AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46857


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46857.t1 MTR_7g062720 94.697 132 7 0 1 132 1 132 7.04e-88 261
MS.gene46857.t1 MTR_4g037355 72.656 128 23 3 151 278 1 116 2.97e-56 180
MS.gene46857.t1 MTR_5g061150 62.500 120 45 0 27 146 17 136 2.11e-46 154
MS.gene46857.t1 MTR_4g112730 75.000 64 16 0 138 201 1 64 1.75e-26 101
MS.gene46857.t1 MTR_1g036690 63.014 73 17 2 271 343 5 67 7.96e-21 85.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 62 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGAGGCCCTTAACATTTC+TGG 0.105015 7.4:+46592906 MS.gene46857:CDS
GCATCTCAACACAACCATTT+TGG 0.150702 7.4:+46593482 MS.gene46857:CDS
TCTTAAGTGCTTCATTTATA+TGG 0.216688 7.4:-46593058 None:intergenic
GATGCTGATTATGATATTTA+TGG 0.234910 7.4:+46593830 MS.gene46857:CDS
ATCCAATCATACCTTGCTTT+TGG 0.252009 7.4:-46593164 None:intergenic
GATACTACTCCTTTGGATAT+TGG 0.253196 7.4:+46593860 MS.gene46857:CDS
TTTGTATACTTCAGAATTAT+AGG 0.281074 7.4:-46593222 None:intergenic
TGTTGAGATGCATTCACTTC+AGG 0.293409 7.4:-46593470 None:intergenic
TGCCATAAAAGAAGGAAATA+AGG 0.335057 7.4:+46592992 MS.gene46857:CDS
AGTTGTTTCCAGAAATGTTA+AGG 0.345031 7.4:-46592914 None:intergenic
CATTGTTCTGTTCAGCAATC+AGG 0.346195 7.4:-46593397 None:intergenic
GACCACGAGCGCTCCCAAAA+TGG 0.364677 7.4:-46593496 None:intergenic
CACCAGCAGGGCGAGCTTCA+TGG 0.368055 7.4:-46593436 None:intergenic
CGCGGTCGCGGTCGTGGTCG+TGG 0.378998 7.4:+46593530 MS.gene46857:CDS
GTTGTTTCCAGAAATGTTAA+GGG 0.399743 7.4:-46592913 None:intergenic
TCCCAAAAGCAAGGTATGAT+TGG 0.411264 7.4:+46593162 MS.gene46857:CDS
CTGGAAACAACTATTTGACT+TGG 0.414379 7.4:+46592925 MS.gene46857:CDS
TACTTAGCTGCTGAAGGAAA+TGG 0.418999 7.4:+46592966 MS.gene46857:CDS
TGAAAAGAATGAAAATGAAA+AGG 0.423636 7.4:+46593640 MS.gene46857:CDS
GTTGAGATGCATTCACTTCA+GGG 0.423894 7.4:-46593469 None:intergenic
TAAAGGTCAACCAAATGCTT+TGG 0.429910 7.4:-46593743 None:intergenic
GGTCATGCCCACAATCCTAA+TGG 0.437132 7.4:+46593575 MS.gene46857:CDS
CAGCAACAATACCGAGAAAA+GGG 0.437176 7.4:+46593341 MS.gene46857:CDS
AACCATGAAGCTCGCCCTGC+TGG 0.438159 7.4:+46593434 MS.gene46857:CDS
TGACATGGATACTACTCCTT+TGG 0.439894 7.4:+46593853 MS.gene46857:CDS
GGGAATGGAGCTACACCAGC+AGG 0.445287 7.4:-46593449 None:intergenic
GAAAAGAATGAAAATGAAAA+GGG 0.449828 7.4:+46593641 MS.gene46857:CDS
CGTGGTCGCGGTCGCGGTCG+TGG 0.450743 7.4:+46593524 MS.gene46857:CDS
CGTGGTCGTGGTCGCGGTCG+CGG 0.452026 7.4:+46593518 MS.gene46857:CDS
TCTCTCAAAACTTCACTTTG+AGG 0.457299 7.4:+46592890 MS.gene46857:CDS
ATGTCGTACTCCAAAGCATT+TGG 0.465557 7.4:+46593733 MS.gene46857:CDS
