AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1024370

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1024370 MtrunA17_Chr7g0236161 74.074 108 5 2 2 87 331 437 1.48e-46 158
Msa1024370 MtrunA17_Chr7g0236201 74.766 107 4 2 2 86 331 436 1.62e-46 158
Msa1024370 MtrunA17_Chr7g0236121 67.500 120 14 3 2 99 331 447 9.62e-45 153
Msa1024370 MtrunA17_Chr7g0236641 57.282 103 21 4 4 86 331 430 1.96e-28 107
Msa1024370 MtrunA17_Chr4g0055001 55.208 96 20 3 3 78 48 140 9.11e-28 98.6
Msa1024370 MtrunA17_Chr7g0236471 58.947 95 16 3 4 78 176 267 1.37e-26 102
Msa1024370 MtrunA17_Chr7g0236651 53.922 102 23 4 4 85 329 426 3.64e-26 100
Msa1024370 MtrunA17_Chr7g0236511 54.902 102 22 4 4 85 337 434 2.88e-25 98.2
Msa1024370 MtrunA17_Chr7g0236691 56.000 100 20 4 4 83 331 426 6.05e-24 94.4
Msa1024370 MtrunA17_Chr7g0236231 54.167 96 22 3 4 78 335 429 6.06e-24 94.4
Msa1024370 MtrunA17_Chr7g0236521 52.475 101 24 4 4 84 311 407 8.30e-23 90.5
Msa1024370 MtrunA17_Chr7g0236561 51.579 95 23 3 4 78 311 402 9.95e-23 90.9
Msa1024370 MtrunA17_Chr7g0236341 50.980 102 21 4 4 85 331 423 3.49e-22 89.4
Msa1024370 MtrunA17_Chr7g0236551 46.154 117 27 5 4 99 331 432 1.23e-21 87.8
Msa1024370 MtrunA17_Chr7g0236571 47.619 105 31 4 4 88 183 283 3.73e-20 83.6
Msa1024370 MtrunA17_Chr7g0236611 72.727 44 12 0 35 78 21 64 1.52e-19 78.2
Msa1024370 MtrunA17_Chr2g0280801 38.793 116 47 4 4 97 339 452 1.67e-18 79.0
Msa1024370 MtrunA17_Chr2g0280771 41.593 113 43 4 4 96 332 441 1.77e-18 79.0
Msa1024370 MtrunA17_Chr2g0280841 41.748 103 38 3 4 86 339 439 2.61e-18 78.2
Msa1024370 MtrunA17_Chr2g0280781 38.525 122 44 6 4 97 330 448 4.04e-17 75.1
Msa1024370 MtrunA17_Chr4g0055021 50.602 83 18 3 4 66 332 411 5.58e-17 74.3
Msa1024370 MtrunA17_Chr8g0340061 42.105 95 32 4 4 77 330 422 1.69e-15 70.1
Msa1024370 MtrunA17_Chr8g0340091 57.407 54 18 1 36 84 409 462 2.01e-15 70.1
Msa1024370 MtrunA17_Chr2g0280791 39.000 100 39 3 4 83 333 430 6.57e-15 68.6
Msa1024370 MtrunA17_Chr8g0340081 56.818 44 19 0 36 79 383 426 2.44e-14 67.0
Msa1024370 MtrunA17_Chr8g0340071 56.818 44 19 0 36 79 382 425 3.19e-13 63.9
Msa1024370 MtrunA17_Chr7g0274221 42.991 107 33 4 4 85 53 156 1.03e-12 60.1
Msa1024370 MtrunA17_Chr8g0340111 53.333 45 21 0 36 80 385 429 2.59e-12 61.2
Msa1024370 MtrunA17_Chr4g0042361 51.724 58 22 2 26 78 407 463 3.78e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1024370 AT1G11330.1 47.115 104 32 4 4 86 341 442 1.76e-21 87.8
Msa1024370 AT1G11330.2 47.115 104 32 4 4 86 341 442 1.83e-21 87.8
Msa1024370 AT1G11330.3 47.115 104 32 4 4 86 341 442 2.16e-21 87.4
Msa1024370 AT1G11350.1 43.158 95 31 4 4 78 332 423 5.39e-16 72.0
Msa1024370 AT1G11300.1 43.000 100 30 5 4 83 337 429 4.81e-15 69.3
Msa1024370 AT1G11300.2 43.000 100 30 5 4 83 337 429 5.30e-15 69.3
Msa1024370 AT4G21390.1 42.000 100 38 4 4 86 338 434 2.46e-13 64.7
Msa1024370 AT4G21390.2 42.000 100 38 4 4 86 338 434 2.49e-13 64.7
Msa1024370 AT1G11303.1 37.000 100 36 4 4 83 337 429 2.68e-11 58.9
Msa1024370 AT1G61440.3 50.000 54 26 1 36 89 365 417 8.12e-11 57.4
Msa1024370 AT1G61440.2 50.000 54 26 1 36 89 365 417 8.46e-11 57.4
Msa1024370 AT1G61440.1 50.000 54 26 1 36 89 365 417 8.61e-11 57.4

