AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045314


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045314 MtrunA17_Chr4g0061791 97.028 572 15 2 1 572 1 570 0.0 1135
MsaG045314 MtrunA17_Chr5g0420701 45.171 321 143 8 258 568 35 332 7.92e-75 241
MsaG045314 MtrunA17_Chr7g0220371 42.657 286 125 10 255 523 37 300 1.35e-49 175
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045314 AT5G08130.5 48.524 542 216 19 1 523 1 498 7.45e-126 380
MsaG045314 AT5G08130.8 48.339 542 218 19 1 523 1 499 3.55e-125 379
MsaG045314 AT5G08130.7 48.519 540 215 19 1 523 1 494 3.74e-125 378
MsaG045314 AT5G08130.2 48.333 540 217 19 1 523 1 495 1.48e-124 377
MsaG045314 AT5G08130.4 48.333 540 217 19 1 523 1 495 1.48e-124 377
MsaG045314 AT5G08130.6 48.059 541 217 19 1 523 1 495 3.17e-123 373
MsaG045314 AT5G08130.3 48.418 411 165 13 122 523 2 374 4.90e-97 301
MsaG045314 AT5G08130.1 48.175 411 167 13 122 523 2 375 1.83e-96 300
MsaG045314 AT1G69010.1 43.854 301 127 12 229 523 8 272 6.81e-55 188
MsaG045314 AT5G38860.1 37.313 268 130 5 256 521 21 252 1.00e-41 152
MsaG045314 AT5G38860.2 44.828 174 64 5 256 406 21 185 1.92e-33 127

Find 133 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCCTTGGCACTGGATT+TGG 0.254271 8:+71237429 None:intergenic
CACCTCTTACCTGGAGGAAT+TGG 0.255162 8:-71237337 MsaT045314.1:CDS
TGGGTTGAAGTTAAGAAATT+TGG 0.265205 8:+71233572 None:intergenic
CTTCCTCAAGCACGTTCTTA+TGG 0.267366 8:-71239613 MsaT045314.1:CDS
TTCTACTGAAGGTTGATAAT+TGG 0.293752 8:+71233484 None:intergenic
CACATTGGCATTGGTATGTT+TGG 0.295978 8:+71232535 None:intergenic
AGTGATGATGCTTCTGGCTT+TGG 0.299245 8:+71237259 None:intergenic
CTCCACCTAAACCTCCGATT+TGG 0.310407 8:+71233552 None:intergenic
AAATTTGGTTGGGAAGAAAT+AGG 0.321463 8:+71233587 None:intergenic
TGAATTTACCTCTAACAAAA+AGG 0.343203 8:+71234360 None:intergenic
ATCTTCCTTTGATTCTTAGA+AGG 0.344596 8:+71232363 None:intergenic
TGCGGCTTCTTCCTTGGCAC+TGG 0.352056 8:+71237423 None:intergenic
AACATTGCTGTTTGCTTCAA+AGG 0.352246 8:-71233744 MsaT045314.1:CDS
TCAACCCAAATCGGAGGTTT+AGG 0.354794 8:-71233557 MsaT045314.1:CDS
TCAAGCCAGATTCTACATTA+TGG 0.356652 8:+71233675 None:intergenic
TGATTTCTTGCGGCCATTAG+AGG 0.361614 8:-71237461 MsaT045314.1:CDS
TTGGCTTCTACCTCCTCTAA+TGG 0.371622 8:+71237448 None:intergenic
ACACATGCCTTGCAGAGTTC+AGG 0.377988 8:-71232622 MsaT045314.1:CDS
