AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60978


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60978.t1 MTR_8g067080 96.316 190 5 2 1 189 78 266 1.63e-126 363
MS.gene60978.t1 MTR_8g067080 96.316 190 5 2 1 189 78 266 1.86e-126 363
MS.gene60978.t1 MTR_8g471110 96.316 190 5 2 1 189 78 266 1.86e-126 363
MS.gene60978.t1 MTR_8g067090 65.426 188 56 3 1 188 78 256 3.23e-68 214
MS.gene60978.t1 MTR_8g471120 65.426 188 56 3 1 188 78 256 3.23e-68 214
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60978.t1 AT4G17890 53.368 193 77 4 1 187 81 266 9.72e-58 187
MS.gene60978.t1 AT4G17890 53.368 193 77 4 1 187 81 266 9.84e-58 187
MS.gene60978.t1 AT5G46750 51.099 182 76 6 1 179 78 249 5.41e-49 164
MS.gene60978.t1 AT2G35210 57.823 147 52 5 1 146 78 215 2.67e-43 149
MS.gene60978.t1 AT2G35210 57.823 147 52 5 1 146 78 215 7.71e-43 148

Find 46 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATAATTTGAAGAAGCCTAT+TGG 0.314657 8.1:+37457708 MS.gene60978:CDS
CAGTCTGCCCAAGGGGCTAA+TGG 0.359359 8.1:+37457570 MS.gene60978:CDS
ACTGGAGCAGGTAGTTCTTC+AGG 0.365053 8.1:-37457991 None:intergenic
CAACTTAAAATGATGAGCTT+TGG 0.368238 8.1:+37457372 None:intergenic
CTTATACAACTCTGCAGCTC+TGG 0.375637 8.1:-37457472 None:intergenic
ATACCTTTCTAGTGAGCTTA+CGG 0.393241 8.1:-37457767 None:intergenic
CTTAAAATGATGAGCTTTGG+AGG 0.403579 8.1:+37457375 None:intergenic
GTAATTGTCGATGATGAAAC+TGG 0.409274 8.1:-37458009 None:intergenic
GCTTCTTCTCAGTCTGCCCA+AGG 0.433404 8.1:+37457561 MS.gene60978:CDS
CAGGAAGTCCATTAGCCCCT+TGG 0.435979 8.1:-37457578 None:intergenic
CAATCATCTGAGTTGAATCC+TGG 0.436426 8.1:+37458093 MS.gene60978:CDS
TCGGACTTCGGAATGGATAG+TGG 0.446142 8.1:+37458172 MS.gene60978:CDS
CTGGAGGTTCTAATTGTAAC+CGG 0.468159 8.1:+37458112 MS.gene60978:CDS
CAGGATTCAACTCAGATGAT+TGG 0.468242 8.1:-37458092 None:intergenic
GCTTCATTTGTCTTAACATC+AGG 0.470602 8.1:-37457597 None:intergenic
AGGAAGTCCATTAGCCCCTT+GGG 0.475467 8.1:-37457577 None:intergenic
TACCTTTCTAGTGAGCTTAC+GGG 0.477122 8.1:-37457766 None:intergenic
AAGAAGCTTGATGATGACTT+TGG 0.488401 8.1:-37458148 None:intergenic
AGCAGCAGGTGGTGCAGACA+AGG 0.494559 8.1:-37457541 None:intergenic
TACTCAAACCGAGATGTTAG+AGG 0.501153 8.1:-37458057 None:intergenic
CTTCAGGCTTCTGCTCATAG+AGG 0.503976 8.1:-37457975 None:intergenic
TGCTCATAGAGGGACTCACT+TGG 0.513882 8.1:-37457964 None:intergenic
CTTCTTCTCAGTCTGCCCAA+GGG 0.514814 8.1:+37457562 MS.gene60978:CDS
TTCAGGCTTCTGCTCATAGA+GGG 0.515074 8.1:-37457974 None:intergenic
CTGGGCCACCTCTAACATCT+CGG 0.520981 8.1:+37458049 MS.gene60978:CDS
GTATAAGCAACTGCTTTCAA+AGG 0.539296 8.1:+37457488 MS.gene60978:CDS
CAGCATGGATGGAACGGAGA+TGG 0.552839 8.1:+37457426 MS.gene60978:CDS
TTTAGGCAGCATGGATGGAA+CGG 0.554584 8.1:+37457420 MS.gene60978:CDS
CGGTTACAATTAGAACCTCC+AGG 0.555370 8.1:-37458111 None:intergenic
AGCCCGTAAGCTCACTAGAA+AGG 0.562686 8.1:+37457764 MS.gene60978:CDS
GATGTTAGAGGTGGCCCAGA+AGG 0.566829 8.1:-37458045 None:intergenic
GTCGATGATGAAACTGGAGC+AGG 0.582848 8.1:-37458003 None:intergenic
ACTGCAGTATATGAAGCTCT+AGG 0.588166 8.1:-37457681 None:intergenic
GCAGACTGAGAAGAAGCAGC+AGG 0.590397 8.1:-37457555 None:intergenic
TGAGCTTTGGAGGAAACAGT+AGG 0.590889 8.1:+37457385 MS.gene60978:CDS
TGAAGCCCCAATTGAAACTG+TGG 0.592577 8.1:+37457614 MS.gene60978:CDS
TTCTTCTCAGTCTGCCCAAG+GGG 0.595491 8.1:+37457563 MS.gene60978:CDS
