AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1465570


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1465570 MtrunA17_Chr8g0378641 97.765 179 4 0 1 179 206 384 1.02e-129 369
Msa1465570 MtrunA17_Chr4g0047461 61.798 178 65 3 2 177 77 253 9.64e-70 212
Msa1465570 MtrunA17_Chr7g0261121 62.573 171 61 3 10 178 212 381 8.53e-69 213
Msa1465570 MtrunA17_Chr6g0488491 43.353 173 83 3 4 175 190 348 4.33e-35 126
Msa1465570 MtrunA17_Chr5g0435201 44.311 167 78 3 10 175 198 350 7.01e-34 122
Msa1465570 MtrunA17_Chr8g0371031 42.135 178 80 7 1 170 221 383 4.24e-28 108
Msa1465570 MtrunA17_Chr2g0300541 41.667 180 80 6 1 170 214 378 1.52e-27 106
Msa1465570 MtrunA17_Chr7g0261161 56.989 93 37 3 27 117 2 93 1.82e-25 95.5
Msa1465570 MtrunA17_Chr8g0371101 40.127 157 75 3 10 159 209 353 1.87e-24 97.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1465570 AT2G26160.1 36.842 133 76 2 12 144 193 317 1.40e-19 84.3
Msa1465570 AT1G65770.1 32.911 158 83 5 10 159 193 335 6.96e-19 82.8
Msa1465570 AT1G44080.1 31.333 150 97 1 9 158 176 319 1.21e-18 82.0
Msa1465570 AT4G35733.1 29.609 179 112 4 3 176 186 355 6.31e-18 80.1
Msa1465570 AT3G25750.2 32.353 136 80 3 10 144 194 318 2.57e-15 72.8
Msa1465570 AT3G25750.1 32.353 136 80 3 10 144 180 304 2.86e-15 72.8
Msa1465570 AT1G65740.1 30.719 153 95 4 10 158 201 346 1.25e-14 70.9

