGG 0.639164 7.4:+63109214 MS.gene87121:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAAAACTATATAACTCA+AGG - chr7.4:63108780-63108799 None:intergenic 15.0%
!! TAGTAATTAGTAATAAATTG+AGG - chr7.4:63108567-63108586 None:intergenic 15.0%
!!! ATAGTTTTAATTCAAATTCT+TGG + chr7.4:63108788-63108807 MS.gene87121:intron 15.0%
!! AAATATTGGACTGAAATAAT+GGG + chr7.4:63108753-63108772 MS.gene87121:intron 20.0%
!! TAAATATTGGACTGAAATAA+TGG + chr7.4:63108752-63108771 MS.gene87121:intron 20.0%
!! TTATTTCAGTCCAATATTTA+TGG - chr7.4:63108752-63108771 None:intergenic 20.0%
!!! AGAAGAAATAATATGCTTTT+TGG - chr7.4:63108694-63108713 None:intergenic 20.0%
!!! GAAGAAATAATATGCTTTTT+GGG - chr7.4:63108693-63108712 None:intergenic 20.0%
! ACAATTCTGACCATAAATAT+TGG + chr7.4:63108739-63108758 MS.gene87121:intron 25.0%
! ATACTATCAGATTCATCAAA+AGG - chr7.4:63109036-63109055 None:intergenic 25.0%
! TGGAAATATAAGATATCTTC+AGG + chr7.4:63109260-63109279 MS.gene87121:CDS 25.0%
! TGGATCAAGTTATATAGTAT+TGG + chr7.4:63109138-63109157 MS.gene87121:CDS 25.0%
! TTTGATGAATCTGATAGTAT+TGG + chr7.4:63109036-63109055 MS.gene87121:CDS 25.0%
!! ATTTTGGATACTAAATCTTG+TGG - chr7.4:63108468-63108487 None:intergenic 25.0%
!! TCAATGTTTTTCTTGTAGTT+TGG + chr7.4:63109365-63109384 MS.gene87121:CDS 25.0%
!!! GGTTTTATTGATGGTAATAT+AGG + chr7.4:63108904-63108923 MS.gene87121:CDS 25.0%
!!! GTTTTAATTCAAATTCTTGG+AGG + chr7.4:63108791-63108810 MS.gene87121:intron 25.0%
AATAAGAGCTGCTAGATATA+TGG + chr7.4:63109302-63109321 MS.gene87121:CDS 30.0%
AGAGAAATGGTTTGATGTTT+GGG + chr7.4:63109086-63109105 MS.gene87121:CDS 30.0%
ATGAAAGATTATTGGGATGA+AGG + chr7.4:63109111-63109130 MS.gene87121:CDS 30.0%
CAGAATTGTATTCATAAGGT+GGG - chr7.4:63108728-63108747 None:intergenic 30.0%
CTTACATTTCACATCTTTCT+TGG + chr7.4:63108655-63108674 MS.gene87121:intron 30.0%
GAATTAGAATGCTCAATCTT+TGG - chr7.4:63108985-63109004 None:intergenic 30.0%
GTCATTGTTTATCCTGTAAA+GGG + chr7.4:63109060-63109079 MS.gene87121:CDS 30.0%
TAGAGAAATGGTTTGATGTT+TGG + chr7.4:63109085-63109104 MS.gene87121:CDS 30.0%
TCAGAATTGTATTCATAAGG+TGG - chr7.4:63108729-63108748 None:intergenic 30.0%
TGAAAGATTATTGGGATGAA+GGG + chr7.4:63109112-63109131 MS.gene87121:CDS 30.0%
TGACTAAAAGATGTTCTTGT+TGG - chr7.4:63108605-63108624 None:intergenic 30.0%
TGGTCAGAATTGTATTCATA+AGG - chr7.4:63108732-63108751 None:intergenic 30.0%
TGTCATTGTTTATCCTGTAA+AGG + chr7.4:63109059-63109078 MS.gene87121:CDS 30.0%
TTGGGTGATGAAAGATTATT+GGG + chr7.4:63109104-63109123 MS.gene87121:CDS 30.0%
TTGTGAGAAATTGTTGTCAT+TGG + chr7.4:63108878-63108897 MS.gene87121:CDS 30.0%
TTTGGGTGATGAAAGATTAT+TGG + chr7.4:63109103-63109122 MS.gene87121:CDS 30.0%
! ACCTCTTCCTTTTGATATTT+GGG + chr7.4:63108834-63108853 MS.gene87121:CDS 30.0%
! ATAAGATATCTTCAGGTTTC+TGG + chr7.4:63109267-63109286 MS.gene87121:CDS 30.0%
! CAGTGATTTATAAGCTTGTT+GGG + chr7.4:63109169-63109188 MS.gene87121:CDS 30.0%
! TACCTCTTCCTTTTGATATT+TGG + chr7.4:63108833-63108852 MS.gene87121:CDS 30.0%
! TGGTAACTTTATGAGGATTT+TGG - chr7.4:63108484-63108503 None:intergenic 30.0%
!! CATTTTGATAACTCAATTGC+TGG - chr7.4:63108504-63108523 None:intergenic 30.0%
!!! ATAAGCTTGTTGGGTTTTAT+GGG + chr7.4:63109178-63109197 MS.gene87121:CDS 30.0%
!!! TATAAGCTTGTTGGGTTTTA+TGG + chr7.4:63109177-63109196 MS.gene87121:CDS 30.0%