Find 13 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCCAAACACGTTTATGTT+TGG 0.353776 7_1:-53577941 None:intergenic
ATTGGACTGAAGGGTGTGTT+AGG 0.381908 7_1:+53577579 Msa1024370:intron
ACAACCAATGTCAGCATCAT+AGG 0.405576 7_1:-53577787 None:intergenic
CTGACATTGGTTGTATGTCT+TGG 0.420794 7_1:+53577796 Msa1024370:CDS
TGAATTGTTGTATGTCAACT+AGG 0.492240 7_1:-53577827 None:intergenic
ACTTGGTAAACATTGTATGA+AGG 0.510862 7_1:+53577896 Msa1024370:CDS
ATTGGTTGTATGTCTTGGAC+TGG 0.540255 7_1:+53577801 Msa1024370:CDS
TATCTTTCACACTGTTGAAG+AGG 0.546374 7_1:-53577608 None:intergenic
GTAGCAGTACACACAGAACT+TGG 0.572666 7_1:+53577879 Msa1024370:CDS
ATCATAGGAGTATGCAACAC+AGG 0.577091 7_1:-53577772 None:intergenic
TACTCCTATGATGCTGACAT+TGG 0.582044 7_1:+53577783 Msa1024370:CDS
GGACTGAAGGGTGTGTTAGG+AGG 0.607592 7_1:+53577582 Msa1024370:intron
AGTGAAGACAGTAACGCTGA+TGG 0.657082 7_1:+53577647 Msa1024370:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATAACAAAATTGGACTGAA+GGG + chr7_1:53577570-53577589 Msa1024370:intron 25.0%
! GACATACAACAATTCAAAAA+TGG + chr7_1:53577834-53577853 Msa1024370:CDS 25.0%
! ATACAACAATTCAAAAATGG+AGG + chr7_1:53577837-53577856 Msa1024370:CDS 25.0%
GTGGAATGGAATAACAAAAT+TGG + chr7_1:53577561-53577580 Msa1024370:intron 30.0%
GAATAACAAAATTGGACTGA+AGG + chr7_1:53577569-53577588 Msa1024370:intron 30.0%
TGAATTGTTGTATGTCAACT+AGG - chr7_1:53577830-53577849 None:intergenic 30.0%
ACTTGGTAAACATTGTATGA+AGG + chr7_1:53577896-53577915 Msa1024370:CDS 30.0%
CCTTTCAAACAGCTACATAT+CGG - chr7_1:53577522-53577541 None:intergenic 35.0%
CGATATGTAGCTGTTTGAAA+GGG + chr7_1:53577520-53577539 Msa1024370:intron 35.0%
TATCTTTCACACTGTTGAAG+AGG - chr7_1:53577611-53577630 None:intergenic 35.0%
CCGATATGTAGCTGTTTGAA+AGG + chr7_1:53577519-53577538 Msa1024370:intron 40.0%
TTCCATTCCACTTTGTTCCT+TGG - chr7_1:53577552-53577571 None:intergenic 40.0%
!!! TGGTTTTTTGAAACTGCCGA+TGG + chr7_1:53577667-53577686 Msa1024370:CDS 40.0%
AAATCGGGAACTTTGACCAT+CGG - chr7_1:53577686-53577705 None:intergenic 40.0%
! ATCATAGGAGTATGCAACAC+AGG - chr7_1:53577775-53577794 None:intergenic 40.0%
TACTCCTATGATGCTGACAT+TGG + chr7_1:53577783-53577802 Msa1024370:CDS 40.0%
ACAACCAATGTCAGCATCAT+AGG - chr7_1:53577790-53577809 None:intergenic 40.0%