TTTATCACAGGCTAGCATTT+CGG 0.379312 8:-71232593 MsaT045314.1:CDS
GTTGGGGACAAACTCATTAT+AGG 0.380333 8:-71237103 MsaT045314.1:CDS
CGGATGATCTATTGTCTTCA+TGG 0.382464 8:+71233640 None:intergenic
TTCATCTGCGGCTTCTTCCT+TGG 0.391274 8:+71237417 None:intergenic
TCCACCTAAACCTCCGATTT+GGG 0.392555 8:+71233553 None:intergenic
GCAGATTCTGCTGCTAAGTT+AGG 0.392981 8:-71235851 MsaT045314.1:intron
GTACCTTGAGCAGATGGCCT+TGG 0.414119 8:+71239397 None:intergenic
TTCTTAACTTCAACCCAAAT+CGG 0.419263 8:-71233566 MsaT045314.1:CDS
GTGAAAAGTGATGATGCTTC+TGG 0.427220 8:+71237253 None:intergenic
CAATCTCGTGGCGCAAATGG+TGG 0.441241 8:-71233782 MsaT045314.1:CDS
ACCTCTTACCTGGAGGAATT+GGG 0.442515 8:-71237336 MsaT045314.1:CDS
CTGGCTCGTTATTCCAACCT+TGG 0.443215 8:+71234210 None:intergenic
AGATGGCCTTGGATCTTGTT+CGG 0.448814 8:+71239408 None:intergenic
ATTTCGGTGCAAATTGAACT+TGG 0.449045 8:-71232577 MsaT045314.1:CDS
CGCTCTGGCTCTAGAGTCAC+TGG 0.450006 8:-71232339 MsaT045314.1:CDS
GGTATCCATAATGTAGAATC+TGG 0.451732 8:-71233680 MsaT045314.1:CDS
TCAGTTGAGCACCTCTTACC+TGG 0.452136 8:-71237346 MsaT045314.1:CDS
ATTACCTCTTTGAACATTCG+AGG 0.454838 8:+71235516 None:intergenic
ACAGGAAAGGAGAATAATGT+TGG 0.460228 8:-71237121 MsaT045314.1:CDS
CTAATGGCCGCAAGAAATCA+TGG 0.460307 8:+71237464 None:intergenic
ACTTGATATAATAGGACAAC+TGG 0.461416 8:-71235640 MsaT045314.1:intron
GGTTGGGAAGAAATAGGACT+TGG 0.461704 8:+71233593 None:intergenic
TTCAAGCGGTTTCACATTGT+GGG 0.462528 8:-71237170 MsaT045314.1:CDS
ATGAAGCTGGTGTTGCTAAA+GGG 0.464217 8:+71237368 None:intergenic
GCTATACTTGGACAGGTTGT+TGG 0.468086 8:-71232653 MsaT045314.1:intron
ACCATCTCCCCAACAACTCA+TGG 0.472821 8:-71233704 MsaT045314.1:CDS
CTTCAAGCGGTTTCACATTG+TGG 0.473695 8:-71237171 MsaT045314.1:CDS
TGAAGTTAAGAAATTTGGTT+GGG 0.473775 8:+71233577 None:intergenic
GATTATTTACAGGAGAACTA+AGG 0.474437 8:-71235050 MsaT045314.1:intron
GCCAATGGCACCTCCTTCAA+TGG 0.478556 8:+71233412 None:intergenic
TCCCAATTCCTCCAGGTAAG+AGG 0.482696 8:+71237335 None:intergenic
GAGATTAGAAAGGGAAAGAC+AGG 0.483551 8:-71237139 MsaT045314.1:CDS
CAGGAAAGGAGAATAATGTT+GGG 0.486926 8:-71237120 MsaT045314.1:CDS
TTTGAAGCAAACAGCAATGT+TGG 0.487282 8:+71233746 None:intergenic
GGAAGAGTCTGAGATTAGAA+AGG 0.487727 8:-71237149 MsaT045314.1:CDS
ACCATTGAAGGAGGTGCCAT+TGG 0.488120 8:-71233413 MsaT045314.1:CDS
CGAGATTGAAAACTTTCTGC+TGG 0.488725 8:+71233797 None:intergenic