!!! TGTTGTTTTAGCATTTGACA+TGG + chr7.4:63108930-63108949 MS.gene87121:CDS 30.0%
!!! TGTTTTAAAACATTCACCTG+AGG - chr7.4:63109007-63109026 None:intergenic 30.0%
AGAAATTGTTGTCATTGGTG+GGG + chr7.4:63108883-63108902 MS.gene87121:CDS 35.0%
ATGGGAGTAATAGGTTTCTT+TGG + chr7.4:63109196-63109215 MS.gene87121:CDS 35.0%
ATTGAGCATTCTAATTCCTC+AGG + chr7.4:63108988-63109007 MS.gene87121:CDS 35.0%
CAATTGCTGGTAACTTTATG+AGG - chr7.4:63108491-63108510 None:intergenic 35.0%
CATTTCTCTAATCCCTTTAC+AGG - chr7.4:63109075-63109094 None:intergenic 35.0%
CCAACAAGCTTATAAATCAC+TGG - chr7.4:63109171-63109190 None:intergenic 35.0%
CCAGTGATTTATAAGCTTGT+TGG + chr7.4:63109168-63109187 MS.gene87121:CDS 35.0%
CTGTAAAGGGATTAGAGAAA+TGG + chr7.4:63109073-63109092 MS.gene87121:CDS 35.0%
CTTCAAAGAGGAAATGAAAG+TGG + chr7.4:63109339-63109358 MS.gene87121:CDS 35.0%
GAAGAACCCCAAATATCAAA+AGG - chr7.4:63108844-63108863 None:intergenic 35.0%
GAGAAATTGTTGTCATTGGT+GGG + chr7.4:63108882-63108901 MS.gene87121:CDS 35.0%
GCAAATCCATTTGCAAATCA+TGG + chr7.4:63108523-63108542 MS.gene87121:CDS 35.0%
TGAGAAATTGTTGTCATTGG+TGG + chr7.4:63108881-63108900 MS.gene87121:CDS 35.0%
TTTGGAAAGATAGCAATGAG+AGG + chr7.4:63109214-63109233 MS.gene87121:CDS 35.0%
! AGCTAACCATGATTTGCAAA+TGG - chr7.4:63108532-63108551 None:intergenic 35.0%
! ATTCGTAGACCTTTTCTTTG+TGG + chr7.4:63108624-63108643 MS.gene87121:intron 35.0%
! CCTCTTCCTTTTGATATTTG+GGG + chr7.4:63108835-63108854 MS.gene87121:CDS 35.0%
!! AGTCTTGTTTCACTTCAAAG+AGG + chr7.4:63109327-63109346 MS.gene87121:CDS 35.0%
!! CATTTGACATGGTTGATGAA+CGG + chr7.4:63108941-63108960 MS.gene87121:CDS 35.0%
!! TTGGGTTTTATGGGAGTAAT+AGG + chr7.4:63109187-63109206 MS.gene87121:CDS 35.0%
!! TTGGTGTTGTATGAAGTTGA+TGG + chr7.4:63109237-63109256 MS.gene87121:CDS 35.0%
!!! GTTTTGAGACCACAAAGAAA+AGG - chr7.4:63108636-63108655 None:intergenic 35.0%
AGCTTATAAATCACTGGCAC+AGG - chr7.4:63109165-63109184 None:intergenic 40.0%
ATTATTGGGATGAAGGGTCT+TGG + chr7.4:63109118-63109137 MS.gene87121:CDS 40.0%
CCCCAAATATCAAAAGGAAG+AGG - chr7.4:63108838-63108857 None:intergenic 40.0%
GAAAGATAGCAATGAGAGGT+TGG + chr7.4:63109218-63109237 MS.gene87121:CDS 40.0%
! ATGATCCTCTTTTGAACCTG+GGG + chr7.4:63109391-63109410 MS.gene87121:CDS 40.0%
! CATGATCCTCTTTTGAACCT+GGG + chr7.4:63109390-63109409 MS.gene87121:CDS 40.0%
! TCATGATCCTCTTTTGAACC+TGG + chr7.4:63109389-63109408 MS.gene87121:CDS 40.0%
!! ACATGGTTGATGAACGGTTT+AGG + chr7.4:63108947-63108966 MS.gene87121:CDS 40.0%
!! GTGTTGTATGAAGTTGATGG+TGG + chr7.4:63109240-63109259 MS.gene87121:CDS 40.0%
!!! CATTGGTGGGGTTTTATTGA+TGG + chr7.4:63108895-63108914 MS.gene87121:CDS 40.0%
! TGATCCTCTTTTGAACCTGG+GGG + chr7.4:63109392-63109411 MS.gene87121:CDS 45.0%
TACTCCCCCAGGTTCAAAAG+AGG - chr7.4:63109399-63109418 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 63108453 63109419 63108453 ID=MS.gene87121
chr7.4 mRNA 63108453 63109419 63108453 ID=MS.gene87121.t1;Parent=MS.gene87121
chr7.4 exon 63108453 63108544 63108453 ID=MS.gene87121.t1.exon1;Parent=MS.gene87121.t1
chr7.4 CDS 63108453 63108544 63108453 ID=cds.MS.gene87121.t1;Parent=MS.gene87121.t1
chr7.4 exon 63108792 63109419 63108792 ID=MS.gene87121.t1.exon2;Parent=MS.gene87121.t1
chr7.4 CDS 63108792 63109419 63108792 ID=cds.MS.gene87121.t1;Parent=MS.gene87121.t1
Gene Sequence

