AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017623


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017623.t1 MTR_5g028350 85.813 289 38 2 1 286 1 289 1.60e-170 473
MS.gene017623.t1 MTR_8g075400 86.760 287 11 2 1 287 14 273 1.07e-163 456
MS.gene017623.t1 MTR_8g075400 97.748 222 5 0 1 222 1 222 1.46e-158 442
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017623.t1 AT3G22660 64.236 288 96 3 2 288 12 293 3.01e-125 359

Find 69 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGCCTCCAAAGCCAAATT+TGG 0.135328 8.2:-29688057 None:intergenic
GCTGATACTACTAATGATTT+TGG 0.192046 8.2:+29688104 MS.gene017623:CDS
GATGTTAAGAATTCCAAATT+TGG 0.278385 8.2:+29688044 MS.gene017623:CDS
ATTATCTGAACCATCTAAAA+AGG 0.298870 8.2:+29687416 MS.gene017623:CDS
AGAAAGGGCCAAGCAGAAAA+AGG 0.337714 8.2:+29687818 MS.gene017623:CDS
TGTATCCATTCCACATTCTC+TGG 0.362791 8.2:-29687489 None:intergenic
AATTCCAAATTTGGCTTTGG+AGG 0.373337 8.2:+29688053 MS.gene017623:CDS
AAGAATTCCAAATTTGGCTT+TGG 0.378859 8.2:+29688050 MS.gene017623:CDS
CTGAAGAGAGAAGAAAGGCC+AGG 0.422247 8.2:+29687751 MS.gene017623:CDS
GAAAAGACCTGGAGTGTCTC+CGG 0.423295 8.2:+29687959 MS.gene017623:CDS
AGATAATCTCTTGGCCTCCC+TGG 0.430466 8.2:-29687769 None:intergenic
AGTCACAGAAATTAAAAGAA+AGG 0.442695 8.2:+29687802 MS.gene017623:CDS
GTGTCTCCGGGTGACCGATC+AGG 0.444973 8.2:+29687972 MS.gene017623:CDS
TAGTCTGCAGGCCTTAGAAA+AGG 0.445288 8.2:-29687645 None:intergenic
CTTTGAGAAACTTCAGTCAA+TGG 0.454306 8.2:+29687617 MS.gene017623:CDS
CGATGGCGCAGATAAGGCTT+TGG 0.456534 8.2:+29687899 MS.gene017623:CDS
TGCAGACTATTATGCTGAAA+TGG 0.457564 8.2:+29687659 MS.gene017623:CDS
CTGCTCTTGATCGATGTCAA+TGG 0.460523 8.2:-29687520 None:intergenic
GTCACAGAAATTAAAAGAAA+GGG 0.462057 8.2:+29687803 MS.gene017623:CDS
GGTAAGGCAAAGCAAGCCTT+TGG 0.462245 8.2:+29687996 MS.gene017623:CDS
TGGCTTCTTTCCCTTTCCAA+AGG 0.463981 8.2:-29688012 None:intergenic
TGCTGACGATGGCGCAGATA+AGG 0.473187 8.2:+29687893 MS.gene017623:CDS
TTTGAGAAACTTCAGTCAAT+GGG 0.475684 8.2:+29687618 MS.gene017623:CDS
ACATTGAATCTGTTAAGAAA+TGG 0.479309 8.2:+29687844 MS.gene017623:CDS
GAGGAAGTAAGAAGAGAAAG+AGG 0.489339 8.2:+29688153 MS.gene017623:CDS
