AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1177350

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1177350 MtrunA17_Chr8g0347281 88.889 99 11 0 5 103 4 102 4.15e-55 177
Msa1177350 MtrunA17_Chr8g0347271 87.755 98 12 0 6 103 6 103 1.03e-54 176
Msa1177350 MtrunA17_Chr7g0275511 58.416 101 36 2 5 103 5 101 2.42e-30 112
Msa1177350 MtrunA17_Chr8g0361371 43.529 85 46 1 14 96 2 86 1.25e-15 70.9
Msa1177350 MtrunA17_Chr8g0334831 44.048 84 45 1 15 96 2 85 2.10e-15 70.5
Msa1177350 MtrunA17_Chr6g0459311 38.053 113 53 3 10 105 4 116 4.99e-14 66.2
Msa1177350 MtrunA17_Chr8g0336691 41.860 86 48 2 20 103 481 566 1.40e-13 65.1
Msa1177350 MtrunA17_Chr8g0336691 40.698 86 49 2 20 103 920 1005 1.83e-12 62.0
Msa1177350 MtrunA17_Chr8g0336651 41.860 86 48 2 20 103 782 867 1.51e-13 65.1
Msa1177350 MtrunA17_Chr7g0232391 40.506 79 45 2 20 96 7 85 2.46e-13 64.3
Msa1177350 MtrunA17_Chr6g0486251 40.698 86 49 1 20 103 7 92 2.68e-13 64.3
Msa1177350 MtrunA17_Chr6g0486201 40.698 86 49 1 20 103 7 92 2.68e-13 64.3
Msa1177350 MtrunA17_Chr7g0232411 40.506 79 45 2 20 96 7 85 3.07e-13 64.3
Msa1177350 MtrunA17_Chr7g0232351 39.241 79 46 1 20 96 7 85 4.73e-13 63.5
Msa1177350 MtrunA17_Chr7g0232331 36.047 86 53 2 20 103 7 92 4.93e-11 57.8
Msa1177350 MtrunA17_Chr8g0335141 45.455 66 34 1 18 81 8 73 8.33e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1177350 AT4G01070.2 56.818 88 37 1 18 104 7 94 3.37e-26 99.8
Msa1177350 AT4G01070.1 57.471 87 36 1 18 103 7 93 3.84e-26 100
Msa1177350 AT1G01420.2 54.023 87 39 1 18 103 10 96 6.22e-25 97.4
Msa1177350 AT1G01420.1 54.023 87 39 1 18 103 7 93 2.38e-24 95.9
Msa1177350 AT1G01390.2 51.136 88 40 2 18 104 24 109 6.69e-21 86.3
Msa1177350 AT1G01390.1 51.136 88 40 2 18 104 7 92 7.67e-21 86.3

Find 48 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGCTGTCATGAGTGTTTC+GGG 0.315665 8_1:+9713420 None:intergenic
CAATGCTGTCATGAGTGTTT+CGG 0.346580 8_1:+9713419 None:intergenic
TTTGAAGGTGGACCGTCGTT+GGG 0.350818 8_1:+9713537 None:intergenic
GAGTGTTTCGGGTTTGGTCT+TGG 0.366200 8_1:+9713431 None:intergenic
AGTGTTTCGGGTTTGGTCTT+GGG 0.369662 8_1:+9713432 None:intergenic
GGTGATGGGGAGGTTATGTT+TGG 0.390204 8_1:+9713569 None:intergenic
TGTCATGAGTGTTTCGGGTT+TGG 0.408338 8_1:+9713425 None:intergenic
GGAATGAGATGTCCCATTCC+TGG 0.415310 8_1:+9713618 None:intergenic
CTCTTGGCGAATTCGATCAT+TGG 0.416083 8_1:+9713597 None:intergenic