! CTGACATTGGTTGTATGTCT+TGG + chr7_1:53577796-53577815 Msa1024370:CDS 40.0%
ATTGGTTGTATGTCTTGGAC+TGG + chr7_1:53577801-53577820 Msa1024370:CDS 40.0%
GTTTGAAAGGGTTTGAGCCA+AGG + chr7_1:53577532-53577551 Msa1024370:intron 45.0%
GTTTGAGCCAAGGAACAAAG+TGG + chr7_1:53577542-53577561 Msa1024370:intron 45.0%
AGCCAAGGAACAAAGTGGAA+TGG + chr7_1:53577547-53577566 Msa1024370:intron 45.0%
! ATTGGACTGAAGGGTGTGTT+AGG + chr7_1:53577579-53577598 Msa1024370:intron 45.0%
AGTGAAGACAGTAACGCTGA+TGG + chr7_1:53577647-53577666 Msa1024370:CDS 45.0%
! AAGTTCCCGATTTTGCACGT+CGG + chr7_1:53577693-53577712 Msa1024370:intron 45.0%
ATGATCCGACGTGCAAAATC+GGG - chr7_1:53577701-53577720 None:intergenic 45.0%
GATGATCCGACGTGCAAAAT+CGG - chr7_1:53577702-53577721 None:intergenic 45.0%
AACATGCAGAAGTCAGTGTC+TGG + chr7_1:53577740-53577759 Msa1024370:intron 45.0%
GTAGCAGTACACACAGAACT+TGG + chr7_1:53577879-53577898 Msa1024370:CDS 45.0%
! GGACTGAAGGGTGTGTTAGG+AGG + chr7_1:53577582-53577601 Msa1024370:intron 55.0%
Chromosome Type Strat End Strand Name
chr7_1 gene 53577472 53577950 53577472 ID=Msa1024370;Name=Msa1024370
chr7_1 mRNA 53577472 53577950 53577472 ID=Msa1024370-mRNA-1;Parent=Msa1024370;Name=Msa1024370-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|0|0|0.66|0|0|3|0|99
chr7_1 exon 53577472 53577478 53577472 ID=Msa1024370-mRNA-1:exon:10582;Parent=Msa1024370-mRNA-1
chr7_1 exon 53577591 53577688 53577591 ID=Msa1024370-mRNA-1:exon:10583;Parent=Msa1024370-mRNA-1
chr7_1 exon 53577756 53577950 53577756 ID=Msa1024370-mRNA-1:exon:10584;Parent=Msa1024370-mRNA-1
chr7_1 CDS 53577472 53577478 53577472 ID=Msa1024370-mRNA-1:cds;Parent=Msa1024370-mRNA-1
chr7_1 CDS 53577591 53577688 53577591 ID=Msa1024370-mRNA-1:cds;Parent=Msa1024370-mRNA-1
chr7_1 CDS 53577756 53577950 53577756 ID=Msa1024370-mRNA-1:cds;Parent=Msa1024370-mRNA-1
Gene Sequence

>Msa1024370

ATGGAAAGGTGTGTTAGGAGGACACCTCTTCAACAGTGTGAAAGATACATAAATCAAAACACAAGTGAAGACAGTAACGCTGATGGTTTTTTGAAACTGCCGATGTGTCTGGAGAATTGCTCCTGTGTTGCATACTCCTATGATGCTGACATTGGTTGTATGTCTTGGACTGGAAACCTAGTTGACATACAACAATTCAAAAATGGAGGACTTGACTTGTATATTCGTGTAGCAGTACACACAGAACTTGGTAAACATTGTATGAAGGATTTTAAATCTCTCTATGTTAGCCAAACATAA
Protein sequence

>Msa1024370

MERCVRRTPLQQCERYINQNTSEDSNADGFLKLPMCLENCSCVAYSYDADIGCMSWTGNLVDIQQFKNGGLDLYIRVAVHTELGKHCMKDFKSLYVSQT*