GCAAAGCAAGCCTTTGGAAA+GGG 0.492131 8.2:+29688002 MS.gene017623:CDS
AATGATGATACAATGGTTGA+TGG 0.492459 8.2:+29687330 MS.gene017623:CDS
AACCTCTTTAGATAATCTCT+TGG 0.505477 8.2:-29687778 None:intergenic
TTACCTCCTGATCGGTCACC+CGG 0.505687 8.2:-29687978 None:intergenic
TTTGGCTTTGGAGGCAAGAA+GGG 0.507591 8.2:+29688062 MS.gene017623:CDS
CATAAGCTGGCCAGAGAATG+TGG 0.514747 8.2:+29687479 MS.gene017623:CDS
AGATAAGGCTTTGGACTTCG+AGG 0.515894 8.2:+29687908 MS.gene017623:CDS
AGATTGAATGGAGCTGCCTC+TGG 0.515931 8.2:+29687305 None:intergenic
GGCATTGGAGGGTACTAGAC+AGG 0.518118 8.2:+29687593 MS.gene017623:CDS
TCTTCTGATTCTGATTCAGA+TGG 0.519325 8.2:-29687384 None:intergenic
ATTTGGCTTTGGAGGCAAGA+AGG 0.519353 8.2:+29688061 MS.gene017623:CDS
GCTTTGCCTTACCTCCTGAT+CGG 0.526130 8.2:-29687986 None:intergenic
AGAGGCTGAAGAGAGAAGAA+AGG 0.526636 8.2:+29687746 MS.gene017623:CDS
GATGCTCTATTAGATAAACT+TGG 0.532375 8.2:+29687453 MS.gene017623:CDS
AAAAGACCTGGAGTGTCTCC+GGG 0.535827 8.2:+29687960 MS.gene017623:CDS
ATTAGCAGAGAAGCAGAAGA+TGG 0.537363 8.2:+29687722 MS.gene017623:CDS
AGTCTGCAGGCCTTAGAAAA+GGG 0.538151 8.2:-29687644 None:intergenic
CGGTCAAAGAAGAAAAGACC+TGG 0.554286 8.2:+29687948 MS.gene017623:CDS
ATTTCAGCATAATAGTCTGC+AGG 0.562441 8.2:-29687657 None:intergenic
TGAAGAGAGAAGAAAGGCCA+GGG 0.563172 8.2:+29687752 MS.gene017623:CDS
CATTGACATCGATCAAGAGC+AGG 0.572289 8.2:+29687521 MS.gene017623:CDS
ATAAACTTGGAGACATAAGC+TGG 0.573791 8.2:+29687466 MS.gene017623:CDS
GGGTGACCGATCAGGAGGTA+AGG 0.574615 8.2:+29687980 MS.gene017623:CDS
CGGTCACCCGGAGACACTCC+AGG 0.576723 8.2:-29687966 None:intergenic
GGCCAAGAGATTATCTAAAG+AGG 0.579968 8.2:+29687776 MS.gene017623:CDS
GGCAAAGCAAGCCTTTGGAA+AGG 0.581107 8.2:+29688001 MS.gene017623:CDS
AGAGAAGCAGAAGATGGTAG+AGG 0.581371 8.2:+29687728 MS.gene017623:CDS
AGTAGATGTTAATGATGACT+TGG 0.588825 8.2:+29687545 MS.gene017623:CDS
TTGAATCTGTTAAGAAATGG+AGG 0.588933 8.2:+29687847 MS.gene017623:CDS
TTTGGACTTCGAGGACGGAA+AGG 0.593158 8.2:+29687917 MS.gene017623:CDS
AGGAAGCAGAGGCAACAAAG+TGG 0.602796 8.2:+29687867 MS.gene017623:CDS
AAGGCTTTGGACTTCGAGGA+CGG 0.606211 8.2:+29687912 MS.gene017623:CDS
GGAAGCAGAGGCAACAAAGT+GGG 0.615514 8.2:+29687868 MS.gene017623:CDS
