AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76303


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76303.t1 MTR_1g110840 94.805 231 12 0 1 231 1 231 6.73e-166 457
MS.gene76303.t1 MTR_6g453130 93.074 231 16 0 1 231 1 231 2.69e-163 450
MS.gene76303.t1 MTR_6g054080 89.610 231 24 0 1 231 1 231 2.92e-157 435
MS.gene76303.t1 MTR_6g054150 88.745 231 26 0 1 231 1 231 5.18e-156 432
MS.gene76303.t1 MTR_6g018270 54.598 174 58 7 1 168 1 159 3.82e-61 193
MS.gene76303.t1 MTR_7g007010 43.172 227 111 7 1 223 1 213 2.20e-54 176
MS.gene76303.t1 MTR_4g095600 55.462 119 49 2 3 119 1 117 1.39e-45 152
MS.gene76303.t1 MTR_5g015880 44.379 169 83 5 3 165 1 164 3.98e-44 148
MS.gene76303.t1 MTR_1g106420 44.094 127 64 2 3 124 1 125 6.28e-35 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76303.t1 AT3G02550 40.088 227 123 5 1 225 1 216 1.53e-52 171
MS.gene76303.t1 AT1G68510 54.422 147 55 3 1 145 1 137 2.28e-52 169
MS.gene76303.t1 AT1G67100 54.167 144 58 3 1 144 1 136 3.66e-49 161
MS.gene76303.t1 AT3G49940 52.846 123 56 1 3 125 1 121 7.50e-45 150
MS.gene76303.t1 AT5G67420 55.046 109 47 1 3 111 1 107 6.04e-43 145
MS.gene76303.t1 AT5G67420 55.046 109 47 1 3 111 1 107 6.04e-43 145
MS.gene76303.t1 AT4G37540 56.881 109 45 1 3 111 1 107 9.38e-43 145

Find 61 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGGGCGCTTGGCTTATTT+TGG 0.165756 1.1:+78250181 MS.gene76303:CDS
AAGAATACCAACATGGAAAT+TGG 0.166066 1.1:+78250480 MS.gene76303:CDS
ACCGGTTCGGCCATAAAATT+TGG 0.172606 1.1:-78249752 None:intergenic
GTGGCATGCCCTTGGGATTC+AGG 0.191592 1.1:-78249718 None:intergenic
ATGGCGTATATCATAGGTTT+TGG 0.254539 1.1:-78250334 None:intergenic
TGCTGAGAATCAAGTGAATT+TGG 0.279066 1.1:+78250545 MS.gene76303:CDS
CATAAAATTTGGCAAGGAAA+AGG 0.365131 1.1:-78249741 None:intergenic
CCATGTTGGTATTCTTCAAA+AGG 0.367139 1.1:-78250473 None:intergenic
AGAATACCAACATGGAAATT+GGG 0.374565 1.1:+78250481 MS.gene76303:CDS
TGCCACATGGCGTATATCAT+AGG 0.386203 1.1:-78250340 None:intergenic
CTTTGATTGCCAATCAACTA+AGG 0.392207 1.1:+78250581 MS.gene76303:CDS
GACTGAACCAACTCGTGGCT+TGG 0.415502 1.1:-78250427 None:intergenic
ACTGAACCAACTCGTGGCTT+GGG 0.424285 1.1:-78250426 None:intergenic
GTGAATTTGGAACTCACTCT+TGG 0.424885 1.1:+78250558 MS.gene76303:CDS
GCAACTGATCCACTCAAGGC+AGG 0.443950 1.1:-78249695 None:intergenic
