AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023603


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023603 MtrunA17_Chr8g0379681 85.580 319 18 5 18 336 49 339 3.97e-173 484
MsaG023603 MtrunA17_Chr2g0284471 46.875 256 106 6 98 334 82 326 1.55e-58 191
MsaG023603 MtrunA17_Chr5g0432531 41.549 142 62 5 182 321 130 252 1.20e-25 103
MsaG023603 MtrunA17_Chr7g0244571 59.091 66 27 0 255 320 281 346 5.95e-23 97.8
MsaG023603 MtrunA17_Chr4g0013081 56.716 67 29 0 256 322 315 381 1.52e-21 94.4
MsaG023603 MtrunA17_Chr8g0390531 56.452 62 27 0 255 316 258 319 1.54e-17 82.0
MsaG023603 MtrunA17_Chr1g0177881 51.562 64 31 0 253 316 100 163 5.70e-15 72.4
MsaG023603 MtrunA17_Chr7g0267111 39.474 76 46 0 241 316 96 171 1.38e-12 65.9
MsaG023603 MtrunA17_Chr4g0025901 43.548 62 35 0 254 315 98 159 9.97e-12 62.8
MsaG023603 MtrunA17_Chr4g0075391 44.068 59 33 0 257 315 83 141 2.89e-11 60.8
MsaG023603 MtrunA17_Chr5g0435131 40.000 70 42 0 246 315 82 151 3.70e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023603 AT4G18830.1 53.285 137 58 3 181 315 210 342 4.04e-37 136
MsaG023603 AT1G06920.1 54.430 79 36 0 249 327 237 315 1.79e-24 101
MsaG023603 AT5G58360.1 46.296 108 54 1 217 320 182 289 1.16e-23 99.4
MsaG023603 AT2G30400.1 54.795 73 33 0 248 320 245 317 4.01e-22 95.5
MsaG023603 AT5G01840.1 61.017 59 23 0 259 317 202 260 1.38e-18 84.7
MsaG023603 AT5G19650.1 49.231 65 33 0 255 319 154 218 1.31e-16 78.2
MsaG023603 AT2G18500.1 45.455 66 36 0 254 319 225 290 2.28e-14 73.2
MsaG023603 AT3G52525.1 49.254 67 34 0 250 316 61 127 2.81e-14 70.1
MsaG023603 AT2G36026.1 51.923 52 25 0 265 316 96 147 4.13e-12 64.7
MsaG023603 AT4G04025.1 45.763 59 32 0 257 315 115 173 3.50e-11 61.6