AGGTCGGAGAGGGTGACCGG+AGG 0.427105 8_1:+9713459 None:intergenic
TTTGGTCTTGGGTGGGAGGT+CGG 0.433770 8_1:+9713443 None:intergenic
GGGAGGTCGGAGAGGGTGAC+CGG 0.452914 8_1:+9713456 None:intergenic
TCTTGGGTGGGAGGTCGGAG+AGG 0.467177 8_1:+9713448 None:intergenic
TTGGGGATGATGAAGGTGAT+GGG 0.467950 8_1:+9713555 None:intergenic
CGGGTTTGGTCTTGGGTGGG+AGG 0.470465 8_1:+9713439 None:intergenic
TGACCGGAGGGAGGAAGACG+TGG 0.471383 8_1:+9713472 None:intergenic
ACGGTGGTTTGAGCCTTTGA+AGG 0.474238 8_1:+9713522 None:intergenic
TTCCCACGTCTTCCTCCCTC+CGG 0.474504 8_1:-9713475 Msa1177350:CDS
CATGTTTCCAACTCCAGGAA+TGG 0.491299 8_1:-9713631 Msa1177350:CDS
AGATGTCCCATTCCTGGAGT+TGG 0.498438 8_1:+9713624 None:intergenic
CTTGGGTGGGAGGTCGGAGA+GGG 0.499779 8_1:+9713449 None:intergenic
CAACGACGGTCCACCTTCAA+AGG 0.502720 8_1:-9713535 Msa1177350:CDS
CTTTGAAGGTGGACCGTCGT+TGG 0.503889 8_1:+9713536 None:intergenic
ATGTTTCCAACTCCAGGAAT+GGG 0.505514 8_1:-9713630 Msa1177350:CDS
TTTCGGGTTTGGTCTTGGGT+GGG 0.514980 8_1:+9713436 None:intergenic
GTAGCCATGTTTCCAACTCC+AGG 0.515967 8_1:-9713636 Msa1177350:CDS
CGGAGAGGGTGACCGGAGGG+AGG 0.525328 8_1:+9713463 None:intergenic
GGTCGGAGAGGGTGACCGGA+GGG 0.529432 8_1:+9713460 None:intergenic
ATGAGGTAGGGAGGTGAGTA+CGG 0.533450 8_1:+9713503 None:intergenic
GTTATGTTTGGAGAGTCTCT+TGG 0.533953 8_1:+9713581 None:intergenic
GTTTCGGGTTTGGTCTTGGG+TGG 0.541302 8_1:+9713435 None:intergenic
CGTGGGAAATGCCATGAGGT+AGG 0.542551 8_1:+9713490 None:intergenic
GTGGGAAATGCCATGAGGTA+GGG 0.564195 8_1:+9713491 None:intergenic
GTGGTTTGAGCCTTTGAAGG+TGG 0.565246 8_1:+9713525 None:intergenic
CATTCCTGGAGTTGGAAACA+TGG 0.584740 8_1:+9713632 None:intergenic
TTGAAGGTGGACCGTCGTTG+GGG 0.593448 8_1:+9713538 None:intergenic
GTTGGGGATGATGAAGGTGA+TGG 0.599249 8_1:+9713554 None:intergenic
GTACTCACCTCCCTACCTCA+TGG 0.617400 8_1:-9713501 Msa1177350:CDS
ACCGTCGTTGGGGATGATGA+AGG 0.626592 8_1:+9713548 None:intergenic
TGGGGATGATGAAGGTGATG+GGG 0.637028 8_1:+9713556 None:intergenic
GGAAACATGGCTACTAGAGG+TGG 0.638499 8_1:+9713645 None:intergenic
ACCTTCATCATCCCCAACGA+CGG 0.655172 8_1:-9713549 Msa1177350:CDS
GTTGGAAACATGGCTACTAG+AGG 0.658098 8_1:+9713642 None:intergenic
GGAAATGCCATGAGGTAGGG+AGG 0.660050 8_1:+9713494 None:intergenic
GGATGATGAAGGTGATGGGG+AGG 0.669202 8_1:+9713559 None:intergenic
GACCGGAGGGAGGAAGACGT+GGG 0.670253 8_1:+9713473 None:intergenic