TTTGGGAGCGCTCGTGGTCG+TGG 0.467855 7.4:+46593500 MS.gene46857:CDS
TGAAAGATCCACTTGTGCTC+TGG 0.468533 7.4:+46593096 MS.gene46857:CDS
AGCGCTCGTGGTCGTGGTCG+TGG 0.471808 7.4:+46593506 MS.gene46857:CDS
TTTCTCGGTATTGTTGCTGC+AGG 0.477208 7.4:-46593337 None:intergenic
AATATTCATGGTCGTGGTCG+TGG 0.478042 7.4:+46593554 MS.gene46857:CDS
GCAGCAACAATACCGAGAAA+AGG 0.481447 7.4:+46593340 MS.gene46857:CDS
ACTCATTATGCTTATAAAGA+TGG 0.483040 7.4:+46593803 MS.gene46857:CDS
CGTGGTCGTGGAAATATTCA+TGG 0.484623 7.4:+46593542 MS.gene46857:CDS
CGTGGTCGTGGTCGTGGTCG+CGG 0.491270 7.4:+46593512 MS.gene46857:CDS
AGTTTATTCCAGAGCACAAG+TGG 0.512360 7.4:-46593104 None:intergenic
AAAGTATCTGTTATCGATGT+GGG 0.513971 7.4:+46593687 MS.gene46857:CDS
GATGCATTCACTTCAGGGAA+TGG 0.514758 7.4:-46593464 None:intergenic
TTGTTGCTGCAGGAGCATAT+TGG 0.522682 7.4:-46593327 None:intergenic
TAAGTACATTTCAGTATCTA+CGG 0.532057 7.4:-46592949 None:intergenic
TGGAAACAACTATTTGACTT+GGG 0.534823 7.4:+46592926 MS.gene46857:CDS
AATGGAGATGCCATAAAAGA+AGG 0.547076 7.4:+46592984 MS.gene46857:CDS
CGTGGAAATATTCATGGTCG+TGG 0.551910 7.4:+46593548 MS.gene46857:CDS
GAGCATATTGGATGCATGAA+AGG 0.556835 7.4:-46593315 None:intergenic
AAGAATGAAAATGAAAAGGG+TGG 0.569051 7.4:+46593644 MS.gene46857:CDS
GAAAGTATCTGTTATCGATG+TGG 0.574435 7.4:+46593686 MS.gene46857:CDS
GAAATGTACTTAGCTGCTGA+AGG 0.580070 7.4:+46592960 MS.gene46857:CDS
ACTTCTCAATTAGAATTGTG+TGG 0.587587 7.4:+46593248 MS.gene46857:CDS
AAGAAATCACCAATATCCAA+AGG 0.617484 7.4:-46593869 None:intergenic
TTATGATATTTATGGTGACA+TGG 0.623711 7.4:+46593838 MS.gene46857:CDS
CTTCATTTATATGGTGACGA+AGG 0.627090 7.4:-46593049 None:intergenic
CCATTATCCTCCCAAAAGCA+AGG 0.629135 7.4:+46593153 MS.gene46857:CDS
AGTATCTGTTATCGATGTGG+GGG 0.642580 7.4:+46593689 MS.gene46857:CDS
AAGTATCTGTTATCGATGTG+GGG 0.643578 7.4:+46593688 MS.gene46857:CDS
GGAATGGAGCTACACCAGCA+GGG 0.651331 7.4:-46593448 None:intergenic
AGCAACAATACCGAGAAAAG+GGG 0.658431 7.4:+46593342 MS.gene46857:CDS
CAAGTGGATCTTTCACAGTG+AGG 0.718603 7.4:-46593088 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAAAAAACAAAGGAAAAA+TGG + chr7.4:46593775-46593794 MS.gene46857:CDS 20.0%
!! GAAAAGAATGAAAATGAAAA+GGG + chr7.4:46593641-46593660 MS.gene46857:CDS 20.0%
!! TGAAAAGAATGAAAATGAAA+AGG + chr7.4:46593640-46593659 MS.gene46857:CDS 20.0%
!! TTTGTATACTTCAGAATTAT+AGG - chr7.4:46593225-46593244 None:intergenic 20.0%
!!! TTTCATTATTTTTCCACTTT+TGG - chr7.4:46593625-46593644 None:intergenic 20.0%
! ACTCATTATGCTTATAAAGA+TGG + chr7.4:46593803-46593822 MS.gene46857:CDS 25.0%
! TAAGTACATTTCAGTATCTA+CGG - chr7.4:46592952-46592971 None:intergenic 25.0%