CAAAGTGGGTTTGCTGACGA+TGG 0.619387 8.2:+29687882 MS.gene017623:CDS
TTAAGAAATGGAGGAAGCAG+AGG 0.621715 8.2:+29687856 MS.gene017623:CDS
CATTGACTGAAGTTTCTCAA+AGG 0.625618 8.2:-29687616 None:intergenic
TCTCCGGGTGACCGATCAGG+AGG 0.644315 8.2:+29687975 MS.gene017623:CDS
GCTGGCCAGAGAATGTGGAA+TGG 0.647233 8.2:+29687484 MS.gene017623:CDS
AGAGAGAAGAAAGGCCAGGG+AGG 0.661477 8.2:+29687755 MS.gene017623:CDS
TCTGGTTAATGATGATACAA+TGG 0.663757 8.2:+29687323 MS.gene017623:CDS
ATTGTATCATCATTAACCAG+AGG 0.690136 8.2:-29687321 None:intergenic
TGAAGCTGAGTATTTGAGTG+AGG 0.691291 8.2:+29687353 MS.gene017623:CDS
AGGACGGAAAGGTGTTCGAG+CGG 0.718016 8.2:+29687928 MS.gene017623:CDS
GGTGAAGACAGATAGCCACA+TGG 0.738846 8.2:+29687680 MS.gene017623:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACATTGAATCTGTTAAGAAA+TGG + chr8.2:29687844-29687863 MS.gene017623:CDS 25.0%
! AGTCACAGAAATTAAAAGAA+AGG + chr8.2:29687802-29687821 MS.gene017623:CDS 25.0%
! ATTATCTGAACCATCTAAAA+AGG + chr8.2:29687416-29687435 MS.gene017623:CDS 25.0%
! GATGTTAAGAATTCCAAATT+TGG + chr8.2:29688044-29688063 MS.gene017623:CDS 25.0%
! GTCACAGAAATTAAAAGAAA+GGG + chr8.2:29687803-29687822 MS.gene017623:CDS 25.0%
!! TTATTTACTGCCTTTTTAGA+TGG - chr8.2:29687429-29687448 None:intergenic 25.0%
!! TTCTTAACATCTCTTTTCTT+TGG - chr8.2:29688035-29688054 None:intergenic 25.0%
AACCTCTTTAGATAATCTCT+TGG - chr8.2:29687781-29687800 None:intergenic 30.0%
AATGATGATACAATGGTTGA+TGG + chr8.2:29687330-29687349 MS.gene017623:CDS 30.0%
ACATGGAAAAAGTGAAAAGT+CGG + chr8.2:29687697-29687716 MS.gene017623:CDS 30.0%
AGTAGATGTTAATGATGACT+TGG + chr8.2:29687545-29687564 MS.gene017623:CDS 30.0%
ATTGTATCATCATTAACCAG+AGG - chr8.2:29687324-29687343 None:intergenic 30.0%
GATGCTCTATTAGATAAACT+TGG + chr8.2:29687453-29687472 MS.gene017623:CDS 30.0%
TCTGGTTAATGATGATACAA+TGG + chr8.2:29687323-29687342 MS.gene017623:CDS 30.0%
TTGAATCTGTTAAGAAATGG+AGG + chr8.2:29687847-29687866 MS.gene017623:CDS 30.0%
TTTGAGAAACTTCAGTCAAT+GGG + chr8.2:29687618-29687637 MS.gene017623:CDS 30.0%
! AAGAATTCCAAATTTGGCTT+TGG + chr8.2:29688050-29688069 MS.gene017623:CDS 30.0%
! GATACTACTAATGATTTTGG+TGG + chr8.2:29688107-29688126 MS.gene017623:CDS 30.0%
! GCTGATACTACTAATGATTT+TGG + chr8.2:29688104-29688123 MS.gene017623:CDS 30.0%
