AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023547

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023547 MtrunA17_Chr6g0452881 84.774 532 76 3 29 555 309 840 0.0 866
MsaG023547 MtrunA17_Chr6g0452891 73.878 245 35 4 285 528 1 217 1.15e-119 352
MsaG023547 MtrunA17_Chr4g0037071 88.265 196 22 1 347 541 1 196 9.08e-111 330
MsaG023547 MtrunA17_Chr4g0037081 88.950 181 18 1 1 181 1 179 4.48e-107 318
MsaG023547 MtrunA17_Chr7g0265781 33.526 173 110 3 362 531 848 1018 1.04e-31 130
MsaG023547 MtrunA17_Chr1g0179281 34.104 173 107 4 362 529 839 1009 3.79e-30 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023547 AT4G04885.1 44.630 540 242 15 39 555 303 808 3.75e-122 379
MsaG023547 AT1G66500.1 34.722 360 169 14 210 534 66 394 2.12e-47 171
MsaG023547 AT5G43620.1 35.667 300 119 11 279 534 119 388 8.14e-44 161
MsaG023547 AT2G36480.2 32.941 170 106 3 362 531 786 947 9.61e-25 109
MsaG023547 AT2G36480.1 32.941 170 106 3 362 531 786 947 9.61e-25 109

Find 146 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACATAATGCACATGTATTT+TGG 0.206485 4:-89913270 None:intergenic
AAACAGCTCTTTCAGTTTCC+TGG 0.223690 4:+89912637 MsaT023547.1:CDS
TGCGAGAGGGCTTCTGCTTA+TGG 0.258664 4:-89913114 None:intergenic
ACGCGGAGCATGCACATTTA+TGG 0.263678 4:-89912240 None:intergenic
TTATTCCATTAGGCGTATTA+AGG 0.289551 4:-89913357 None:intergenic
GCACTTGCTGCAACGGTAAC+AGG 0.291227 4:-89912125 None:intergenic
TGACGAACCTTCAGAAGATT+TGG 0.298615 4:-89912959 None:intergenic
AAGAGCTGTTTGCAATTCTT+TGG 0.300209 4:-89912625 None:intergenic
GCTTACTGCCAGAAGTTTCT+TGG 0.305569 4:-89911932 None:intergenic
TCTTTGGCTGCCTTCTTCAT+AGG 0.310252 4:-89913976 None:intergenic
ATGCCTGTTGTTATTCCATT+AGG 0.318753 4:-89913367 None:intergenic
AGAAACCATTACTTCTACTA+TGG 0.330076 4:-89912070 None:intergenic
ATAACTGATGAAGAATTCTT+TGG 0.332236 4:-89911801 None:intergenic
ATGCATTTAGCATGAATAAT+GGG 0.333257 4:-89913409 None:intergenic
GATTCGAATGGATTCCTAAC+AGG 0.333615 4:-89912299 None:intergenic
TCTAGGAAGATCGCCATATA+AGG 0.342211 4:-89912999 None:intergenic
TCTGCAATCAGTGCCTTATA+TGG 0.351640 4:+89912986 MsaT023547.1:CDS
GGTTTCTTGCAACCAACTAT+TGG 0.360158 4:+89912086 MsaT023547.1:CDS
TATGCATTTAGCATGAATAA+TGG 0.367648 4:-89913410 None:intergenic
GGTAGAGCATGTGGGCCAGC+TGG 0.367975 4:-89912683 None:intergenic
AACAGCTCTTTCAGTTTCCT+GGG 0.369668 4:+89912638 MsaT023547.1:CDS
TCAGCGTCAAGGGTGTTTCC+TGG 0.373151 4:+89912155 MsaT023547.1:CDS
TGGCAGTAAGCCTTTGTTAG+TGG 0.376982 4:+89911944 MsaT023547.1:CDS
TCAAAAGTTGCTGGCAGAAC+TGG 0.381258 4:-89912206 None:intergenic
TAGGCATCAATTAGAGCTCT+TGG 0.388106 4:-89911894 None:intergenic
TGTGACTTCTGTGCTCATCT+TGG 0.389046 4:-89913054 None:intergenic
GGCATAACAAGTTGTGCATT+TGG 0.389349 4:-89912587 None:intergenic