Find 38 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGGCCTATTGTTTCAATT+TGG 0.239371 tig0045302:+539 Msa1465570:CDS
CTTGCAAATTATTTGATCAT+AGG 0.244392 tig0045302:-618 None:intergenic
GGGTGAAGCTTTGTTTGTTT+TGG 0.247417 tig0045302:+437 Msa1465570:CDS
TTGTTAGCTCAAGGCTATTA+TGG 0.272989 tig0045302:+480 Msa1465570:CDS
TTGATCAAGAATGGGGTAAA+TGG 0.295549 tig0045302:+397 Msa1465570:CDS
GTAAGCCTGCCAACAGCTTT+TGG 0.333990 tig0045302:+574 Msa1465570:CDS
ATTCTCCAAATTGAAACAAT+AGG 0.348900 tig0045302:-544 None:intergenic
ATCATAGGGTTGAACAAAGT+TGG 0.349987 tig0045302:-603 None:intergenic
CTTTATGTTGTGGATGAAAA+CGG 0.357862 tig0045302:+150 Msa1465570:CDS
TTTATAAGCTTGATCAAGAA+TGG 0.373053 tig0045302:+388 Msa1465570:CDS
ATGGTTTGATGTGCCAGATC+TGG 0.383540 tig0045302:+416 Msa1465570:CDS
CAATCCTTTGACTTTGAAGT+TGG 0.391090 tig0045302:+188 Msa1465570:CDS
TTTATGTTGTGGATGAAAAC+GGG 0.411799 tig0045302:+151 Msa1465570:CDS
CAAAGTTGTACTGTTGTGAT+AGG 0.419830 tig0045302:+223 Msa1465570:CDS
ATAGGAATAAGCAGCACATA+TGG 0.421633 tig0045302:+241 Msa1465570:CDS
TTGCAAATTATTTGATCATA+GGG 0.438640 tig0045302:-617 None:intergenic
TTATAAGCTTGATCAAGAAT+GGG 0.444146 tig0045302:+389 Msa1465570:CDS
GTTTCAATTTGGAGAATTCA+AGG 0.444647 tig0045302:+550 Msa1465570:CDS
CTATCACAACAGTACAACTT+TGG 0.466620 tig0045302:-222 None:intergenic
TCATAGGGTTGAACAAAGTT+GGG 0.470111 tig0045302:-602 None:intergenic
AACAAAGCTTCACCCAGATC+TGG 0.480250 tig0045302:-429 None:intergenic
AGGCCTTGCCTTTAGAAAAG+AGG 0.480556 tig0045302:-524 None:intergenic
CAAGGCCAAAAGCTGTTGGC+AGG 0.480865 tig0045302:-579 None:intergenic
ACGATGATATAATTCTTCAC+AGG 0.485882 tig0045302:+121 Msa1465570:CDS
AAGCAGTTAGTAGAATATGA+TGG 0.489008 tig0045302:+285 Msa1465570:CDS
AACTTCTCATTGTTAGCTCA+AGG 0.527852 tig0045302:+471 Msa1465570:CDS
CAGGGAACAACTTTATGTTG+TGG 0.530035 tig0045302:+140 Msa1465570:CDS
GGATGATGATGATGTATACA+TGG 0.546547 tig0045302:+95 Msa1465570:CDS
TGGTTTGATGTGCCAGATCT+GGG 0.557600 tig0045302:+417 Msa1465570:CDS
TGAACCAACTTCAAAGTCAA+AGG 0.569063 tig0045302:-192 None:intergenic
TCATAAGCAATATTTATACA+AGG 0.574589 tig0045302:+350 Msa1465570:CDS
CGATGATATAATTCTTCACA+GGG 0.575649 tig0045302:+122 Msa1465570:CDS
TAGGAATAAGCAGCACATAT+GGG 0.577725 tig0045302:+242 Msa1465570:CDS
TATAAGCTTGATCAAGAATG+GGG 0.611541 tig0045302:+390 Msa1465570:CDS
TGGGCAAGGCCAAAAGCTGT+TGG 0.617625 tig0045302:-583 None:intergenic
GGGTTGAACAAAGTTGGGCA+AGG 0.633410 tig0045302:-597 None:intergenic
GATGATGATGATGTATACAT+GGG 0.676311 tig0045302:+96 Msa1465570:CDS
ATATGATGGAAGTCTCTATG+TGG 0.736365 tig0045302:+299 Msa1465570:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCATAAGCAATATTTATACA+AGG + tig0045302:350-369 Msa1465570:CDS 20.0%
! TTTATAAGCTTGATCAAGAA+TGG + tig0045302:388-407 Msa1465570:CDS 25.0%
! TTATAAGCTTGATCAAGAAT+GGG + tig0045302:389-408 Msa1465570:CDS 25.0%
! ATTCTCCAAATTGAAACAAT+AGG - tig0045302:547-566 None:intergenic 25.0%
! GATGATGATGATGTATACAT+GGG + tig0045302:96-115 Msa1465570:CDS 30.0%
ACGATGATATAATTCTTCAC+AGG + tig0045302:121-140 Msa1465570:CDS 30.0%
CGATGATATAATTCTTCACA+GGG + tig0045302:122-141 Msa1465570:CDS 30.0%
CTTTATGTTGTGGATGAAAA+CGG + tig0045302:150-169 Msa1465570:CDS 30.0%
TTTATGTTGTGGATGAAAAC+GGG + tig0045302:151-170 Msa1465570:CDS 30.0%
AAGCAGTTAGTAGAATATGA+TGG + tig0045302:285-304 Msa1465570:CDS 30.0%
TATAAGCTTGATCAAGAATG+GGG + tig0045302:390-409 Msa1465570:CDS 30.0%
! TGCATTTACCTCTTTTCTAA+AGG + tig0045302:516-535 Msa1465570:CDS 30.0%
GTTTCAATTTGGAGAATTCA+AGG + tig0045302:550-569 Msa1465570:CDS 30.0%
! GGATGATGATGATGTATACA+TGG + tig0045302:95-114 Msa1465570:CDS 35.0%
! ATGAAAACGGGACAATTTTC+TGG + tig0045302:163-182 Msa1465570:CDS 35.0%
!! CAATCCTTTGACTTTGAAGT+TGG + tig0045302:188-207 Msa1465570:CDS 35.0%
TGAACCAACTTCAAAGTCAA+AGG - tig0045302:195-214 None:intergenic 35.0%
CTATCACAACAGTACAACTT+TGG - tig0045302:225-244 None:intergenic 35.0%
CAAAGTTGTACTGTTGTGAT+AGG + tig0045302:223-242 Msa1465570:CDS 35.0%
ATAGGAATAAGCAGCACATA+TGG + tig0045302:241-260 Msa1465570:CDS 35.0%
TAGGAATAAGCAGCACATAT+GGG + tig0045302:242-261 Msa1465570:CDS 35.0%
! ATATGATGGAAGTCTCTATG+TGG + tig0045302:299-318 Msa1465570:CDS 35.0%
TTGATCAAGAATGGGGTAAA+TGG + tig0045302:397-416 Msa1465570:CDS 35.0%
!!! GGTGAAGCTTTGTTTGTTTT+GGG + tig0045302:438-457 Msa1465570:CDS 35.0%
AACTTCTCATTGTTAGCTCA+AGG + tig0045302:471-490 Msa1465570:CDS 35.0%
TTGTTAGCTCAAGGCTATTA+TGG + tig0045302:480-499 Msa1465570:CDS 35.0%
!! TTACCTCTTTTCTAAAGGCA+AGG + tig0045302:521-540 Msa1465570:CDS 35.0%
CAAGGCCTATTGTTTCAATT+TGG + tig0045302:539-558 Msa1465570:CDS 35.0%
TCATAGGGTTGAACAAAGTT+GGG - tig0045302:605-624 None:intergenic 35.0%
ATCATAGGGTTGAACAAAGT+TGG - tig0045302:606-625 None:intergenic 35.0%
CAGGGAACAACTTTATGTTG+TGG + tig0045302:140-159 Msa1465570:CDS 40.0%
!!! GGGTGAAGCTTTGTTTGTTT+TGG + tig0045302:437-456 Msa1465570:CDS 40.0%
ATGGTTTGATGTGCCAGATC+TGG + tig0045302:416-435 Msa1465570:CDS 45.0%
TGGTTTGATGTGCCAGATCT+GGG + tig0045302:417-436 Msa1465570:CDS 45.0%
AACAAAGCTTCACCCAGATC+TGG - tig0045302:432-451 None:intergenic 45.0%
! AGGCCTTGCCTTTAGAAAAG+AGG - tig0045302:527-546 None:intergenic 45.0%
! GTAAGCCTGCCAACAGCTTT+TGG + tig0045302:574-593 Msa1465570:CDS 50.0%
GGGTTGAACAAAGTTGGGCA+AGG - tig0045302:600-619 None:intergenic 50.0%
CAAGGCCAAAAGCTGTTGGC+AGG - tig0045302:582-601 None:intergenic 55.0%
TGGGCAAGGCCAAAAGCTGT+TGG - tig0045302:586-605 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
tig0045302 gene 93 632 93 ID=Msa1465570;Name=Msa1465570
tig0045302 mRNA 93 632 93 ID=Msa1465570-mRNA-1;Parent=Msa1465570;Name=Msa1465570-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|-1|0|1|-1|1|1|0|179
tig0045302 exon 93 632 93 ID=Msa1465570-mRNA-1:exon:24821;Parent=Msa1465570-mRNA-1
tig0045302 CDS 93 632 93 ID=Msa1465570-mRNA-1:cds;Parent=Msa1465570-mRNA-1
Gene Sequence