TGGCATGCCCTTGGGATTCA+GGG 0.444879 1.1:-78249717 None:intergenic
AAAACTCAATTCAAAAGAGC+TGG 0.446487 1.1:+78250390 MS.gene76303:CDS
ATTGATGGGCAGACATCATC+AGG 0.455052 1.1:+78250282 MS.gene76303:CDS
GCAGTTGAAGCTGTGCTGAC+TGG 0.456964 1.1:+78250231 MS.gene76303:CDS
AGATTGGTGAATCCCACATA+TGG 0.458590 1.1:+78250162 MS.gene76303:CDS
GGAAAAGGGTGGCATGCCCT+TGG 0.468834 1.1:-78249726 None:intergenic
TAAGCCAAGCGCCCCATATG+TGG 0.471835 1.1:-78250175 None:intergenic
CATGTTGGTATTCTTCAAAA+GGG 0.477135 1.1:-78250472 None:intergenic
GAAAAGGGTGGCATGCCCTT+GGG 0.479104 1.1:-78249725 None:intergenic
GGAGATTGAGCAAACCGGTT+CGG 0.494518 1.1:-78249765 None:intergenic
ATAAAATTTGGCAAGGAAAA+GGG 0.500583 1.1:-78249740 None:intergenic
AATCATCACTACAACCTTTG+CGG 0.504650 1.1:-78249660 None:intergenic
GATTGGTGAATCCCACATAT+GGG 0.508471 1.1:+78250163 MS.gene76303:CDS
GTACGAGGCAGCTGCTAGAT+TGG 0.509244 1.1:+78250146 MS.gene76303:CDS
GATATACGCCATGTGGCAAA+AGG 0.516720 1.1:+78250345 MS.gene76303:CDS
AATCCCACATATGGGGCGCT+TGG 0.518707 1.1:+78250171 MS.gene76303:CDS
GGTGAGGAGATTGAGCAAAC+CGG 0.524508 1.1:-78249770 None:intergenic
TCATCAAGCCCTGCCTTGAG+TGG 0.538225 1.1:+78249686 MS.gene76303:CDS
GTACCAATGTGGACATCAAA+GGG 0.546635 1.1:+78250367 MS.gene76303:CDS
TTTCCCTTTGATGTCCACAT+TGG 0.551024 1.1:-78250370 None:intergenic
GGTACCAATGTGGACATCAA+AGG 0.551224 1.1:+78250366 MS.gene76303:CDS
GAATACCAACATGGAAATTG+GGG 0.561319 1.1:+78250482 MS.gene76303:CDS
CTGAAGCCCAAGCCACGAGT+TGG 0.576033 1.1:+78250420 MS.gene76303:CDS
TTCGGCCATAAAATTTGGCA+AGG 0.576036 1.1:-78249747 None:intergenic
AGTCTCCCCAATTTCCATGT+TGG 0.576332 1.1:-78250487 None:intergenic
TAATGAAGTTGAGTTGCAAT+GGG 0.583194 1.1:+78249626 None:intergenic
TTTGATTGCCAATCAACTAA+GGG 0.586746 1.1:+78250582 MS.gene76303:CDS
AAGCCAAGCGCCCCATATGT+GGG 0.589682 1.1:-78250174 None:intergenic
AAACTCAATTCAAAAGAGCT+GGG 0.590181 1.1:+78250391 MS.gene76303:CDS
CAACTGATCCACTCAAGGCA+GGG 0.595554 1.1:-78249694 None:intergenic
ATCAGTTGCCCTGAATCCCA+AGG 0.599742 1.1:+78249709 MS.gene76303:CDS
ATAATGAAGTTGAGTTGCAA+TGG 0.608858 1.1:+78249625 None:intergenic
ACGAGTTGGTTCAGTCGACT+CGG 0.622355 1.1:+78250434 MS.gene76303:CDS
CAGGGCAACTGATCCACTCA+AGG 0.625744 1.1:-78249699 None:intergenic
GGGTGTCGTGTGCTCCGCAA+AGG 0.627575 1.1:+78249646 MS.gene76303:CDS