TTTCAATCTCGTGGCGCAAA+TGG 0.497489 8:-71233785 MsaT045314.1:CDS
GAGAAAGAGCTCACCATTGA+AGG 0.497721 8:-71233425 MsaT045314.1:CDS
TCATCATTTCCATAAAACTC+TGG 0.498591 8:+71235608 None:intergenic
ATGAAGGTTCATTCCAAGGT+TGG 0.500331 8:-71234223 MsaT045314.1:CDS
GTTAGGTCAGTGGACATTGA+AGG 0.508165 8:-71235834 MsaT045314.1:CDS
GCCTTGTTTGTTATTCCAGA+CGG 0.512631 8:+71233620 None:intergenic
GATGAAGCTGGTGTTGCTAA+AGG 0.513947 8:+71237367 None:intergenic
GCGTGAATAATAATAATCAA+AGG 0.514207 8:-71237285 MsaT045314.1:CDS
CCCATGAGTTGTTGGGGAGA+TGG 0.517548 8:+71233703 None:intergenic
CGTGAATAATAATAATCAAA+GGG 0.518006 8:-71237284 MsaT045314.1:CDS
TTGAAGTTAAGAAATTTGGT+TGG 0.519525 8:+71233576 None:intergenic
AAGACAATAGATCATCCGTC+TGG 0.528087 8:-71233635 MsaT045314.1:CDS
AATGCCAATGTGTGTTTCCA+AGG 0.530445 8:-71232524 MsaT045314.1:intron
TTGGAAACACACATTGGCAT+TGG 0.530708 8:+71232526 None:intergenic
TTCAGGAGTGGATTTATCAC+AGG 0.531531 8:-71232605 MsaT045314.1:CDS
AATCAAAGGAAGATGCGCTC+TGG 0.532036 8:-71232354 MsaT045314.1:CDS
TTCCACACAGTGATCAAAAG+AGG 0.537014 8:-71234393 MsaT045314.1:CDS
AAGATCCTTCTAAGAATCAA+AGG 0.539351 8:-71232368 MsaT045314.1:CDS
CCATCTCCCCAACAACTCAT+GGG 0.540580 8:-71233703 MsaT045314.1:CDS
GAGAAGGTTCATAAGTATGA+AGG 0.541707 8:-71234239 MsaT045314.1:CDS
GAAGAAGCAAAATTAATGAC+AGG 0.542133 8:-71234951 MsaT045314.1:intron
GATGAAGAGCTAGAAAATGA+AGG 0.546934 8:-71235562 MsaT045314.1:CDS
GCAAACAGCAATGTTGGAGA+TGG 0.547592 8:+71233752 None:intergenic
GAAGAGTCTGAGATTAGAAA+GGG 0.549063 8:-71237148 MsaT045314.1:CDS
AAGTATGAAGGTTCATTCCA+AGG 0.551145 8:-71234227 MsaT045314.1:CDS
AATCTCGTGGCGCAAATGGT+GGG 0.551190 8:-71233781 MsaT045314.1:CDS
TATACAGTACCTTGAGCAGA+TGG 0.553708 8:+71239391 None:intergenic
GGAAATGATGAAATCTGCAC+AGG 0.556382 8:-71235596 MsaT045314.1:CDS
TGCAGCTCACATACTTCAAG+CGG 0.558097 8:-71237184 MsaT045314.1:CDS
CAAAGCAGAGAAATAATGAC+AGG 0.558692 8:-71233820 MsaT045314.1:intron
GAACTAAGGGTGAGAGTGGA+CGG 0.560606 8:-71235036 MsaT045314.1:CDS
ACCCAAATCGGAGGTTTAGG+TGG 0.566780 8:-71233554 MsaT045314.1:CDS
CTATAAGTCCCAATTCCTCC+AGG 0.567759 8:+71237328 None:intergenic
AGAAGCCAAATCCAGTGCCA+AGG 0.568313 8:-71237434 MsaT045314.1:CDS
TCAAGACCCATGATTTCTTG+CGG 0.575342 8:-71237471 MsaT045314.1:CDS
ATTATTTACAGGAGAACTAA+GGG 0.578041 8:-71235049 MsaT045314.1:intron