>Msa1465570

ATGGATGATGATGATGTATACATGGGTTACGATGATATAATTCTTCACAGGGAACAACTTTATGTTGTGGATGAAAACGGGACAATTTTCTGGATCAATCCTTTGACTTTGAAGTTGGTTCAGTTTTCACCAAAGTTGTACTGTTGTGATAGGAATAAGCAGCACATATGGGTGAAATCTGATAAAAAGAAGAAGCAGTTAGTAGAATATGATGGAAGTCTCTATGTGGTTGATTTGTATATTAATGATAAAAGCTATCATAAGCAATATTTATACAAGGTTGTTTTTGTGAAAATTTATAAGCTTGATCAAGAATGGGGTAAATGGTTTGATGTGCCAGATCTGGGTGAAGCTTTGTTTGTTTTGGGTAGAGACTCAAACTTCTCATTGTTAGCTCAAGGCTATTATGGATGTCAAAGAAATTGCATTTACCTCTTTTCTAAAGGCAAGGCCTATTGTTTCAATTTGGAGAATTCAAGGTGTAAGCCTGCCAACAGCTTTTGGCCTTGCCCAACTTTGTTCAACCCTATGATCAAATAA

Protein sequence

>Msa1465570

MDDDDVYMGYDDIILHREQLYVVDENGTIFWINPLTLKLVQFSPKLYCCDRNKQHIWVKSDKKKKQLVEYDGSLYVVDLYINDKSYHKQYLYKVVFVKIYKLDQEWGKWFDVPDLGEALFVLGRDSNFSLLAQGYYGCQRNCIYLFSKGKAYCFNLENSRCKPANSFWPCPTLFNPMIK*