ATTGGTGAATCCCACATATG+GGG 0.640018 1.1:+78250164 MS.gene76303:CDS
TTTGATTGGTAGCATTGGTG+AGG 0.643249 1.1:-78249786 None:intergenic
AAATTGGGGAGACTTCATCA+AGG 0.644743 1.1:+78250496 MS.gene76303:CDS
AATTGGGGAGACTTCATCAA+GGG 0.644822 1.1:+78250497 MS.gene76303:CDS
AATCAAAATCATAATCCACC+AGG 0.664735 1.1:+78249802 MS.gene76303:CDS
TCAGTTGCCCTGAATCCCAA+GGG 0.669183 1.1:+78249710 MS.gene76303:CDS
GAGTCGACTGAACCAACTCG+TGG 0.679210 1.1:-78250432 None:intergenic
AACCTATGATATACGCCATG+TGG 0.679816 1.1:+78250338 MS.gene76303:CDS
AAATTTGGCAAGGAAAAGGG+TGG 0.680872 1.1:-78249737 None:intergenic
GTTTAAATCATTGTTGTACG+AGG 0.684324 1.1:+78250131 MS.gene76303:CDS
TGTGGCAAAAGGTACCAATG+TGG 0.731996 1.1:+78250356 MS.gene76303:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GAATCTATGAAAAGATTTTA+TGG - chr1.1:78250039-78250058 None:intergenic 20.0%
!!! GTTTAATTTATGATCCATAA+CGG - chr1.1:78249998-78250017 None:intergenic 20.0%
! ATAAAATTTGGCAAGGAAAA+GGG - chr1.1:78249743-78249762 None:intergenic 25.0%
!! ACAGTTTTACAATGATTGAT+GGG + chr1.1:78250268-78250287 MS.gene76303:CDS 25.0%
AAAACTCAATTCAAAAGAGC+TGG + chr1.1:78250390-78250409 MS.gene76303:CDS 30.0%
AAACTCAATTCAAAAGAGCT+GGG + chr1.1:78250391-78250410 MS.gene76303:CDS 30.0%
AAGAATACCAACATGGAAAT+TGG + chr1.1:78250480-78250499 MS.gene76303:CDS 30.0%
AATCAAAATCATAATCCACC+AGG + chr1.1:78249802-78249821 MS.gene76303:CDS 30.0%
AGAATACCAACATGGAAATT+GGG + chr1.1:78250481-78250500 MS.gene76303:CDS 30.0%
ATGGAACATAAATGAGACAT+TGG - chr1.1:78250020-78250039 None:intergenic 30.0%
CATAAAATTTGGCAAGGAAA+AGG - chr1.1:78249744-78249763 None:intergenic 30.0%
CATGTTGGTATTCTTCAAAA+GGG - chr1.1:78250475-78250494 None:intergenic 30.0%
GTTTAAATCATTGTTGTACG+AGG + chr1.1:78250131-78250150 MS.gene76303:CDS 30.0%
TAAAAAAGTTTGTCGTGTAG+CGG - chr1.1:78249930-78249949 None:intergenic 30.0%
TTTGATTGCCAATCAACTAA+GGG + chr1.1:78250582-78250601 MS.gene76303:CDS 30.0%
! ACCACAATTTAAAACCATGA+TGG - chr1.1:78249893-78249912 None:intergenic 30.0%
! CAATTTAAAACCATGATGGA+TGG - chr1.1:78249889-78249908 None:intergenic 30.0%
! CTTTTCCTTGCCAAATTTTA+TGG + chr1.1:78249742-78249761 MS.gene76303:CDS 30.0%
! GACAGTTTTACAATGATTGA+TGG + chr1.1:78250267-78250286 MS.gene76303:CDS 30.0%
