AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1101140


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1101140 MtrunA17_Chr7g0252891 97.002 467 14 0 1 467 12 478 0.0 942
Msa1101140 MtrunA17_Chr4g0015031 90.792 467 42 1 1 467 1 466 0.0 850
Msa1101140 MtrunA17_Chr7g0252881 82.619 443 75 2 25 467 16 456 0.0 750
Msa1101140 MtrunA17_Chr7g0252911 72.686 443 118 3 25 467 16 455 0.0 675
Msa1101140 MtrunA17_Chr7g0252921 71.053 456 129 3 11 466 1 453 0.0 651
Msa1101140 MtrunA17_Chr7g0252861 59.819 443 172 5 15 456 29 466 0.0 525
Msa1101140 MtrunA17_Chr6g0461671 58.257 436 178 4 23 457 50 482 3.97e-173 495
Msa1101140 MtrunA17_Chr7g0252941 58.523 176 71 2 253 428 6 179 1.72e-57 188
Msa1101140 MtrunA17_Chr5g0417201 27.934 426 240 14 55 448 79 469 2.52e-37 143
Msa1101140 MtrunA17_Chr7g0252901 62.037 108 31 3 360 467 3 100 1.35e-35 127
Msa1101140 MtrunA17_Chr4g0058831 26.959 319 173 11 8 287 15 312 4.75e-22 99.0
Msa1101140 MtrunA17_Chr8g0369851 33.684 190 104 4 49 216 96 285 9.89e-20 92.4
Msa1101140 MtrunA17_Chr7g0252931 55.932 59 24 1 199 257 14 70 7.57e-13 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1101140 AT5G18280.1 56.351 433 186 3 25 456 41 471 9.20e-168 481
Msa1101140 AT3G04080.1 56.188 404 174 3 54 456 69 470 5.44e-156 451
Msa1101140 AT1G14250.1 31.122 392 223 12 55 422 71 439 1.04e-45 166
Msa1101140 AT1G14230.1 29.730 444 256 14 33 453 63 473 1.62e-45 166
Msa1101140 AT1G14240.1 30.334 389 227 12 55 422 70 435 6.81e-42 155
Msa1101140 AT1G14240.4 30.334 389 227 12 55 422 70 435 6.81e-42 155
Msa1101140 AT1G14240.2 30.334 389 227 12 55 422 70 435 6.81e-42 155
Msa1101140 AT2G02970.1 29.167 432 246 15 55 456 87 488 2.04e-40 152
Msa1101140 AT1G14240.3 29.820 389 225 13 55 422 70 431 2.26e-38 145
Msa1101140 AT4G19180.3 28.185 259 158 9 53 286 143 398 4.63e-18 87.8
Msa1101140 AT4G19180.1 28.185 259 158 9 53 286 143 398 4.63e-18 87.8
Msa1101140 AT4G19180.2 28.185 259 158 9 53 286 143 398 4.63e-18 87.8

Find 118 sgRNAs with CRISPR-Local

Find 2 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGGAAATTGTTTCTTGTTT+TGG 0.150484 7_3:+31699296 None:intergenic
ACATGTTGTTTCCAAGAAAT+TGG 0.163680 7_3:+31699342 None:intergenic
TAACTATGCATTGGGGAAAT+TGG 0.164398 7_3:-31696663 Msa1101140:CDS
GTGAGACTATAAGGTGTATT+TGG 0.179514 7_3:+31695686 None:intergenic
TACATCAATCGTTCAAATTT+AGG 0.187026 7_3:+31695300 None:intergenic