TGCCTTGCAGAGTTCAGGAG+TGG 0.584050 8:-71232617 MsaT045314.1:CDS
GCATTGGTATGTTTGGTCTG+AGG 0.586918 8:+71232542 None:intergenic
ATCTGCACAGGATTGTGCCC+AGG 0.592606 8:-71235584 MsaT045314.1:CDS
GCACGTTCTTATGGAGCCGA+AGG 0.594158 8:-71239604 MsaT045314.1:intron
CACCGATGAGATTTCATCTG+CGG 0.595776 8:+71237405 None:intergenic
TTGATTATTATTATTCACGC+AGG 0.597539 8:+71237288 None:intergenic
ATCCACTCCTGAACTCTGCA+AGG 0.600178 8:+71232615 None:intergenic
GCAAGAAATCATGGGTCTTG+AGG 0.600334 8:+71237473 None:intergenic
ACAGTCTGAGATTCTACTGA+AGG 0.600542 8:+71233473 None:intergenic
AGGTGCTCAACTGATGAAGC+TGG 0.601853 8:+71237355 None:intergenic
AGGAGAACTAAGGGTGAGAG+TGG 0.602089 8:-71235040 MsaT045314.1:CDS
TTAACTTCAACCCAAATCGG+AGG 0.605590 8:-71233563 MsaT045314.1:CDS
TAATGGCCGCAAGAAATCAT+GGG 0.606284 8:+71237465 None:intergenic
TGAAGCTGGTGTTGCTAAAG+GGG 0.607506 8:+71237369 None:intergenic
TGAAGTATGTGAGCTGCAGT+TGG 0.607956 8:+71237189 None:intergenic
TATTCACGCAGGAATTAATG+TGG 0.608444 8:+71237299 None:intergenic
TAGAAAGGGAAAGACAGGAA+AGG 0.608538 8:-71237134 MsaT045314.1:CDS
GCTCCATAAGAACGTGCTTG+AGG 0.609314 8:+71239610 None:intergenic
GATCCAAGGCCATCTGCTCA+AGG 0.611922 8:-71239400 MsaT045314.1:intron
ATATCAAGTGTGTACTCACA+AGG 0.615231 8:-71233389 MsaT045314.1:CDS
CGCAGATGAAATCTCATCGG+TGG 0.622602 8:-71237404 MsaT045314.1:CDS
AAAGAGCTCACCATTGAAGG+AGG 0.629369 8:-71233422 MsaT045314.1:CDS
CAACTGCCGAACAAGATCCA+AGG 0.629883 8:-71239414 MsaT045314.1:CDS
GGGGACAAACTCATTATAGG+AGG 0.631737 8:-71237100 MsaT045314.1:intron
AGCCGCAGATGAAATCTCAT+CGG 0.632596 8:-71237407 MsaT045314.1:CDS
TATACCTTGGAAACACACAT+TGG 0.634078 8:+71232520 None:intergenic
TTTCTTGCGGCCATTAGAGG+AGG 0.635490 8:-71237458 MsaT045314.1:CDS
CATCTCCCCAACAACTCATG+GGG 0.638824 8:-71233702 MsaT045314.1:CDS
TCTGTGCGGAAACAGAAGCA+GGG 0.640445 8:-71239477 MsaT045314.1:intron
TCCACACAGTGATCAAAAGA+GGG 0.643944 8:-71234392 MsaT045314.1:CDS
GAATCCTCGAATGTTCAAAG+AGG 0.645829 8:-71235520 MsaT045314.1:intron
ATCTGGCTTGAGCACAACAA+CGG 0.650337 8:-71233663 MsaT045314.1:CDS
CTGCTGCTAAGTTAGGTCAG+TGG 0.667387 8:-71235844 MsaT045314.1:CDS
AGGAAAGGAGAATAATGTTG+GGG 0.670249 8:-71237119 MsaT045314.1:CDS
GTACACACTTGATATGCCAA+TGG 0.681711 8:+71233397 None:intergenic
TCCGTCTGGAATAACAAACA+AGG 0.684989 8:-71233621 MsaT045314.1:CDS
TATCAAGTGTGTACTCACAA+GGG 0.709393 8:-71233388 MsaT045314.1:intron