AGGTAGGGAGGTGAGTACGG+TGG 0.711598 8_1:+9713506 None:intergenic
AAGACGTGGGAAATGCCATG+AGG 0.744338 8_1:+9713486 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGGTAGTTCTTGTTTTGTTG+TGG + chr8_1:9713423-9713442 None:intergenic 35.0%
!!! TCTTGTTTTGTTGTGGTGAG+AGG + chr8_1:9713416-9713435 None:intergenic 40.0%
ATGTTTCCAACTCCAGGAAT+GGG - chr8_1:9713455-9713474 Msa1177350:CDS 40.0%
GTTATGTTTGGAGAGTCTCT+TGG + chr8_1:9713507-9713526 None:intergenic 40.0%
AATGCTGTCATGAGTGTTTC+GGG + chr8_1:9713668-9713687 None:intergenic 40.0%
CAATGCTGTCATGAGTGTTT+CGG + chr8_1:9713669-9713688 None:intergenic 40.0%
GTTGGAAACATGGCTACTAG+AGG + chr8_1:9713446-9713465 None:intergenic 45.0%
CATTCCTGGAGTTGGAAACA+TGG + chr8_1:9713456-9713475 None:intergenic 45.0%
CATGTTTCCAACTCCAGGAA+TGG - chr8_1:9713454-9713473 Msa1177350:CDS 45.0%
CTCTTGGCGAATTCGATCAT+TGG + chr8_1:9713491-9713510 None:intergenic 45.0%
TTGGGGATGATGAAGGTGAT+GGG + chr8_1:9713533-9713552 None:intergenic 45.0%
!! AGTGTTTCGGGTTTGGTCTT+GGG + chr8_1:9713656-9713675 None:intergenic 45.0%
!! TGTCATGAGTGTTTCGGGTT+TGG + chr8_1:9713663-9713682 None:intergenic 45.0%
GGAAACATGGCTACTAGAGG+TGG + chr8_1:9713443-9713462 None:intergenic 50.0%
GTAGCCATGTTTCCAACTCC+AGG - chr8_1:9713449-9713468 Msa1177350:CDS 50.0%
AGATGTCCCATTCCTGGAGT+TGG + chr8_1:9713464-9713483 None:intergenic 50.0%
GGAATGAGATGTCCCATTCC+TGG + chr8_1:9713470-9713489 None:intergenic 50.0%
!! GGTGATGGGGAGGTTATGTT+TGG + chr8_1:9713519-9713538 None:intergenic 50.0%
TGGGGATGATGAAGGTGATG+GGG + chr8_1:9713532-9713551 None:intergenic 50.0%
GTTGGGGATGATGAAGGTGA+TGG + chr8_1:9713534-9713553 None:intergenic 50.0%
ACCTTCATCATCCCCAACGA+CGG - chr8_1:9713536-9713555 Msa1177350:CDS 50.0%
TTTGAAGGTGGACCGTCGTT+GGG + chr8_1:9713551-9713570 None:intergenic 50.0%
! GTGGTTTGAGCCTTTGAAGG+TGG + chr8_1:9713563-9713582 None:intergenic 50.0%
ACGGTGGTTTGAGCCTTTGA+AGG + chr8_1:9713566-9713585 None:intergenic 50.0%
ATGAGGTAGGGAGGTGAGTA+CGG + chr8_1:9713585-9713604 None:intergenic 50.0%
GTGGGAAATGCCATGAGGTA+GGG + chr8_1:9713597-9713616 None:intergenic 50.0%
AAGACGTGGGAAATGCCATG+AGG + chr8_1:9713602-9713621 None:intergenic 50.0%
!! TTTCGGGTTTGGTCTTGGGT+GGG + chr8_1:9713652-9713671 None:intergenic 50.0%
!! GAGTGTTTCGGGTTTGGTCT+TGG + chr8_1:9713657-9713676 None:intergenic 50.0%
!! GGATGATGAAGGTGATGGGG+AGG + chr8_1:9713529-9713548 None:intergenic 55.0%