TCTTCTCCATCTGCAACTTT+TGG 0.192928 7_3:+31696545 None:intergenic
TGCAGGCAACAGCAGGTTTA+AGG 0.207571 7_3:-31697841 Msa1101140:intron
ATTTCTTACTCCCAATTTCT+TGG 0.220318 7_3:-31699353 Msa1101140:CDS
AAGGCCAATGCCCCTGCTTC+TGG 0.233678 7_3:-31696006 Msa1101140:CDS
CCCAGAGATAAGAACCTTCT+TGG 0.271914 7_3:+31697136 None:intergenic
CCTTATCAGAATTGCACTTT+TGG 0.272682 7_3:-31695922 Msa1101140:CDS
CATAAAGTTCATCATATTCT+TGG 0.284290 7_3:+31699412 None:intergenic
CCAAGTCTAACGGGTGTCTT+GGG 0.304787 7_3:+31698754 None:intergenic
CCCAAGAAGGTTCTTATCTC+TGG 0.305526 7_3:-31697137 Msa1101140:CDS
AACTATGCATTGGGGAAATT+GGG 0.305765 7_3:-31696662 Msa1101140:CDS
ATATGCTGGAGAAGAATTTA+AGG 0.312341 7_3:-31696025 Msa1101140:CDS
AAATTTAGGTAACGATGATA+TGG 0.324810 7_3:+31695314 None:intergenic
AATATGATATCTATGTTCAT+AGG 0.347433 7_3:-31696487 Msa1101140:intron
GTCTTGGGGCGTTGGTCCTC+AGG 0.350518 7_3:+31698769 None:intergenic
TTAAGTGACTAGTTTCAAAA+TGG 0.360005 7_3:-31699453 Msa1101140:exon
AGTACAAGCTTCTTAATGTA+TGG 0.360656 7_3:+31696521 None:intergenic
GATGCAGTTTCTATTATTGA+TGG 0.366866 7_3:-31697162 Msa1101140:CDS
ATTCAACAGTTATCTATCTA+AGG 0.370003 7_3:-31699713 Msa1101140:five_prime_UTR
CCCAAGTCTAACGGGTGTCT+TGG 0.371819 7_3:+31698753 None:intergenic
CAGTACGTGTTGCTCGTTGA+TGG 0.375641 7_3:-31695533 Msa1101140:CDS
CATGTTGTTTCCAAGAAATT+GGG 0.378180 7_3:+31699343 None:intergenic
GGTGGAATTTGGAGTGGTGG+AGG 0.381650 7_3:-31695901 Msa1101140:CDS
AAGAAGTGGATAAGTTGATT+TGG 0.384688 7_3:+31695601 None:intergenic
GGACGAAGTGTGAGACTATA+AGG 0.386803 7_3:+31695677 None:intergenic
ACCATTACTGCTGCTTTATG+TGG 0.392528 7_3:-31699542 Msa1101140:five_prime_UTR
AAGAAATTGGGAGTAAGAAA+TGG 0.403150 7_3:+31699355 None:intergenic
ATCAAACACAACAGCATAAG+AGG 0.406879 7_3:+31699277 None:intergenic
TTAAAACTGGCTCCAGAAGC+AGG 0.407764 7_3:+31695994 None:intergenic
GTGACAGTTAACTATGCATT+GGG 0.413726 7_3:-31696671 Msa1101140:CDS
AACTTAAATCTTCTTCATGT+TGG 0.419143 7_3:-31699209 Msa1101140:CDS
GGCTCCAGAAGCAGGGGCAT+TGG 0.420983 7_3:+31696002 None:intergenic
CCCAAGACACCCGTTAGACT+TGG 0.424438 7_3:-31698754 Msa1101140:CDS
TTGAGAATATTGATAGCTTA+TGG 0.431015 7_3:-31695150 Msa1101140:three_prime_UTR
TATGCTGTTGTGTTTGATGC+TGG 0.431064 7_3:-31699272 Msa1101140:CDS
ATCCGCGTATGCACTCAAAC+CGG 0.434433 7_3:+31698852 None:intergenic
TGAGACTATAAGGTGTATTT+GGG 0.440417 7_3:+31695687 None:intergenic