!!! ATGATTTTGATTGGTAGCAT+TGG - chr1.1:78249794-78249813 None:intergenic 30.0%
!!! TCCATCATGGTTTTAAATTG+TGG + chr1.1:78249889-78249908 MS.gene76303:intron 30.0%
!!! TGGTGGATTATGATTTTGAT+TGG - chr1.1:78249803-78249822 None:intergenic 30.0%
AATCATCACTACAACCTTTG+CGG - chr1.1:78249663-78249682 None:intergenic 35.0%
ATGAATGATTCCATCCATCA+TGG + chr1.1:78249876-78249895 MS.gene76303:intron 35.0%
CCATGTTGGTATTCTTCAAA+AGG - chr1.1:78250476-78250495 None:intergenic 35.0%
CTTTGATTGCCAATCAACTA+AGG + chr1.1:78250581-78250600 MS.gene76303:CDS 35.0%
GAATACCAACATGGAAATTG+GGG + chr1.1:78250482-78250501 MS.gene76303:CDS 35.0%
TATGATCCATAACGGTATTG+CGG - chr1.1:78249990-78250009 None:intergenic 35.0%
TGCTGAGAATCAAGTGAATT+TGG + chr1.1:78250545-78250564 MS.gene76303:CDS 35.0%
! ATGGCGTATATCATAGGTTT+TGG - chr1.1:78250337-78250356 None:intergenic 35.0%
! TGGCGTATATCATAGGTTTT+GGG - chr1.1:78250336-78250355 None:intergenic 35.0%
! TTTTCTTGCCCTTAGTTGAT+TGG - chr1.1:78250593-78250612 None:intergenic 35.0%
!! CCTTTTGAAGAATACCAACA+TGG + chr1.1:78250473-78250492 MS.gene76303:CDS 35.0%
AAATTGGGGAGACTTCATCA+AGG + chr1.1:78250496-78250515 MS.gene76303:CDS 40.0%
AAATTTGGCAAGGAAAAGGG+TGG - chr1.1:78249740-78249759 None:intergenic 40.0%
AACCTATGATATACGCCATG+TGG + chr1.1:78250338-78250357 MS.gene76303:CDS 40.0%
AATTGGGGAGACTTCATCAA+GGG + chr1.1:78250497-78250516 MS.gene76303:CDS 40.0%
AGATTGGTGAATCCCACATA+TGG + chr1.1:78250162-78250181 MS.gene76303:CDS 40.0%
ATTGGTGAATCCCACATATG+GGG + chr1.1:78250164-78250183 MS.gene76303:CDS 40.0%
GATTGGTGAATCCCACATAT+GGG + chr1.1:78250163-78250182 MS.gene76303:CDS 40.0%
GTACCAATGTGGACATCAAA+GGG + chr1.1:78250367-78250386 MS.gene76303:CDS 40.0%
TTCGGCCATAAAATTTGGCA+AGG - chr1.1:78249750-78249769 None:intergenic 40.0%
TTTCCCTTTGATGTCCACAT+TGG - chr1.1:78250373-78250392 None:intergenic 40.0%
! GGCGTATATCATAGGTTTTG+GGG - chr1.1:78250335-78250354 None:intergenic 40.0%
! GTGAATTTGGAACTCACTCT+TGG + chr1.1:78250558-78250577 MS.gene76303:CDS 40.0%
!! GTGACCAACTTAAGTTGATG+CGG + chr1.1:78249964-78249983 MS.gene76303:intron 40.0%
!! TTTGATTGGTAGCATTGGTG+AGG - chr1.1:78249789-78249808 None:intergenic 40.0%
!!! GCTTATTTTGGACAGCGAAT+TGG + chr1.1:78250193-78250212 MS.gene76303:CDS 40.0%
AGTCTCCCCAATTTCCATGT+TGG - chr1.1:78250490-78250509 None:intergenic 45.0%