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAGTTGTGAAGTGTTCTT+TGG 0.266311 4:+90468333 MsaT023603.1:CDS
GAGGGAAATAATTGGGTTCT+TGG 0.266493 4:-90468010 None:intergenic
AACAACTCTTCCATTTCTTC+TGG 0.277466 4:-90468418 None:intergenic
CTACATAAGAGGGAAATAAT+TGG 0.293355 4:-90468018 None:intergenic
ACATCCAAACTGTACATTAC+TGG 0.306963 4:-90467764 None:intergenic
GGGTTCTTGGTGATTCAAAT+TGG 0.318117 4:-90467997 None:intergenic
TCGACTTTAGTAGCCATCTT+TGG 0.329186 4:-90468205 None:intergenic
TTTCAAAGTGTCGGAGAAAA+TGG 0.336592 4:+90468064 MsaT023603.1:CDS
GATAAGCCAGCCAGAAGAAA+TGG 0.364577 4:+90468408 MsaT023603.1:CDS
TATGTAGATGCAGAAAGTTC+TGG 0.372162 4:+90468034 MsaT023603.1:CDS
CTTACCTTGGAACTCTGCTT+TGG 0.374018 4:-90468172 None:intergenic
ATTTATTACACAAACTTGAA+TGG 0.396706 4:-90468522 None:intergenic
AATGATATCATGGTATTCAT+TGG 0.398859 4:-90468464 None:intergenic
GTGGTGAGGATGATGCATTC+TGG 0.406825 4:+90467678 MsaT023603.1:CDS
GAAGCCAGTAATGTACAGTT+TGG 0.411136 4:+90467760 MsaT023603.1:CDS
GATGCAGAAAGTTCTGGTCT+TGG 0.420949 4:+90468040 MsaT023603.1:CDS
CAATTTCCTTGTGGGAATAG+AGG 0.421459 4:+90467641 MsaT023603.1:CDS
ACTTTCTGCATCTACATAAG+AGG 0.429055 4:-90468029 None:intergenic
GTTCATCACAATTTCCTTGT+GGG 0.429553 4:+90467633 MsaT023603.1:CDS
TGGAGAATGTACTCTTACCT+TGG 0.430524 4:-90468185 None:intergenic
ACTCTTCCATTTCTTCTGGC+TGG 0.432481 4:-90468414 None:intergenic
TACATAAGAGGGAAATAATT+GGG 0.446625 4:-90468017 None:intergenic
GAAAGAAGAAGAGGAAATTG+TGG 0.448238 4:+90468282 MsaT023603.1:CDS
GCATTCTGGAGATTGTCATT+TGG 0.470215 4:+90467692 MsaT023603.1:CDS
TTCCTTGTGGGAATAGAGGC+AGG 0.471947 4:+90467645 MsaT023603.1:CDS
AAAGATGAAGAAAGAAGAAG+AGG 0.484787 4:+90468273 MsaT023603.1:CDS
TCAAAGCATTTCGACAGGTA+TGG 0.486694 4:+90468488 MsaT023603.1:CDS
ATTGTTGTCGTTGCATCAGA+CGG 0.491811 4:-90467575 None:intergenic
TTGTTGTCGTTGCATCAGAC+GGG 0.493988 4:-90467574 None:intergenic
TTAAAGCAAAGGTTAACAAA+AGG 0.494673 4:+90468107 MsaT023603.1:CDS
TAAATGTAAATCCTTAGAAA+AGG 0.497808 4:+90467967 MsaT023603.1:CDS
ATGCTTTGATAATGATATCA+TGG 0.506592 4:-90468474 None:intergenic
AAGAGTACATTCTCCAAAGA+TGG 0.518216 4:+90468192 MsaT023603.1:CDS
AAGCAAAGGTTAACAAAAGG+AGG 0.522101 4:+90468110 MsaT023603.1:CDS
GGTCTTGGATTTCAAAGTGT+CGG 0.531784 4:+90468055 MsaT023603.1:CDS
ACTCAGAACTCCCCGTCTGA+TGG 0.532872 4:+90467611 MsaT023603.1:CDS
AGTCGAAATACGCAAAATGA+AGG 0.533126 4:+90468222 MsaT023603.1:CDS
TTGTGGAGGAAACAGAAGAA+GGG 0.535857 4:+90468299 MsaT023603.1:CDS
CATTATCAAAGCATTTCGAC+AGG 0.549940 4:+90468483 MsaT023603.1:CDS
ATGTGAGGAGTTTAAAGCAA+AGG 0.562245 4:+90468096 MsaT023603.1:CDS
CTTTCTGCATCTACATAAGA+GGG 0.562393 4:-90468028 None:intergenic
GAATCTCTAAAATCTTGTTG+TGG 0.573719 4:-90468358 None:intergenic
ATTGTGGAGGAAACAGAAGA+AGG 0.577830 4:+90468298 MsaT023603.1:CDS
AGGAAGTTGAGTGCTTAAAG+AGG 0.596150 4:+90467855 MsaT023603.1:CDS
GCTTAAAGAGGAGATATGAG+AGG 0.596446 4:+90467867 MsaT023603.1:CDS
GGTTCATCACAATTTCCTTG+TGG 0.598854 4:+90467632 MsaT023603.1:CDS
AGAAGAAGAGGAAATTGTGG+AGG 0.599408 4:+90468285 MsaT023603.1:CDS
AGCAAAGGTTAACAAAAGGA+GGG 0.601137 4:+90468111 MsaT023603.1:CDS
AATTGTGATGAACCATCAGA+CGG 0.617022 4:-90467623 None:intergenic
ATTGTGATGAACCATCAGAC+GGG 0.626786 4:-90467622 None:intergenic
GAAACCAAAGCAGAGTTCCA+AGG 0.627313 4:+90468168 MsaT023603.1:CDS
AGTTTGGATGTGAAAAGACA+TGG 0.628614 4:+90467776 MsaT023603.1:CDS
GAAATTACAGAATGCAGCAG+AGG 0.634808 4:+90467922 MsaT023603.1:CDS
TAATGAAACAAAGAGTGCAA+AGG 0.636359 4:+90467835 MsaT023603.1:CDS
TGTTGTCGTTGCATCAGACG+GGG 0.638223 4:-90467573 None:intergenic
ATCAGACGGGGAGTTCTGAG+TGG 0.651626 4:-90467609 None:intergenic
TGAGCAGAGAATTACAGAGG+AGG 0.661098 4:+90468146 MsaT023603.1:CDS
TCAGACGGGGAGTTCTGAGT+GGG 0.663234 4:-90467608 None:intergenic
AACCTGCCTCTATTCCCACA+AGG 0.669707 4:-90467647 None:intergenic
ATGTGAGCAGAGAATTACAG+AGG 0.684434 4:+90468143 MsaT023603.1:CDS
AAATGGTGTGAATCAATGTG+AGG 0.711307 4:+90468081 MsaT023603.1:CDS
TTGTGATGAACCATCAGACG+GGG 0.714122 4:-90467621 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 90467563 90468573 90467563 ID=MsaG023603
Chr4 mRNA 90467563 90468573 90467563 ID=MsaT023603.1;Parent=MsaG023603
Chr4 exon 90467563 90468573 90467563 ID=MsaT023603.1.exon1;Parent=MsaT023603.1
Chr4 CDS 90467563 90468573 90467563 ID=cds.MsaT023603.1;Parent=MsaT023603.1
Gene Sequence