TGGAGTGGTGGAGGAGGAAG+TGG 0.447986 7_3:-31695892 Msa1101140:CDS
GTGTTGCTCGTTGATGGATT+TGG 0.451160 7_3:-31695527 Msa1101140:intron
ATTATTGATGGAACCCAAGA+AGG 0.464764 7_3:-31697150 Msa1101140:CDS
CCAGAGATAAGAACCTTCTT+GGG 0.465441 7_3:+31697137 None:intergenic
AAACTTACCCCAAGTCTAAC+GGG 0.466778 7_3:+31698745 None:intergenic
TAACGGGTGTCTTGGGGCGT+TGG 0.467981 7_3:+31698761 None:intergenic
GTGAAAACTCTTACATATGA+TGG 0.468333 7_3:+31699563 None:intergenic
ATCAACTTATCCACTTCTTG+TGG 0.471679 7_3:-31695597 Msa1101140:CDS
TGCATCACGTTGAACGTTGA+AGG 0.472392 7_3:+31697179 None:intergenic
CCAGCTAAAATGCAAGGGTT+AGG 0.472739 7_3:+31696318 None:intergenic
TTTGGTGGAATTTGGAGTGG+TGG 0.483888 7_3:-31695904 Msa1101140:CDS
GTGGAAGCTGCATGGCCTCT+AGG 0.485627 7_3:-31695351 Msa1101140:CDS
TGGAGGTGGATCGGTTCAAA+TGG 0.485873 7_3:-31696603 Msa1101140:CDS
GTGTTTGATGCTGGTAGCAC+TGG 0.488893 7_3:-31699263 Msa1101140:CDS
CCATTACTGCTGCTTTATGT+GGG 0.489119 7_3:-31699541 Msa1101140:five_prime_UTR
CCAAAAGTGCAATTCTGATA+AGG 0.489796 7_3:+31695922 None:intergenic
ACAGTGGGAGTAATGGATCT+TGG 0.493110 7_3:-31696623 Msa1101140:CDS
TATGTGGGAGTATATATTAG+TGG 0.494656 7_3:-31699526 Msa1101140:five_prime_UTR
CTTTGGTAGAGAAGCATCTC+GGG 0.495672 7_3:-31696370 Msa1101140:CDS
GGAATTTGGAGTGGTGGAGG+AGG 0.496019 7_3:-31695898 Msa1101140:CDS
ATATTTATGCAGGCAACAGC+AGG 0.503614 7_3:-31697848 Msa1101140:intron
TTCTGAAAAGATACTGCAAT+CGG 0.507799 7_3:-31697801 Msa1101140:intron
AAAGGGACATACACATATGC+TGG 0.509416 7_3:-31696039 Msa1101140:intron
CATAAACAAAACAAGCTCAA+TGG 0.510507 7_3:+31695183 None:intergenic
CCCACATAAAGCAGCAGTAA+TGG 0.512163 7_3:+31699541 None:intergenic
CCAAGACACCCGTTAGACTT+GGG 0.518452 7_3:-31698753 Msa1101140:CDS
TTTGATTCCACTCTTAGAGC+AGG 0.520732 7_3:-31698806 Msa1101140:CDS
CCCGCTGTAATCTCTTGCAA+TGG 0.520889 7_3:+31695402 None:intergenic
TTTAGTAGAATATGTTTGCA+TGG 0.522109 7_3:-31695567 Msa1101140:CDS
GGTGACAGTTAACTATGCAT+TGG 0.523428 7_3:-31696672 Msa1101140:CDS
CATTAAGAAGCTTGTACTCA+AGG 0.525184 7_3:-31696516 Msa1101140:CDS
TCTTCCAGTTACTTACACTT+TGG 0.525363 7_3:-31696387 Msa1101140:intron
CCAAGAAGGTTCTTATCTCT+GGG 0.530679 7_3:-31697136 Msa1101140:intron
TCCGCGTATGCACTCAAACC+GGG 0.534325 7_3:+31698853 None:intergenic
CATTGACAGGAGAAAGAAAA+CGG 0.536467 7_3:-31699626 Msa1101140:intron
TAAAACTGGCTCCAGAAGCA+GGG 0.545057 7_3:+31695995 None:intergenic