TCTAGGTGAAGAAGTGCTCT+CGG 0.602612 8.1:-37457664 None:intergenic
CTTTGGTACAGACACGTGAC+CGG 0.608627 8.1:-37458131 None:intergenic
TGCTAAAAGTATGTCTGAGG+AGG 0.617131 8.1:+37457515 MS.gene60978:CDS
AGTTGCTAAAAGTATGTCTG+AGG 0.630145 8.1:+37457512 MS.gene60978:CDS
GAGCTTTGGAGGAAACAGTA+GGG 0.630802 8.1:+37457386 MS.gene60978:CDS
GAACGGAGATGGTAAAGTAG+AGG 0.635673 8.1:+37457437 MS.gene60978:CDS
GACTGAGAAGAAGCAGCAGG+TGG 0.640960 8.1:-37457552 None:intergenic
TCAAACCGAGATGTTAGAGG+TGG 0.684970 8.1:-37458054 None:intergenic
TCATCTGAGTTGAATCCTGG+AGG 0.702282 8.1:+37458096 MS.gene60978:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTATGTTCTCTATTTTAATT+TGG + chr8.1:37457899-37457918 MS.gene60978:intron 20.0%
!!! TCTTGTTCTCTATTTTAATT+TGG + chr8.1:37457848-37457867 MS.gene60978:intron 20.0%
!!! TTGGTGATATAAAATTTAAC+TGG + chr8.1:37457867-37457886 MS.gene60978:intron 20.0%
! AATAATTTGAAGAAGCCTAT+TGG + chr8.1:37457708-37457727 MS.gene60978:CDS 25.0%
! CATTGCATTATGATAATAAC+TGG - chr8.1:37457941-37457960 None:intergenic 25.0%
!!! TTTTTTCCACAGTTTCAATT+GGG - chr8.1:37457623-37457642 None:intergenic 25.0%
! TTGTTACAGAAAGTTCCTTT+TGG + chr8.1:37457815-37457834 MS.gene60978:intron 30.0%
! TTTTTCCACAGTTTCAATTG+GGG - chr8.1:37457622-37457641 None:intergenic 30.0%
!!! GTTTTTTCCACAGTTTCAAT+TGG - chr8.1:37457624-37457643 None:intergenic 30.0%
ACAAAAAACAACTTGCCTTC+TGG + chr8.1:37458030-37458049 MS.gene60978:CDS 35.0%
CAAAAAACAACTTGCCTTCT+GGG + chr8.1:37458031-37458050 MS.gene60978:CDS 35.0%
CAAGATACTGATGAACCAAA+AGG - chr8.1:37457833-37457852 None:intergenic 35.0%
GCTTCATTTGTCTTAACATC+AGG - chr8.1:37457600-37457619 None:intergenic 35.0%
GTAATTGTCGATGATGAAAC+TGG - chr8.1:37458012-37458031 None:intergenic 35.0%
GTATAAGCAACTGCTTTCAA+AGG + chr8.1:37457488-37457507 MS.gene60978:CDS 35.0%
! AGTTGCTAAAAGTATGTCTG+AGG + chr8.1:37457512-37457531 MS.gene60978:CDS 35.0%
! ATACCTTTCTAGTGAGCTTA+CGG - chr8.1:37457770-37457789 None:intergenic 35.0%
! GTCATCATCAAGCTTCTTTT+CGG + chr8.1:37458153-37458172 MS.gene60978:CDS 35.0%
!! AAGAAGCTTGATGATGACTT+TGG - chr8.1:37458151-37458170 None:intergenic 35.0%
AAAAAAACTGGTAAGAGCGG+GGG + chr8.1:37457735-37457754 MS.gene60978:CDS 40.0%
ACTGCAGTATATGAAGCTCT+AGG - chr8.1:37457684-37457703 None:intergenic 40.0%
CAAAAAAACTGGTAAGAGCG+GGG + chr8.1:37457734-37457753 MS.gene60978:CDS 40.0%
CAGGATTCAACTCAGATGAT+TGG - chr8.1:37458095-37458114 None:intergenic 40.0%
CCAAAAAAACTGGTAAGAGC+GGG + chr8.1:37457733-37457752 MS.gene60978:CDS 40.0%
CCTATTGGAGCCAAAAAAAC+TGG + chr8.1:37457723-37457742 MS.gene60978:CDS 40.0%
GCCAAAAAAACTGGTAAGAG+CGG + chr8.1:37457732-37457751 MS.gene60978:CDS 40.0%
TACTCAAACCGAGATGTTAG+AGG - chr8.1:37458060-37458079 None:intergenic 40.0%
TGAAACTGTGGAAAAAACCG+TGG + chr8.1:37457626-37457645 MS.gene60978:CDS 40.0%
! CAAGTTTTCTTTAGGCAGCA+TGG + chr8.1:37457411-37457430 MS.gene60978:CDS 40.0%
! CAATCATCTGAGTTGAATCC+TGG + chr8.1:37458093-37458112 MS.gene60978:CDS 40.0%
! CTGGAGGTTCTAATTGTAAC+CGG + chr8.1:37458112-37458131 MS.gene60978:CDS 40.0%
! GTAGGGCACAAGTTTTCTTT+AGG + chr8.1:37457403-37457422 MS.gene60978:CDS 40.0%
! TACCTTTCTAGTGAGCTTAC+GGG - chr8.1:37457769-37457788 None:intergenic 40.0%
! TCAAGCTTCTTTTCGGACTT+CGG + chr8.1:37458160-37458179 MS.gene60978:CDS 40.0%
! TGCTAAAAGTATGTCTGAGG+AGG + chr8.1:37457515-37457534 MS.gene60978:CDS 40.0%