AGTGAACTTAGCTAGCTACC+TGG - chr1.1:78249823-78249842 None:intergenic 45.0%
GATATACGCCATGTGGCAAA+AGG + chr1.1:78250345-78250364 MS.gene76303:CDS 45.0%
GGTACCAATGTGGACATCAA+AGG + chr1.1:78250366-78250385 MS.gene76303:CDS 45.0%
TGCCACATGGCGTATATCAT+AGG - chr1.1:78250343-78250362 None:intergenic 45.0%
! ATTGATGGGCAGACATCATC+AGG + chr1.1:78250282-78250301 MS.gene76303:CDS 45.0%
! CATTGGTACCTTTTGCCACA+TGG - chr1.1:78250356-78250375 None:intergenic 45.0%
! GCCAAATTTTATGGCCGAAC+CGG + chr1.1:78249751-78249770 MS.gene76303:CDS 45.0%
!! ACCGGTTCGGCCATAAAATT+TGG - chr1.1:78249755-78249774 None:intergenic 45.0%
!! TGTGGCAAAAGGTACCAATG+TGG + chr1.1:78250356-78250375 MS.gene76303:CDS 45.0%
ACTGAACCAACTCGTGGCTT+GGG - chr1.1:78250429-78250448 None:intergenic 50.0%
ATCAGTTGCCCTGAATCCCA+AGG + chr1.1:78249709-78249728 MS.gene76303:CDS 50.0%
CAACTGATCCACTCAAGGCA+GGG - chr1.1:78249697-78249716 None:intergenic 50.0%
GAACTTAGCTAGCTACCTGG+TGG - chr1.1:78249820-78249839 None:intergenic 50.0%
GGAGATTGAGCAAACCGGTT+CGG - chr1.1:78249768-78249787 None:intergenic 50.0%
GGTGAGGAGATTGAGCAAAC+CGG - chr1.1:78249773-78249792 None:intergenic 50.0%
TCAGTTGCCCTGAATCCCAA+GGG + chr1.1:78249710-78249729 MS.gene76303:CDS 50.0%
!! ACGAGTTGGTTCAGTCGACT+CGG + chr1.1:78250434-78250453 MS.gene76303:CDS 50.0%
!! ATGGGGCGCTTGGCTTATTT+TGG + chr1.1:78250181-78250200 MS.gene76303:CDS 50.0%
AAGCCAAGCGCCCCATATGT+GGG - chr1.1:78250177-78250196 None:intergenic 55.0%
ATGCGGCCGCAATACCGTTA+TGG + chr1.1:78249981-78250000 MS.gene76303:intron 55.0%
CAGGGCAACTGATCCACTCA+AGG - chr1.1:78249702-78249721 None:intergenic 55.0%
GAAAAGGGTGGCATGCCCTT+GGG - chr1.1:78249728-78249747 None:intergenic 55.0%
GACTGAACCAACTCGTGGCT+TGG - chr1.1:78250430-78250449 None:intergenic 55.0%
GAGTCGACTGAACCAACTCG+TGG - chr1.1:78250435-78250454 None:intergenic 55.0%
GCAACTGATCCACTCAAGGC+AGG - chr1.1:78249698-78249717 None:intergenic 55.0%
GCGGCCGCATCAACTTAAGT+TGG - chr1.1:78249971-78249990 None:intergenic 55.0%
GTACGAGGCAGCTGCTAGAT+TGG + chr1.1:78250146-78250165 MS.gene76303:CDS 55.0%
TAAGCCAAGCGCCCCATATG+TGG - chr1.1:78250178-78250197 None:intergenic 55.0%
TCATCAAGCCCTGCCTTGAG+TGG + chr1.1:78249686-78249705 MS.gene76303:CDS 55.0%
TGGCATGCCCTTGGGATTCA+GGG - chr1.1:78249720-78249739 None:intergenic 55.0%