ATGTGGGAGTATATATTAGT+GGG 0.548300 7_3:-31699525 Msa1101140:five_prime_UTR
AAATTGAAATCCACAAGAAG+TGG 0.551668 7_3:+31695587 None:intergenic
ACTTTGGTAGAGAAGCATCT+CGG 0.551865 7_3:-31696371 Msa1101140:CDS
ACTATGCATTGGGGAAATTG+GGG 0.553135 7_3:-31696661 Msa1101140:CDS
TCAAATCCAGCTAAAATGCA+AGG 0.555070 7_3:+31696312 None:intergenic
GGAGTAATGGATCTTGGAGG+TGG 0.558456 7_3:-31696617 Msa1101140:CDS
AAAACTTACCCCAAGTCTAA+CGG 0.558815 7_3:+31698744 None:intergenic
CAGCTCAAAGAAATATTGAG+TGG 0.563239 7_3:+31699745 None:intergenic
TGAATATCAAGATTCTCTTG+TGG 0.566345 7_3:-31695370 Msa1101140:CDS
GCTTCAGTCTCAAGATCCAC+AGG 0.567472 7_3:+31695656 None:intergenic
AGCTTGTACATTAAATCTTG+AGG 0.568041 7_3:-31695627 Msa1101140:CDS
AATGCTCCAAAAGTTGCAGA+TGG 0.572535 7_3:-31696551 Msa1101140:CDS
TAGTCTCACACTTCGTCCTG+TGG 0.572847 7_3:-31695672 Msa1101140:CDS
AAACTAGCTACTAGTGGTAG+AGG 0.575192 7_3:+31699474 None:intergenic
AATGGATCTTGGAGGTGGAT+CGG 0.580364 7_3:-31696612 Msa1101140:CDS
TTTGATCAAAATGGTAAACA+TGG 0.580756 7_3:+31699231 None:intergenic
AGCTCAAAGAAATATTGAGT+GGG 0.583384 7_3:+31699746 None:intergenic
ATTAAGAAGCTTGTACTCAA+GGG 0.588255 7_3:-31696515 Msa1101140:CDS
GGCAGAAAGTGTGGTTCCTG+AGG 0.596755 7_3:-31698785 Msa1101140:CDS
CTTTCTGCCTGCTCTAAGAG+TGG 0.597545 7_3:+31698799 None:intergenic
ATTCTCTTGTGGAAGCTGCA+TGG 0.602647 7_3:-31695359 Msa1101140:CDS
CTTAGAGCAGGCAGAAAGTG+TGG 0.602844 7_3:-31698794 Msa1101140:CDS
TAATGCATACATCTTCAGCT+AGG 0.603926 7_3:+31695833 None:intergenic
TACTATGTAGTATGACAAAG+TGG 0.605401 7_3:+31699601 None:intergenic
AATTGGGAGTAAGAAATGGA+AGG 0.610820 7_3:+31699359 None:intergenic
GTGGGAGTAATGGATCTTGG+AGG 0.612375 7_3:-31696620 Msa1101140:CDS
CCATTGCAAGAGATTACAGC+GGG 0.615493 7_3:-31695402 Msa1101140:CDS
CAAGACACCCGTTAGACTTG+GGG 0.616733 7_3:-31698752 Msa1101140:intron
CAAAATGGTAAACATGGACA+CGG 0.617625 7_3:+31699237 None:intergenic
CAAGTCTAACGGGTGTCTTG+GGG 0.619279 7_3:+31698755 None:intergenic
CAAATCCAGCTAAAATGCAA+GGG 0.619736 7_3:+31696313 None:intergenic
AAAACTGGCTCCAGAAGCAG+GGG 0.621311 7_3:+31695996 None:intergenic
AAATGGCATATGCAGTGTCA+AGG 0.621886 7_3:-31696586 Msa1101140:CDS
GTGCAATTCTGATAAGGACA+TGG 0.628525 7_3:+31695928 None:intergenic
ACCCGGTTTGAGTGCATACG+CGG 0.634041 7_3:-31698854 Msa1101140:CDS
TTGTACATTAAATCTTGAGG+AGG 0.647392 7_3:-31695624 Msa1101140:CDS
TCACTTAAACTAGCTACTAG+TGG 0.655554 7_3:+31699468 None:intergenic