ATAAACTTGGAGACATAAGC+TGG + chr8.2:29687466-29687485 MS.gene017623:CDS 35.0%
ATTTCAGCATAATAGTCTGC+AGG - chr8.2:29687660-29687679 None:intergenic 35.0%
TCTTCTGATTCTGATTCAGA+TGG - chr8.2:29687387-29687406 None:intergenic 35.0%
TGCAGACTATTATGCTGAAA+TGG + chr8.2:29687659-29687678 MS.gene017623:CDS 35.0%
! CATTGACTGAAGTTTCTCAA+AGG - chr8.2:29687619-29687638 None:intergenic 35.0%
! CTTTGAGAAACTTCAGTCAA+TGG + chr8.2:29687617-29687636 MS.gene017623:CDS 35.0%
! TTTGGTGGCTTCAGTAAAAA+GGG + chr8.2:29688122-29688141 MS.gene017623:CDS 35.0%
!! AATTCCAAATTTGGCTTTGG+AGG + chr8.2:29688053-29688072 MS.gene017623:CDS 35.0%
!! TTTTGGTGGCTTCAGTAAAA+AGG + chr8.2:29688121-29688140 MS.gene017623:CDS 35.0%
!!! GACTTTTCACTTTTTCCATG+TGG - chr8.2:29687698-29687717 None:intergenic 35.0%
ATTAGCAGAGAAGCAGAAGA+TGG + chr8.2:29687722-29687741 MS.gene017623:CDS 40.0%
GAGGAAGTAAGAAGAGAAAG+AGG + chr8.2:29688153-29688172 MS.gene017623:CDS 40.0%
GGCCAAGAGATTATCTAAAG+AGG + chr8.2:29687776-29687795 MS.gene017623:CDS 40.0%
TGAAGCTGAGTATTTGAGTG+AGG + chr8.2:29687353-29687372 MS.gene017623:CDS 40.0%
TGTATCCATTCCACATTCTC+TGG - chr8.2:29687492-29687511 None:intergenic 40.0%
TTAAGAAATGGAGGAAGCAG+AGG + chr8.2:29687856-29687875 MS.gene017623:CDS 40.0%
! AATGTCGTCCTTTTTCTGCT+TGG - chr8.2:29687829-29687848 None:intergenic 40.0%
! AGAGCTTGCATTTTACACTC+AGG + chr8.2:29687572-29687591 MS.gene017623:CDS 40.0%
! TGCATTTTACACTCAGGCAT+TGG + chr8.2:29687578-29687597 MS.gene017623:CDS 40.0%
!! TTCAGTAAAAAGGGTGCTGT+TGG + chr8.2:29688131-29688150 MS.gene017623:CDS 40.0%
!!! ATTTTACACTCAGGCATTGG+AGG + chr8.2:29687581-29687600 MS.gene017623:CDS 40.0%
!!! TTTTACACTCAGGCATTGGA+GGG + chr8.2:29687582-29687601 MS.gene017623:CDS 40.0%
AGAAAGGGCCAAGCAGAAAA+AGG + chr8.2:29687818-29687837 MS.gene017623:CDS 45.0%
AGAGAAGCAGAAGATGGTAG+AGG + chr8.2:29687728-29687747 MS.gene017623:CDS 45.0%
AGAGGCTGAAGAGAGAAGAA+AGG + chr8.2:29687746-29687765 MS.gene017623:CDS 45.0%
AGTCTGCAGGCCTTAGAAAA+GGG - chr8.2:29687647-29687666 None:intergenic 45.0%
CATTGACATCGATCAAGAGC+AGG + chr8.2:29687521-29687540 MS.gene017623:CDS 45.0%
CGGTCAAAGAAGAAAAGACC+TGG + chr8.2:29687948-29687967 MS.gene017623:CDS 45.0%