! AATCCCACATATGGGGCGCT+TGG + chr1.1:78250171-78250190 MS.gene76303:CDS 55.0%
! GCAGTTGAAGCTGTGCTGAC+TGG + chr1.1:78250231-78250250 MS.gene76303:CDS 55.0%
CTGAAGCCCAAGCCACGAGT+TGG + chr1.1:78250420-78250439 MS.gene76303:CDS 60.0%
GGAAAAGGGTGGCATGCCCT+TGG - chr1.1:78249729-78249748 None:intergenic 60.0%
GTGGCATGCCCTTGGGATTC+AGG - chr1.1:78249721-78249740 None:intergenic 60.0%
! GGGTGTCGTGTGCTCCGCAA+AGG + chr1.1:78249646-78249665 MS.gene76303:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 78249628 78250626 78249628 ID=MS.gene76303
chr1.1 mRNA 78249628 78250626 78249628 ID=MS.gene76303.t1;Parent=MS.gene76303
chr1.1 exon 78249628 78249823 78249628 ID=MS.gene76303.t1.exon1;Parent=MS.gene76303.t1
chr1.1 CDS 78249628 78249823 78249628 ID=cds.MS.gene76303.t1;Parent=MS.gene76303.t1
chr1.1 exon 78250127 78250626 78250127 ID=MS.gene76303.t1.exon2;Parent=MS.gene76303.t1
chr1.1 CDS 78250127 78250626 78250127 ID=cds.MS.gene76303.t1;Parent=MS.gene76303.t1
Gene Sequence

>MS.gene76303

ATGAAGTTGAGTTGCAATGGGTGTCGTGTGCTCCGCAAAGGTTGTAGTGATGATTGTATCATCAAGCCCTGCCTTGAGTGGATCAGTTGCCCTGAATCCCAAGGGCATGCCACCCTTTTCCTTGCCAAATTTTATGGCCGAACCGGTTTGCTCAATCTCCTCACCAATGCTACCAATCAAAATCATAATCCACCAGGTAGCTAGCTAAGTTCACTATCATAATCTAACACTTAATTCATGAATAATTGATGAATGATTCCATCCATCATGGTTTTAAATTGTGGTTGATGTTGCAGTTGCCGCTACACGACAAACTTTTTTAATGTAATAATAAATGTGACCAACTTAAGTTGATGCGGCCGCAATACCGTTATGGATCATAAATTAAACCAATGTCTCATTTATGTTCCATAAAATCTTTTCATAGATTCTACATCAAATTTGATTTTAGTTTTTAATATATGATGATTAATGTCTTTAATTTTGTCACAATTTTCAGCTGTGTTTAAATCATTGTTGTACGAGGCAGCTGCTAGATTGGTGAATCCCACATATGGGGCGCTTGGCTTATTTTGGACAGCGAATTGGAGTCGTTGTGAAGCTGCAGTTGAAGCTGTGCTGACTGGATCGAATATTAATGACAGTTTTACAATGATTGATGGGCAGACATCATCAGGTACACTCAATGCTGAAAATCATGTTCTCCCCAAAACCTATGATATACGCCATGTGGCAAAAGGTACCAATGTGGACATCAAAGGGAAAACTCAATTCAAAAGAGCTGGGCAAGTTCTGAAGCCCAAGCCACGAGTTGGTTCAGTCGACTCGGCTACAATGTTGAAATCCCTTTTGAAGAATACCAACATGGAAATTGGGGAGACTTCATCAAGGGTTCAAACACAGAAAATTAATGAAGCTGCTGAGAATCAAGTGAATTTGGAACTCACTCTTGGCTTTGATTGCCAATCAACTAAGGGCAAGAAAATATTAGATAAATGA

Protein sequence

>MS.gene76303.t1

MKLSCNGCRVLRKGCSDDCIIKPCLEWISCPESQGHATLFLAKFYGRTGLLNLLTNATNQNHNPPAVFKSLLYEAAARLVNPTYGALGLFWTANWSRCEAAVEAVLTGSNINDSFTMIDGQTSSGTLNAENHVLPKTYDIRHVAKGTNVDIKGKTQFKRAGQVLKPKPRVGSVDSATMLKSLLKNTNMEIGETSSRVQTQKINEAAENQVNLELTLGFDCQSTKGKKILDK