TAGTGGTAGAGGAATTGAAG+TGG 0.668513 7_3:+31699485 None:intergenic
GCTTCTACAGCATTTCCTAG+AGG 0.686619 7_3:+31695336 None:intergenic
TCCATTGCAAGAGATTACAG+CGG 0.727640 7_3:-31695403 Msa1101140:CDS
TGACAGTTAACTATGCATTG+GGG 0.729371 7_3:-31696670 Msa1101140:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGCTCAAAGAAATATTGAGT+GGG + chr7_3:31695061-31695080 None:intergenic 30.0%
CAGCTCAAAGAAATATTGAG+TGG + chr7_3:31695062-31695081 None:intergenic 35.0%
Chromosome Type Strat End Strand Name
chr7_3 gene 31695046 31699780 31695046 ID=Msa1101140;Name=Msa1101140
chr7_3 mRNA 31695046 31699780 31695046 ID=Msa1101140-mRNA-1;Parent=Msa1101140;Name=Msa1101140-mRNA-1;_AED=0.19;_eAED=0.19;_QI=273|1|1|1|0.88|0.8|10|244|467
chr7_3 exon 31695046 31695432 31695046 ID=Msa1101140-mRNA-1:exon:6816;Parent=Msa1101140-mRNA-1
chr7_3 exon 31695528 31695723 31695528 ID=Msa1101140-mRNA-1:exon:6815;Parent=Msa1101140-mRNA-1
chr7_3 exon 31695843 31696057 31695843 ID=Msa1101140-mRNA-1:exon:6814;Parent=Msa1101140-mRNA-1
chr7_3 exon 31696310 31696401 31696310 ID=Msa1101140-mRNA-1:exon:6813;Parent=Msa1101140-mRNA-1
chr7_3 exon 31696488 31696693 31696488 ID=Msa1101140-mRNA-1:exon:6812;Parent=Msa1101140-mRNA-1
chr7_3 exon 31697137 31697229 31697137 ID=Msa1101140-mRNA-1:exon:6811;Parent=Msa1101140-mRNA-1
chr7_3 exon 31697802 31697858 31697802 ID=Msa1101140-mRNA-1:exon:6810;Parent=Msa1101140-mRNA-1
chr7_3 exon 31698753 31698881 31698753 ID=Msa1101140-mRNA-1:exon:6809;Parent=Msa1101140-mRNA-1
chr7_3 exon 31699184 31699633 31699184 ID=Msa1101140-mRNA-1:exon:6808;Parent=Msa1101140-mRNA-1
chr7_3 exon 31699685 31699780 31699685 ID=Msa1101140-mRNA-1:exon:6807;Parent=Msa1101140-mRNA-1
chr7_3 five_prime_UTR 31699685 31699780 31699685 ID=Msa1101140-mRNA-1:five_prime_utr;Parent=Msa1101140-mRNA-1
chr7_3 five_prime_UTR 31699457 31699633 31699457 ID=Msa1101140-mRNA-1:five_prime_utr;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31699184 31699456 31699184 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31698753 31698881 31698753 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31697802 31697858 31697802 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31697137 31697229 31697137 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31696488 31696693 31696488 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31696310 31696401 31696310 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31695843 31696057 31695843 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31695528 31695723 31695528 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 CDS 31695290 31695432 31695290 ID=Msa1101140-mRNA-1:cds;Parent=Msa1101140-mRNA-1