>MsaT023603.1

ATGCAGAACTCCCCGTCTGATGCAACGACAACAATCAAGCATTATCCCACTCAGAACTCCCCGTCTGATGGTTCATCACAATTTCCTTGTGGGAATAGAGGCAGGTTTTATGGAGGTGGTGAGGATGATGCATTCTGGAGATTGTCATTTGGTGAAGAGTTTACTAATGACCAAAAGAAGAAAAGTAAAGATATTCTGAAGCCAGTAATGTACAGTTTGGATGTGAAAAGACATGGAAGAAGAAGAAGAAGAAGAGAAGATAGAAAATTGCTTAATGAAACAAAGAGTGCAAAGGAAGTTGAGTGCTTAAAGAGGAGATATGAGAGGAAAGCACAAAGAGCTTTACAAGAGCAGCTCTTGAAATTACAGAATGCAGCAGAGGAAGCTGAATTTGTTGCATCAAGTAAATGTAAATCCTTAGAAAAGGATGAGCTCCAATTTGAATCACCAAGAACCCAATTATTTCCCTCTTATGTAGATGCAGAAAGTTCTGGTCTTGGATTTCAAAGTGTCGGAGAAAATGGTGTGAATCAATGTGAGGAGTTTAAAGCAAAGGTTAACAAAAGGAGGGAATCAGTTCATGTGAGCAGAGAATTACAGAGGAGGAAACCAAAGCAGAGTTCCAAGGTAAGAGTACATTCTCCAAAGATGGCTACTAAAGTCGAAATACGCAAAATGAAGGCGATAGAAGACAAAAAGAAAGCAAAACTAAAGATGAAGAAAGAAGAAGAGGAAATTGTGGAGGAAACAGAAGAAGGGTTAGATAGTTTTGCAGTTGTGAAGTGTTCTTTGGATCCACAACAAGATTTTAGAGATTCAATGATTGAGATGATCAAAGAGAAAGAGATAAGCCAGCCAGAAGAAATGGAAGAGTTGTTAGCATGCTATTTGAGTTTGAATTCCAATGAATACCATGATATCATTATCAAAGCATTTCGACAGGTATGGTTATGCATGAGCCATTCAAGTTTGTGTAATAAATCAGAGAAACAATGTTGTTACTATGATTAG

Protein sequence

>MsaT023603.1

MQNSPSDATTTIKHYPTQNSPSDGSSQFPCGNRGRFYGGGEDDAFWRLSFGEEFTNDQKKKSKDILKPVMYSLDVKRHGRRRRRREDRKLLNETKSAKEVECLKRRYERKAQRALQEQLLKLQNAAEEAEFVASSKCKSLEKDELQFESPRTQLFPSYVDAESSGLGFQSVGENGVNQCEEFKAKVNKRRESVHVSRELQRRKPKQSSKVRVHSPKMATKVEIRKMKAIEDKKKAKLKMKKEEEEIVEETEEGLDSFAVVKCSLDPQQDFRDSMIEMIKEKEISQPEEMEELLACYLSLNSNEYHDIIIKAFRQVWLCMSHSSLCNKSEKQCCYYD*