CTGCTCTTGATCGATGTCAA+TGG - chr8.2:29687523-29687542 None:intergenic 45.0%
CTTGCCTCCAAAGCCAAATT+TGG - chr8.2:29688060-29688079 None:intergenic 45.0%
TAGTCTGCAGGCCTTAGAAA+AGG - chr8.2:29687648-29687667 None:intergenic 45.0%
TGAAGAGAGAAGAAAGGCCA+GGG + chr8.2:29687752-29687771 MS.gene017623:CDS 45.0%
TGGCTTCTTTCCCTTTCCAA+AGG - chr8.2:29688015-29688034 None:intergenic 45.0%
! CAATGGGTCTCCCTTTTCTA+AGG + chr8.2:29687634-29687653 MS.gene017623:CDS 45.0%
! GCAAAGCAAGCCTTTGGAAA+GGG + chr8.2:29688002-29688021 MS.gene017623:CDS 45.0%
!! AGATAAGGCTTTGGACTTCG+AGG + chr8.2:29687908-29687927 MS.gene017623:CDS 45.0%
!! AGTAAAAAGGGTGCTGTTGG+AGG + chr8.2:29688134-29688153 MS.gene017623:CDS 45.0%
!! ATTTGGCTTTGGAGGCAAGA+AGG + chr8.2:29688061-29688080 MS.gene017623:CDS 45.0%
!! TTTGGCTTTGGAGGCAAGAA+GGG + chr8.2:29688062-29688081 MS.gene017623:CDS 45.0%
AGATAATCTCTTGGCCTCCC+TGG - chr8.2:29687772-29687791 None:intergenic 50.0%
AGGAAGCAGAGGCAACAAAG+TGG + chr8.2:29687867-29687886 MS.gene017623:CDS 50.0%
CATAAGCTGGCCAGAGAATG+TGG + chr8.2:29687479-29687498 MS.gene017623:CDS 50.0%
CTGAAGAGAGAAGAAAGGCC+AGG + chr8.2:29687751-29687770 MS.gene017623:CDS 50.0%
GCTTTGCCTTACCTCCTGAT+CGG - chr8.2:29687989-29688008 None:intergenic 50.0%
GGAAGCAGAGGCAACAAAGT+GGG + chr8.2:29687868-29687887 MS.gene017623:CDS 50.0%
GGTAAGGCAAAGCAAGCCTT+TGG + chr8.2:29687996-29688015 MS.gene017623:CDS 50.0%
GGTGAAGACAGATAGCCACA+TGG + chr8.2:29687680-29687699 MS.gene017623:CDS 50.0%
TTTGGACTTCGAGGACGGAA+AGG + chr8.2:29687917-29687936 MS.gene017623:CDS 50.0%
! AAAAGACCTGGAGTGTCTCC+GGG + chr8.2:29687960-29687979 MS.gene017623:CDS 50.0%
! GAAAAGACCTGGAGTGTCTC+CGG + chr8.2:29687959-29687978 MS.gene017623:CDS 50.0%
! GGCAAAGCAAGCCTTTGGAA+AGG + chr8.2:29688001-29688020 MS.gene017623:CDS 50.0%
!! AAGGCTTTGGACTTCGAGGA+CGG + chr8.2:29687912-29687931 MS.gene017623:CDS 50.0%
!! CAAAGTGGGTTTGCTGACGA+TGG + chr8.2:29687882-29687901 MS.gene017623:CDS 50.0%
AGAGAGAAGAAAGGCCAGGG+AGG + chr8.2:29687755-29687774 MS.gene017623:CDS 55.0%
CGATGGCGCAGATAAGGCTT+TGG + chr8.2:29687899-29687918 MS.gene017623:CDS 55.0%
GCTGGCCAGAGAATGTGGAA+TGG + chr8.2:29687484-29687503 MS.gene017623:CDS 55.0%