TGTGCATCAAGCAACTAGTG+CGG 0.714634 8:-71237230 MsaT045314.1:CDS
GTTGAGCACCTCTTACCTGG+AGG 0.717651 8:-71237343 MsaT045314.1:CDS
ATCTCCCCAACAACTCATGG+GGG 0.722606 8:-71233701 MsaT045314.1:CDS
GAAGCTGGTGTTGCTAAAGG+GGG 0.738031 8:+71237370 None:intergenic
GTGCGGAAACAGAAGCAGGG+AGG 0.748077 8:-71239474 MsaT045314.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 71232287 71239641 71232287 ID=MsaG045314
Chr8 mRNA 71232287 71239641 71232287 ID=MsaT045314.1;Parent=MsaG045314
Chr8 exon 71232287 71232397 71232287 ID=MsaT045314.1.exon11;Parent=MsaT045314.1
Chr8 CDS 71232287 71232397 71232287 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71232525 71232660 71232525 ID=MsaT045314.1.exon10;Parent=MsaT045314.1
Chr8 CDS 71232525 71232660 71232525 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71233389 71233834 71233389 ID=MsaT045314.1.exon9;Parent=MsaT045314.1
Chr8 CDS 71233389 71233834 71233389 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71234193 71234288 71234193 ID=MsaT045314.1.exon8;Parent=MsaT045314.1
Chr8 CDS 71234193 71234288 71234193 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71234369 71234438 71234369 ID=MsaT045314.1.exon7;Parent=MsaT045314.1
Chr8 CDS 71234369 71234438 71234369 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71234952 71235060 71234952 ID=MsaT045314.1.exon6;Parent=MsaT045314.1
Chr8 CDS 71234952 71235060 71234952 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71235521 71235648 71235521 ID=MsaT045314.1.exon5;Parent=MsaT045314.1
Chr8 CDS 71235521 71235648 71235521 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71235770 71235869 71235770 ID=MsaT045314.1.exon4;Parent=MsaT045314.1
Chr8 CDS 71235770 71235869 71235770 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71237101 71237502 71237101 ID=MsaT045314.1.exon3;Parent=MsaT045314.1
Chr8 CDS 71237101 71237502 71237101 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71239401 71239484 71239401 ID=MsaT045314.1.exon2;Parent=MsaT045314.1
Chr8 CDS 71239401 71239484 71239401 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Chr8 exon 71239605 71239641 71239605 ID=MsaT045314.1.exon1;Parent=MsaT045314.1
Chr8 CDS 71239605 71239641 71239605 ID=cds.MsaT045314.1;Parent=MsaT045314.1
Gene Sequence

>MsaT045314.1