ACCGTCGTTGGGGATGATGA+AGG + chr8_1:9713540-9713559 None:intergenic 55.0%
TTGAAGGTGGACCGTCGTTG+GGG + chr8_1:9713550-9713569 None:intergenic 55.0%
! CTTTGAAGGTGGACCGTCGT+TGG + chr8_1:9713552-9713571 None:intergenic 55.0%
CAACGACGGTCCACCTTCAA+AGG - chr8_1:9713550-9713569 Msa1177350:CDS 55.0%
GTACTCACCTCCCTACCTCA+TGG - chr8_1:9713584-9713603 Msa1177350:CDS 55.0%
GGAAATGCCATGAGGTAGGG+AGG + chr8_1:9713594-9713613 None:intergenic 55.0%
CGTGGGAAATGCCATGAGGT+AGG + chr8_1:9713598-9713617 None:intergenic 55.0%
!! TTTGGTCTTGGGTGGGAGGT+CGG + chr8_1:9713645-9713664 None:intergenic 55.0%
!! GTTTCGGGTTTGGTCTTGGG+TGG + chr8_1:9713653-9713672 None:intergenic 55.0%
AGGTAGGGAGGTGAGTACGG+TGG + chr8_1:9713582-9713601 None:intergenic 60.0%
TTCCCACGTCTTCCTCCCTC+CGG - chr8_1:9713610-9713629 Msa1177350:CDS 60.0%
GACCGGAGGGAGGAAGACGT+GGG + chr8_1:9713615-9713634 None:intergenic 65.0%
TGACCGGAGGGAGGAAGACG+TGG + chr8_1:9713616-9713635 None:intergenic 65.0%
CTTGGGTGGGAGGTCGGAGA+GGG + chr8_1:9713639-9713658 None:intergenic 65.0%
TCTTGGGTGGGAGGTCGGAG+AGG + chr8_1:9713640-9713659 None:intergenic 65.0%
!! CGGGTTTGGTCTTGGGTGGG+AGG + chr8_1:9713649-9713668 None:intergenic 65.0%
GGTCGGAGAGGGTGACCGGA+GGG + chr8_1:9713628-9713647 None:intergenic 70.0%
AGGTCGGAGAGGGTGACCGG+AGG + chr8_1:9713629-9713648 None:intergenic 70.0%
GGGAGGTCGGAGAGGGTGAC+CGG + chr8_1:9713632-9713651 None:intergenic 70.0%
CGGAGAGGGTGACCGGAGGG+AGG + chr8_1:9713625-9713644 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
chr8_1 gene 9713392 9713715 9713392 ID=Msa1177350;Name=Msa1177350
chr8_1 mRNA 9713392 9713715 9713392 ID=Msa1177350-mRNA-1;Parent=Msa1177350;Name=Msa1177350-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|107
chr8_1 exon 9713392 9713715 9713392 ID=Msa1177350-mRNA-1:exon:3371;Parent=Msa1177350-mRNA-1
chr8_1 CDS 9713392 9713715 9713392 ID=Msa1177350-mRNA-1:cds;Parent=Msa1177350-mRNA-1
Gene Sequence

>Msa1177350

ATGGGAAGTCAACAACAACAGCCTCTCACCACAACAAAACAAGAACTACCACCTCTAGTAGCCATGTTTCCAACTCCAGGAATGGGACATCTCATTCCAATGATCGAATTCGCCAAGAGACTCTCCAAACATAACCTCCCCATCACCTTCATCATCCCCAACGACGGTCCACCTTCAAAGGCTCAAACCACCGTACTCACCTCCCTACCTCATGGCATTTCCCACGTCTTCCTCCCTCCGGTCACCCTCTCCGACCTCCCACCCAAGACCAAACCCGAAACACTCATGACAGCATTGTTGTCAAAATCCCGACTTAAATCCTAA
Protein sequence

>Msa1177350

MGSQQQQPLTTTKQELPPLVAMFPTPGMGHLIPMIEFAKRLSKHNLPITFIIPNDGPPSKAQTTVLTSLPHGISHVFLPPVTLSDLPPKTKPETLMTALLSKSRLKS*