! TTTTCTTTAGGCAGCATGGA+TGG + chr8.1:37457415-37457434 MS.gene60978:CDS 40.0%
!!! CCAGTTTTTTTGGCTCCAAT+AGG - chr8.1:37457726-37457745 None:intergenic 40.0%
AAAAAACTGGTAAGAGCGGG+GGG + chr8.1:37457736-37457755 MS.gene60978:CDS 45.0%
CGGTTACAATTAGAACCTCC+AGG - chr8.1:37458114-37458133 None:intergenic 45.0%
CTTATACAACTCTGCAGCTC+TGG - chr8.1:37457475-37457494 None:intergenic 45.0%
GAACGGAGATGGTAAAGTAG+AGG + chr8.1:37457437-37457456 MS.gene60978:CDS 45.0%
TCAAACCGAGATGTTAGAGG+TGG - chr8.1:37458057-37458076 None:intergenic 45.0%
TGAAGCCCCAATTGAAACTG+TGG + chr8.1:37457614-37457633 MS.gene60978:CDS 45.0%
TTCAGGCTTCTGCTCATAGA+GGG - chr8.1:37457977-37457996 None:intergenic 45.0%
TTTAGGCAGCATGGATGGAA+CGG + chr8.1:37457420-37457439 MS.gene60978:CDS 45.0%
! CTTCTTTTCGGACTTCGGAA+TGG + chr8.1:37458165-37458184 MS.gene60978:CDS 45.0%
! TCATCTGAGTTGAATCCTGG+AGG + chr8.1:37458096-37458115 MS.gene60978:CDS 45.0%
!! GAGCTTTGGAGGAAACAGTA+GGG + chr8.1:37457386-37457405 MS.gene60978:CDS 45.0%
!! TCTAGGTGAAGAAGTGCTCT+CGG - chr8.1:37457667-37457686 None:intergenic 45.0%
!! TGAGCTTTGGAGGAAACAGT+AGG + chr8.1:37457385-37457404 MS.gene60978:CDS 45.0%
!!! CCCGCTCTTACCAGTTTTTT+TGG - chr8.1:37457736-37457755 None:intergenic 45.0%
ACTGGAGCAGGTAGTTCTTC+AGG - chr8.1:37457994-37458013 None:intergenic 50.0%
AGCCCGTAAGCTCACTAGAA+AGG + chr8.1:37457764-37457783 MS.gene60978:CDS 50.0%
AGGAAGTCCATTAGCCCCTT+GGG - chr8.1:37457580-37457599 None:intergenic 50.0%
CTTCAGGCTTCTGCTCATAG+AGG - chr8.1:37457978-37457997 None:intergenic 50.0%
CTTCTTCTCAGTCTGCCCAA+GGG + chr8.1:37457562-37457581 MS.gene60978:CDS 50.0%
CTTTGGTACAGACACGTGAC+CGG - chr8.1:37458134-37458153 None:intergenic 50.0%
GTCGATGATGAAACTGGAGC+AGG - chr8.1:37458006-37458025 None:intergenic 50.0%
TGCTCATAGAGGGACTCACT+TGG - chr8.1:37457967-37457986 None:intergenic 50.0%
TTCTTCTCAGTCTGCCCAAG+GGG + chr8.1:37457563-37457582 MS.gene60978:CDS 50.0%
!! GAAGTGCTCTCGGTCTTTTC+TGG - chr8.1:37457657-37457676 None:intergenic 50.0%
!!! GGTCTTTTCTGGCTTCTCCA+CGG - chr8.1:37457646-37457665 None:intergenic 50.0%
CAGCATGGATGGAACGGAGA+TGG + chr8.1:37457426-37457445 MS.gene60978:CDS 55.0%
CAGGAAGTCCATTAGCCCCT+TGG - chr8.1:37457581-37457600 None:intergenic 55.0%
CTGGGCCACCTCTAACATCT+CGG + chr8.1:37458049-37458068 MS.gene60978:CDS 55.0%
GACTGAGAAGAAGCAGCAGG+TGG - chr8.1:37457555-37457574 None:intergenic 55.0%
GATGTTAGAGGTGGCCCAGA+AGG - chr8.1:37458048-37458067 None:intergenic 55.0%
GCAGACTGAGAAGAAGCAGC+AGG - chr8.1:37457558-37457577 None:intergenic 55.0%
GCTTCTTCTCAGTCTGCCCA+AGG + chr8.1:37457561-37457580 MS.gene60978:CDS 55.0%
AGCAGCAGGTGGTGCAGACA+AGG - chr8.1:37457544-37457563 None:intergenic 60.0%
CAGTCTGCCCAAGGGGCTAA+TGG + chr8.1:37457570-37457589 MS.gene60978:CDS 60.0%
ACTGGTAAGAGCGGGGGGCT+TGG + chr8.1:37457741-37457760 MS.gene60978:CDS 65.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 37457384 37458191 37457384 ID=MS.gene60978
chr8.1 mRNA 37457384 37458191 37457384 ID=MS.gene60978.t1;Parent=MS.gene60978
chr8.1 exon 37457384 37457785 37457384 ID=MS.gene60978.t1.exon1;Parent=MS.gene60978.t1
chr8.1 CDS 37457384 37457785 37457384 ID=cds.MS.gene60978.t1;Parent=MS.gene60978.t1
chr8.1 exon 37457964 37458191 37457964 ID=MS.gene60978.t1.exon2;Parent=MS.gene60978.t1
chr8.1 CDS 37457964 37458191 37457964 ID=cds.MS.gene60978.t1;Parent=MS.gene60978.t1
Gene Sequence