TGCTGACGATGGCGCAGATA+AGG + chr8.2:29687893-29687912 MS.gene017623:CDS 55.0%
TTACCTCCTGATCGGTCACC+CGG - chr8.2:29687981-29688000 None:intergenic 55.0%
!! AGGACGGAAAGGTGTTCGAG+CGG + chr8.2:29687928-29687947 MS.gene017623:CDS 55.0%
!! GGCATTGGAGGGTACTAGAC+AGG + chr8.2:29687593-29687612 MS.gene017623:CDS 55.0%
GGGTGACCGATCAGGAGGTA+AGG + chr8.2:29687980-29687999 MS.gene017623:CDS 60.0%
GTGTCTCCGGGTGACCGATC+AGG + chr8.2:29687972-29687991 MS.gene017623:CDS 65.0%
TCTCCGGGTGACCGATCAGG+AGG + chr8.2:29687975-29687994 MS.gene017623:CDS 65.0%
CGGTCACCCGGAGACACTCC+AGG - chr8.2:29687969-29687988 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 29687312 29688178 29687312 ID=MS.gene017623
chr8.2 mRNA 29687312 29688178 29687312 ID=MS.gene017623.t1;Parent=MS.gene017623
chr8.2 exon 29687312 29688178 29687312 ID=MS.gene017623.t1.exon1;Parent=MS.gene017623.t1
chr8.2 CDS 29687312 29688178 29687312 ID=cds.MS.gene017623.t1;Parent=MS.gene017623.t1
Gene Sequence

>MS.gene017623

ATGGAGCTGCCTCTGGTTAATGATGATACAATGGTTGATGGTGAAGCTGAGTATTTGAGTGAGGAAATGTCACCATCTGAATCAGAATCAGAAGAAGATGTGAAATTATCTGAACCATCTAAAAAGGCAGTAAATAACAGAGATGCTCTATTAGATAAACTTGGAGACATAAGCTGGCCAGAGAATGTGGAATGGATACACAAACTCTCCATTGACATCGATCAAGAGCAGGAAGTAGATGTTAATGATGACTTGGCACGAGAGCTTGCATTTTACACTCAGGCATTGGAGGGTACTAGACAGGCCTTTGAGAAACTTCAGTCAATGGGTCTCCCTTTTCTAAGGCCTGCAGACTATTATGCTGAAATGGTGAAGACAGATAGCCACATGGAAAAAGTGAAAAGTCGGCTATTAGCAGAGAAGCAGAAGATGGTAGAGGCTGAAGAGAGAAGAAAGGCCAGGGAGGCCAAGAGATTATCTAAAGAGGTTCAGTCACAGAAATTAAAAGAAAGGGCCAAGCAGAAAAAGGACGACATTGAATCTGTTAAGAAATGGAGGAAGCAGAGGCAACAAAGTGGGTTTGCTGACGATGGCGCAGATAAGGCTTTGGACTTCGAGGACGGAAAGGTGTTCGAGCGGTCAAAGAAGAAAAGACCTGGAGTGTCTCCGGGTGACCGATCAGGAGGTAAGGCAAAGCAAGCCTTTGGAAAGGGAAAGAAGCCAAAGAAAAGAGATGTTAAGAATTCCAAATTTGGCTTTGGAGGCAAGAAGGGTTTGAAGAAGCAGAATACAGCTGATACTACTAATGATTTTGGTGGCTTCAGTAAAAAGGGTGCTGTTGGAGGAAGTAAGAAGAGAAAGAGGTAA

Protein sequence

>MS.gene017623.t1

MELPLVNDDTMVDGEAEYLSEEMSPSESESEEDVKLSEPSKKAVNNRDALLDKLGDISWPENVEWIHKLSIDIDQEQEVDVNDDLARELAFYTQALEGTRQAFEKLQSMGLPFLRPADYYAEMVKTDSHMEKVKSRLLAEKQKMVEAEERRKAREAKRLSKEVQSQKLKERAKQKKDDIESVKKWRKQRQQSGFADDGADKALDFEDGKVFERSKKKRPGVSPGDRSGGKAKQAFGKGKKPKKRDVKNSKFGFGGKKGLKKQNTADTTNDFGGFSKKGAVGGSKKRKR