>MS.gene87121

ATGGAGCGTTTGCCACAAGATTTAGTATCCAAAATCCTCATAAAGTTACCAGCAATTGAGTTATCAAAATGCAAATCCATTTGCAAATCATGGTTAGCTCTCATAACTAATCCTCAATTTATTACTAATTACTATATTATCTACAACAACCAACAAGAACATCTTTTAGTCATTCGTAGACCTTTTCTTTGTGGTCTCAAAACTTACATTTCACATCTTTCTTGGAATTTTAATGATCCCAAAAAGCATATTATTTCTTCTGAGATTTTCAACCCACCTTATGAATACAATTCTGACCATAAATATTGGACTGAAATAATGGGTCCTTGAGTTATATAGTTTTAATTCAAATTCTTGGAGGAAACTTGATGCTGAAGATTTACCTCTTCCTTTTGATATTTGGGGTTCTTCTAGAATTTACACTTTTGTGAGAAATTGTTGTCATTGGTGGGGTTTTATTGATGGTAATATAGGAGATGTTGTTTTAGCATTTGACATGGTTGATGAACGGTTTAGGAAGATAAAAGTGCCAAAGATTGAGCATTCTAATTCCTCAGGTGAATGTTTTAAAACATTAGTACCTTTTGATGAATCTGATAGTATTGGTGTCATTGTTTATCCTGTAAAGGGATTAGAGAAATGGTTTGATGTTTGGGTGATGAAAGATTATTGGGATGAAGGGTCTTGGATCAAGTTATATAGTATTGGACCTGTGCCAGTGATTTATAAGCTTGTTGGGTTTTATGGGAGTAATAGGTTTCTTTGGAAAGATAGCAATGAGAGGTTGGTGTTGTATGAAGTTGATGGTGGAAATATAAGATATCTTCAGGTTTCTGGAAAGTATGATTCAATAAGAGCTGCTAGATATATGGAAAGTCTTGTTTCACTTCAAAGAGGAAATGAAAGTGGTCATCAATGTTTTTCTTGTAGTTTGGTTCATGATCCTCTTTTGAACCTGGGGGAGTAA

Protein sequence

>MS.gene87121.t1

MERLPQDLVSKILIKLPAIELSKCKSICKSCFNSNSWRKLDAEDLPLPFDIWGSSRIYTFVRNCCHWWGFIDGNIGDVVLAFDMVDERFRKIKVPKIEHSNSSGECFKTLVPFDESDSIGVIVYPVKGLEKWFDVWVMKDYWDEGSWIKLYSIGPVPVIYKLVGFYGSNRFLWKDSNERLVLYEVDGGNIRYLQVSGKYDSIRAARYMESLVSLQRGNESGHQCFSCSLVHDPLLNLGE