>MS.gene60978

ATGAGCTTTGGAGGAAACAGTAGGGCACAAGTTTTCTTTAGGCAGCATGGATGGAACGGAGATGGTAAAGTAGAGGCAAAGTATACATCCAGAGCTGCAGAGTTGTATAAGCAACTGCTTTCAAAGGAAGTTGCTAAAAGTATGTCTGAGGAGGCTGCCTTGTCTGCACCACCTGCTGCTTCTTCTCAGTCTGCCCAAGGGGCTAATGGACTTCCTGATGTTAAGACAAATGAAGCCCCAATTGAAACTGTGGAAAAAACCGTGGAGAAGCCAGAAAAGACCGAGAGCACTTCTTCACCTAGAGCTTCATATACTGCAGTTTCGAATAATTTGAAGAAGCCTATTGGAGCCAAAAAAACTGGTAAGAGCGGGGGGCTTGGAGCCCGTAAGCTCACTAGAAAGGTATGCAAATAGTTATCTTTGATTAAAGATTGTTACAGAAAGTTCCTTTTGGTTCATCAGTATCTTGTTCTCTATTTTAATTTGGTGATATAAAATTTAACTGGTTATTTTTTGTATGTTCTCTATTTTAATTTGGTGATATAAAATTTTAACCAGTTATTATCATAATGCAATGCAGCCAAGTGAGTCCCTCTATGAGCAGAAGCCTGAAGAACTACCTGCTCCAGTTTCATCATCGACAATTACAAAAAACAACTTGCCTTCTGGGCCACCTCTAACATCTCGGTTTGAGTATACAGAAGATGTCCAATCATCTGAGTTGAATCCTGGAGGTTCTAATTGTAACCGGTCACGTGTCTGTACCAAAGTCATCATCAAGCTTCTTTTCGGACTTCGGAATGGATAG

Protein sequence

>MS.gene60978.t1

MSFGGNSRAQVFFRQHGWNGDGKVEAKYTSRAAELYKQLLSKEVAKSMSEEAALSAPPAASSQSAQGANGLPDVKTNEAPIETVEKTVEKPEKTESTSSPRASYTAVSNNLKKPIGAKKTGKSGGLGARKLTRKPSESLYEQKPEELPAPVSSSTITKNNLPSGPPLTSRFEYTEDVQSSELNPGGSNCNRSRVCTKVIIKLLFGLRNG