ATGGAGCTTCCTCAAGCACGTTCTTATGGAGCCGAAGAAGCAGGGAGGAAATCGACGCATGATTTTCTGTCGCTATACAGTAATTCAACTGCCGAACAAGATCCAAGGCCATCTGCTCAAGCAAGTTTCCTCAAGACCCATGATTTCTTGCGGCCATTAGAGGAGGTAGAAGCCAAATCCAGTGCCAAGGAAGAAGCCGCAGATGAAATCTCATCGGTGGTTGAGAAGCAACCCCCTTTAGCAACACCAGCTTCATCAGTTGAGCACCTCTTACCTGGAGGAATTGGGACTTATAGTATCAGCCACATTAATTCCTGCGTGAATAATAATAATCAAAGGGTTCCAAAGCCAGAAGCATCATCACTTTTCACTGTGCATCAAGCAACTAGTGCGGATAGAAATGATGACAACTCCAACTGCAGCTCACATACTTCAAGCGGTTTCACATTGTGGGAAGAGTCTGAGATTAGAAAGGGAAAGACAGGAAAGGAGAATAATGTTGGGGACAAACTCATTATAGGAGATTCTGCTGCTAAGTTAGGTCAGTGGACATTGAAGGAGCGAACGTCTCAATCGTTTTCTAACAATCATCATGGCAGCTTCAACTCTCGCTCTTCATCTCAGACAACTGGACAGAAGAACCAGAGTTTTATGGAAATGATGAAATCTGCACAGGATTGTGCCCAGGATGAAGAGCTAGAAAATGAAGGAACGTTTTTTCTCAAGAGAGAATCCTCGAATGTTCAAAGAGGAGAACTAAGGGTGAGAGTGGACGGCAAGAGTACCGATCAAAAGCCAAACACACCAAGATCAAAACATTCTGCAACAGAGCAGCGAAGAAGAAGCAAAATTAATGACAGGTTTCAGATGCTACGAGAGCTTATTCCACACAGTGATCAAAAGAGGGACAAAGCATCCTTTTTGTTAGAGGTCATTGAGTACATTCACTTTTTACAAGAGAAGGTTCATAAGTATGAAGGTTCATTCCAAGGTTGGAATAACGAGCCAGAAAAACTGATGCCATGGAGAAATAATGACAGGCCAGCAGAAAGTTTTCAATCTCGTGGCGCAAATGGTGGGTCTAATCCATCTCCAACATTGCTGTTTGCTTCAAAGGTTGACGAGAAAAACATCACCATCTCCCCAACAACTCATGGGGGTATCCATAATGTAGAATCTGGCTTGAGCACAACAACGGCCATGAAGACAATAGATCATCCGTCTGGAATAACAAACAAGGCTTTTCCAAGTCCTATTTCTTCCCAACCAAATTTCTTAACTTCAACCCAAATCGGAGGTTTAGGTGGAGCAGTGTCTCAGCTCAGACGTAGATTATCATCTGATGCAGAGAACACCAATTATCAACCTTCAGTAGAATCTCAGACTGTGACTTCAACCAGTGAAAAGCTGAAAGAGAAAGAGCTCACCATTGAAGGAGGTGCCATTGGCATATCAAGTGTGTACTCACAAGGGTTGTTGGATACACTTACACATGCCTTGCAGAGTTCAGGAGTGGATTTATCACAGGCTAGCATTTCGGTGCAAATTGAACTTGGTAAACAAGCAAGCCTCAGACCAAACATACCAATGCCAATGTGTGTTTCCAAGGATGATGAAGATCCTTCTAAGAATCAAAGGAAGATGCGCTCTGGCTCTAGAGTCACTGGCTCTGAGAAATCTGATCAAGCACTAAAGAAGCTGAAAATGTGCAGAAGTTAA

Protein sequence

>MsaT045314.1

MELPQARSYGAEEAGRKSTHDFLSLYSNSTAEQDPRPSAQASFLKTHDFLRPLEEVEAKSSAKEEAADEISSVVEKQPPLATPASSVEHLLPGGIGTYSISHINSCVNNNNQRVPKPEASSLFTVHQATSADRNDDNSNCSSHTSSGFTLWEESEIRKGKTGKENNVGDKLIIGDSAAKLGQWTLKERTSQSFSNNHHGSFNSRSSSQTTGQKNQSFMEMMKSAQDCAQDEELENEGTFFLKRESSNVQRGELRVRVDGKSTDQKPNTPRSKHSATEQRRRSKINDRFQMLRELIPHSDQKRDKASFLLEVIEYIHFLQEKVHKYEGSFQGWNNEPEKLMPWRNNDRPAESFQSRGANGGSNPSPTLLFASKVDEKNITISPTTHGGIHNVESGLSTTTAMKTIDHPSGITNKAFPSPISSQPNFLTSTQIGGLGGAVSQLRRRLSSDAENTNYQPSVESQTVTSTSEKLKEKELTIEGGAIGISSVYSQGLLDTLTHALQSSGVDLSQASISVQIELGKQASLRPNIPMPMCVSKDDEDPSKNQRKMRSGSRVTGSEKSDQALKKLKMCRS*