! TCTTAAGTGCTTCATTTATA+TGG - chr7.4:46593061-46593080 None:intergenic 25.0%
! TTATGATATTTATGGTGACA+TGG + chr7.4:46593838-46593857 MS.gene46857:CDS 25.0%
!! GATGCTGATTATGATATTTA+TGG + chr7.4:46593830-46593849 MS.gene46857:CDS 25.0%
!!! TTTTTAGTGATTGCTGATAA+AGG - chr7.4:46593763-46593782 None:intergenic 25.0%
AAGAAATCACCAATATCCAA+AGG - chr7.4:46593872-46593891 None:intergenic 30.0%
AAGAATGAAAATGAAAAGGG+TGG + chr7.4:46593644-46593663 MS.gene46857:CDS 30.0%
ACTTCTCAATTAGAATTGTG+TGG + chr7.4:46593248-46593267 MS.gene46857:CDS 30.0%
CAGCAATCACTAAAAAACAA+AGG + chr7.4:46593767-46593786 MS.gene46857:CDS 30.0%
TGCCATAAAAGAAGGAAATA+AGG + chr7.4:46592992-46593011 MS.gene46857:CDS 30.0%
TGGTGAAAAAATAACAGATG+CGG + chr7.4:46593268-46593287 MS.gene46857:CDS 30.0%
! AAAGTATCTGTTATCGATGT+GGG + chr7.4:46593687-46593706 MS.gene46857:CDS 30.0%
! AGTTGTTTCCAGAAATGTTA+AGG - chr7.4:46592917-46592936 None:intergenic 30.0%
! GAATTTTCCATTAGGATTGT+GGG - chr7.4:46593585-46593604 None:intergenic 30.0%
! GTTGTTTCCAGAAATGTTAA+GGG - chr7.4:46592916-46592935 None:intergenic 30.0%
! TGAATTTTCCATTAGGATTG+TGG - chr7.4:46593586-46593605 None:intergenic 30.0%
! TGGAAACAACTATTTGACTT+GGG + chr7.4:46592926-46592945 MS.gene46857:CDS 30.0%
!! ATTTTTCAAACCCCTTTTCT+CGG - chr7.4:46593355-46593374 None:intergenic 30.0%
!! CATTATTTTTCCACTTTTGG+TGG - chr7.4:46593622-46593641 None:intergenic 30.0%
!!! TGCCTTATTTCCTTCTTTTA+TGG - chr7.4:46592997-46593016 None:intergenic 30.0%
AAGTATCTGTTATCGATGTG+GGG + chr7.4:46593688-46593707 MS.gene46857:CDS 35.0%
AATGGAGATGCCATAAAAGA+AGG + chr7.4:46592984-46593003 MS.gene46857:CDS 35.0%
CTGGAAACAACTATTTGACT+TGG + chr7.4:46592925-46592944 MS.gene46857:CDS 35.0%
GATACTACTCCTTTGGATAT+TGG + chr7.4:46593860-46593879 MS.gene46857:CDS 35.0%
TAAAGGTCAACCAAATGCTT+TGG - chr7.4:46593746-46593765 None:intergenic 35.0%
TCTCTCAAAACTTCACTTTG+AGG + chr7.4:46592890-46592909 MS.gene46857:CDS 35.0%
! ATCCAATCATACCTTGCTTT+TGG - chr7.4:46593167-46593186 None:intergenic 35.0%
! CATCTCAACACAACCATTTT+GGG + chr7.4:46593483-46593502 MS.gene46857:CDS 35.0%
! CTTCATTTATATGGTGACGA+AGG - chr7.4:46593052-46593071 None:intergenic 35.0%
!! GAAAGTATCTGTTATCGATG+TGG + chr7.4:46593686-46593705 MS.gene46857:CDS 35.0%
!! TCCAATCATACCTTGCTTTT+GGG - chr7.4:46593166-46593185 None:intergenic 35.0%
!! TCCACTTTTGGTGGAAAAAT+GGG - chr7.4:46593613-46593632 None:intergenic 35.0%
!! TTCCACTTTTGGTGGAAAAA+TGG - chr7.4:46593614-46593633 None:intergenic 35.0%
!!! TGCTTTTGCTTTTTGTTGCT+CGG - chr7.4:46593021-46593040 None:intergenic 35.0%
AGCAACAATACCGAGAAAAG+GGG + chr7.4:46593342-46593361 MS.gene46857:CDS 40.0%