chr7_3 three_prime_UTR 31695046 31695289 31695046 ID=Msa1101140-mRNA-1:three_prime_utr;Parent=Msa1101140-mRNA-1
Gene Sequence

>Msa1101140

ATGGTTTTGCTTTGGCAAAACACCAAGAATATGATGAACTTTATGACACTCATCACATTTCTACTCTTCATTATGCCTTCCATTTCTTACTCCCAATTTCTTGGAAACAACATGTTACTCACTAACCGTAAGATATTCCCAAAACAAGAAACAATTTCCTCTTATGCTGTTGTGTTTGATGCTGGTAGCACTGGAAGCCGTGTCCATGTTTACCATTTTGATCAAAACTTAAATCTTCTTCATGTTGGTAATGATGTTGAGTTTTATAATAAGACTACACCCGGTTTGAGTGCATACGCGGATAATCCAGAAGAAGCTGCAAAATCTTTGATTCCACTCTTAGAGCAGGCAGAAAGTGTGGTTCCTGAGGACCAACGCCCCAAGACACCCGTTAGACTTGGGGCAACAGCAGGTTTAAGGCTTTTGAATGGGGATGCTTCTGAAAAGATACTGCAATCGGTAAGGGATTTGTTCAGCAACAGAAGTACCTTCAACGTTCAACGTGATGCAGTTTCTATTATTGATGGAACCCAAGAAGGTTCTTATCTCTGGGTGACAGTTAACTATGCATTGGGGAAATTGGGGAAAAAATTCACAAAAACAGTGGGAGTAATGGATCTTGGAGGTGGATCGGTTCAAATGGCATATGCAGTGTCAAGGAATACAGCTAAAAATGCTCCAAAAGTTGCAGATGGAGAAGATCCATACATTAAGAAGCTTGTACTCAAGGGAAAAAAATATGATATCTATGTTCATAGTTACTTACACTTTGGTAGAGAAGCATCTCGGGCAGAGATTTTGAAGGTCACTCATAATTCTCCTAACCCTTGCATTTTAGCTGGATTTGATGGGACATACACATATGCTGGAGAAGAATTTAAGGCCAATGCCCCTGCTTCTGGAGCCAGTTTTAAAAAATGCAAAAAGATAGTTCGTCAGGCACTTAAATTGAACTATCCATGTCCTTATCAGAATTGCACTTTTGGTGGAATTTGGAGTGGTGGAGGAGGAAGTGGACAGAGAATACTTTTTGCTGCTTCATCTTTCTTTTACCTAGCTGAAGATATTGGTTTGGTTGACCCAAATACACCTTATAGTCTCACACTTCGTCCTGTGGATCTTGAGACTGAAGCTAAGAGAGCTTGTACATTAAATCTTGAGGAGGCCAAATCAACTTATCCACTTCTTGTGGATTTCAATTTAGTAGAATATGTTTGCATGGATCTTATATATCAGTACGTGTTGCTCGTTGATGGATTTGGCTTAGATCCATTGCAAGAGATTACAGCGGGAAAGCAAATTGAATATCAAGATTCTCTTGTGGAAGCTGCATGGCCTCTAGGAAATGCTGTAGAAGCCATATCATCGTTACCTAAATTTGAACGATTGATGTATTTTATTTAA

Protein sequence

>Msa1101140

MVLLWQNTKNMMNFMTLITFLLFIMPSISYSQFLGNNMLLTNRKIFPKQETISSYAVVFDAGSTGSRVHVYHFDQNLNLLHVGNDVEFYNKTTPGLSAYADNPEEAAKSLIPLLEQAESVVPEDQRPKTPVRLGATAGLRLLNGDASEKILQSVRDLFSNRSTFNVQRDAVSIIDGTQEGSYLWVTVNYALGKLGKKFTKTVGVMDLGGGSVQMAYAVSRNTAKNAPKVADGEDPYIKKLVLKGKKYDIYVHSYLHFGREASRAEILKVTHNSPNPCILAGFDGTYTYAGEEFKANAPASGASFKKCKKIVRQALKLNYPCPYQNCTFGGIWSGGGGSGQRILFAASSFFYLAEDIGLVDPNTPYSLTLRPVDLETEAKRACTLNLEEAKSTYPLLVDFNLVEYVCMDLIYQYVLLVDGFGLDPLQEITAGKQIEYQDSLVEAAWPLGNAVEAISSLPKFERLMYFI*