AGTATCTGTTATCGATGTGG+GGG + chr7.4:46593689-46593708 MS.gene46857:CDS 40.0%
AGTTTATTCCAGAGCACAAG+TGG - chr7.4:46593107-46593126 None:intergenic 40.0%
CAGCAACAATACCGAGAAAA+GGG + chr7.4:46593341-46593360 MS.gene46857:CDS 40.0%
CATTGTTCTGTTCAGCAATC+AGG - chr7.4:46593400-46593419 None:intergenic 40.0%
GAAATGTACTTAGCTGCTGA+AGG + chr7.4:46592960-46592979 MS.gene46857:CDS 40.0%
GAGCATATTGGATGCATGAA+AGG - chr7.4:46593318-46593337 None:intergenic 40.0%
GTTGAGATGCATTCACTTCA+GGG - chr7.4:46593472-46593491 None:intergenic 40.0%
TACTTAGCTGCTGAAGGAAA+TGG + chr7.4:46592966-46592985 MS.gene46857:CDS 40.0%
TCCCAAAAGCAAGGTATGAT+TGG + chr7.4:46593162-46593181 MS.gene46857:CDS 40.0%
TGACATGGATACTACTCCTT+TGG + chr7.4:46593853-46593872 MS.gene46857:CDS 40.0%
TGTTGAGATGCATTCACTTC+AGG - chr7.4:46593473-46593492 None:intergenic 40.0%
! ATGTCGTACTCCAAAGCATT+TGG + chr7.4:46593733-46593752 MS.gene46857:CDS 40.0%
! GCATCTCAACACAACCATTT+TGG + chr7.4:46593482-46593501 MS.gene46857:CDS 40.0%
! TTTGAGGCCCTTAACATTTC+TGG + chr7.4:46592906-46592925 MS.gene46857:CDS 40.0%
!! AATCATACCTTGCTTTTGGG+AGG - chr7.4:46593163-46593182 None:intergenic 40.0%
!! CCACTTTTGGTGGAAAAATG+GGG - chr7.4:46593612-46593631 None:intergenic 40.0%
!!! GGGGTTCTGAATTTTCCATT+AGG - chr7.4:46593593-46593612 None:intergenic 40.0%
AATATTCATGGTCGTGGTCG+TGG + chr7.4:46593554-46593573 MS.gene46857:CDS 45.0%
CAAGTGGATCTTTCACAGTG+AGG - chr7.4:46593091-46593110 None:intergenic 45.0%
CCATTATCCTCCCAAAAGCA+AGG + chr7.4:46593153-46593172 MS.gene46857:CDS 45.0%
CGTGGAAATATTCATGGTCG+TGG + chr7.4:46593548-46593567 MS.gene46857:CDS 45.0%
CGTGGTCGTGGAAATATTCA+TGG + chr7.4:46593542-46593561 MS.gene46857:CDS 45.0%
GATGCATTCACTTCAGGGAA+TGG - chr7.4:46593467-46593486 None:intergenic 45.0%
GCAGCAACAATACCGAGAAA+AGG + chr7.4:46593340-46593359 MS.gene46857:CDS 45.0%
TGAAAGATCCACTTGTGCTC+TGG + chr7.4:46593096-46593115 MS.gene46857:CDS 45.0%
TTTCTCGGTATTGTTGCTGC+AGG - chr7.4:46593340-46593359 None:intergenic 45.0%
! TTGTTGCTGCAGGAGCATAT+TGG - chr7.4:46593330-46593349 None:intergenic 45.0%
!! CCCCATTTTTCCACCAAAAG+TGG + chr7.4:46593609-46593628 MS.gene46857:CDS 45.0%
!! CCTTGCTTTTGGGAGGATAA+TGG - chr7.4:46593156-46593175 None:intergenic 45.0%
GGTCATGCCCACAATCCTAA+TGG + chr7.4:46593575-46593594 MS.gene46857:CDS 50.0%
TGTTATCGATGTGGGGGCAA+AGG + chr7.4:46593695-46593714 MS.gene46857:CDS 50.0%
GATGTGGGGGCAAAGGTCAT+TGG + chr7.4:46593702-46593721 MS.gene46857:CDS 55.0%
GGAATGGAGCTACACCAGCA+GGG - chr7.4:46593451-46593470 None:intergenic 55.0%
!!! AACCATTTTGGGAGCGCTCG+TGG + chr7.4:46593494-46593513 MS.gene46857:CDS 55.0%
AACCATGAAGCTCGCCCTGC+TGG + chr7.4:46593434-46593453 MS.gene46857:CDS 60.0%
GACCACGAGCGCTCCCAAAA+TGG - chr7.4:46593499-46593518 None:intergenic 60.0%
GGGAATGGAGCTACACCAGC+AGG - chr7.4:46593452-46593471 None:intergenic 60.0%
CACCAGCAGGGCGAGCTTCA+TGG - chr7.4:46593439-46593458 None:intergenic 65.0%
!! TTTGGGAGCGCTCGTGGTCG+TGG + chr7.4:46593500-46593519 MS.gene46857:CDS 65.0%
AGCGCTCGTGGTCGTGGTCG+TGG + chr7.4:46593506-46593525 MS.gene46857:CDS 70.0%
CGTGGTCGTGGTCGTGGTCG+CGG + chr7.4:46593512-46593531 MS.gene46857:CDS 70.0%
CGTGGTCGTGGTCGCGGTCG+CGG + chr7.4:46593518-46593537 MS.gene46857:CDS 75.0%
! CGCGGTCGCGGTCGTGGTCG+TGG + chr7.4:46593530-46593549 MS.gene46857:CDS 80.0%
! CGTGGTCGCGGTCGCGGTCG+TGG + chr7.4:46593524-46593543 MS.gene46857:CDS 80.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 46592882 46593916 46592882 ID=MS.gene46857
chr7.4 mRNA 46592882 46593916 46592882 ID=MS.gene46857.t1;Parent=MS.gene46857
chr7.4 exon 46592882 46593916 46592882 ID=MS.gene46857.t1.exon1;Parent=MS.gene46857.t1
chr7.4 CDS 46592882 46593916 46592882 ID=cds.MS.gene46857.t1;Parent=MS.gene46857.t1
Gene Sequence

>MS.gene46857

ATGTCAAATCTCTCAAAACTTCACTTTGAGGCCCTTAACATTTCTGGAAACAACTATTTGACTTGGGCCGTAGATACTGAAATGTACTTAGCTGCTGAAGGAAATGGAGATGCCATAAAAGAAGGAAATAAGGCATCCGAGCAACAAAAAGCAAAAGCATTAATATTCCTTCGTCACCATATAAATGAAGCACTTAAGAATGAATACCTCACTGTGAAAGATCCACTTGTGCTCTGGAATAAACTAAAAGAAAGATATGAGCACTTGAAAGCCATTATCCTCCCAAAAGCAAGGTATGATTGGATGCACTTGCGCTTACAAGACTTTAAGTCTGTAACTGCCTATAATTCTGAAGTATACAAAATTACTTCTCAATTAGAATTGTGTGGTGAAAAAATAACAGATGCGGATCTGTTAGAGAAAACATTTTCAACCTTTCATGCATCCAATATGCTCCTGCAGCAACAATACCGAGAAAAGGGGTTTGAAAAATACTCTAATTTAATTTCTTGTCTCCTGATTGCTGAACAGAACAATGAGCTTCTAATGAAAAACCATGAAGCTCGCCCTGCTGGTGTAGCTCCATTCCCTGAAGTGAATGCATCTCAACACAACCATTTTGGGAGCGCTCGTGGTCGTGGTCGTGGTCGCGGTCGCGGTCGTGGTCGTGGAAATATTCATGGTCGTGGTCGTGGTCATGCCCACAATCCTAATGGAAAATTCAGAACCCCATTTTTCCACCAAAAGTGGAAAAATAATGAAAAGAATGAAAATGAAAAGGGTGGACAAAGTAGCAAAACAAATGAAAGTATCTGTTATCGATGTGGGGGCAAAGGTCATTGGTCTCGTACATGTCGTACTCCAAAGCATTTGGTTGACCTTTATCAGCAATCACTAAAAAACAAAGGAAAAATGGTTGAAACTCATTATGCTTATAAAGATGGTGATGATGCTGATTATGATATTTATGGTGACATGGATACTACTCCTTTGGATATTGGTGATTTCTTTGAAAATCAAAATGAAAAAAATTGA

Protein sequence

>MS.gene46857.t1

MSNLSKLHFEALNISGNNYLTWAVDTEMYLAAEGNGDAIKEGNKASEQQKAKALIFLRHHINEALKNEYLTVKDPLVLWNKLKERYEHLKAIILPKARYDWMHLRLQDFKSVTAYNSEVYKITSQLELCGEKITDADLLEKTFSTFHASNMLLQQQYREKGFEKYSNLISCLLIAEQNNELLMKNHEARPAGVAPFPEVNASQHNHFGSARGRGRGRGRGRGRGNIHGRGRGHAHNPNGKFRTPFFHQKWKNNEKNENEKGGQSSKTNESICYRCGGKGHWSRTCRTPKHLVDLYQQSLKNKGKMVETHYAYKDGDDADYDIYGDMDTTPLDIGDFFENQNEKN