GCTGATTAGGCAACTGATAC+AGG 0.398235 4:-89912421 None:intergenic
TAACAAGTTGTGCATTTGGC+AGG 0.415660 4:-89912583 None:intergenic
GACAAAAGCCAAGAAACTTC+TGG 0.416293 4:+89911924 MsaT023547.1:CDS
TTGCCACCTTTACCTCCAGC+TGG 0.419948 4:+89912668 MsaT023547.1:CDS
GTGACTTCTGTGCTCATCTT+GGG 0.422924 4:-89913053 None:intergenic
GATTGGGATTAGGTAGAATC+TGG 0.424134 4:-89912706 None:intergenic
AAAGAAAGAAGATGAAGAGT+TGG 0.425274 4:+89913228 MsaT023547.1:CDS
GGATTCTTCGATGGAAATAT+AGG 0.431337 4:-89912278 None:intergenic
CTGTTTGCAATTCTTTGGCC+TGG 0.431824 4:-89912620 None:intergenic
GAAGGACCAGGATTGGGATT+AGG 0.436097 4:-89912716 None:intergenic
GTGGACAAACGCCACCATTC+CGG 0.438771 4:+89912477 MsaT023547.1:CDS
GTGGCTAGGTGCAGAGGCAT+TGG 0.444504 4:+89913159 MsaT023547.1:CDS
TTCATCTTGGTGGGAATACT+CGG 0.444524 4:+89911769 MsaT023547.1:CDS
GACACAGAAGGACCAGGATT+GGG 0.445177 4:-89912722 None:intergenic
GCGTTTGTCCACTGTTATGC+GGG 0.451893 4:-89912466 None:intergenic
GTATACCTTAATACGCCTAA+TGG 0.453857 4:+89913352 MsaT023547.1:CDS
CGCCTCGTTTCAAAAGTTGC+TGG 0.461501 4:-89912215 None:intergenic
TGGAAATATAGGAGTTATGC+TGG 0.461860 4:-89912267 None:intergenic
TAAGTAAATTGTGACGCTGC+TGG 0.462016 4:-89912518 None:intergenic
TTCCATCGAAGAATCCTGTT+AGG 0.463431 4:+89912285 MsaT023547.1:CDS
GCTCATCTTGGGACTTGAAT+CGG 0.465641 4:-89913042 None:intergenic
CTTTGGCCTGGCGAAGGAAG+TGG 0.465990 4:-89912608 None:intergenic
TTGGGAGCTGAATCAGCTCC+AGG 0.466055 4:+89913178 MsaT023547.1:CDS
TCACTGTAAAACTTGTCAAA+AGG 0.474303 4:-89913298 None:intergenic
GCCTTTGTTAGTGGAGCGAC+CGG 0.474907 4:+89911953 MsaT023547.1:CDS
GGCCCAAGGTGTTATGTCAT+TGG 0.480316 4:+89912793 MsaT023547.1:CDS
CCATGTTCATGCACAGGAAA+AGG 0.480750 4:-89912368 None:intergenic
TCTGATGAGAAACCAATAGT+TGG 0.483041 4:-89912098 None:intergenic
ACTTATAGCACTTCTTTGCC+AGG 0.484285 4:+89912536 MsaT023547.1:CDS
TGTGGGCCAGCTGGAGGTAA+AGG 0.486896 4:-89912674 None:intergenic
ACGCCTAATGGAATAACAAC+AGG 0.488809 4:+89913364 MsaT023547.1:CDS
TTAGCATTTATTGATTCGAA+TGG 0.491940 4:-89912311 None:intergenic
ATAGATTTAGTTACCAGCGC+AGG 0.494952 4:-89912827 None:intergenic
TGGCTAGGTGCAGAGGCATT+GGG 0.497013 4:+89913160 MsaT023547.1:CDS
TGACACAGAAGGACCAGGAT+TGG 0.501011 4:-89912723 None:intergenic
ATCAGACCGGGTAGCTGATT+AGG 0.502180 4:-89912434 None:intergenic
CTGAAGAGGAGGAGTTCGAT+TGG 0.502985 4:+89912021 MsaT023547.1:CDS
GGCATGGACAGGTCGCAGTT+AGG 0.505187 4:+89913385 MsaT023547.1:CDS
CCACAAGTTGTGCACTGTCT+AGG 0.505428 4:-89913016 None:intergenic
TCATCAAAACATCTCTTTCG+CGG 0.506613 4:-89911834 None:intergenic
TAATTTGATTAGTTCACTCA+TGG 0.508846 4:+89912772 MsaT023547.1:CDS
AGAGCTCTAATTGATGCCTA+TGG 0.514260 4:+89911897 MsaT023547.1:CDS
AGCCAATGACATAACACCTT+GGG 0.518658 4:-89912795 None:intergenic
ACAGTGATGAAACGGAGGAT+TGG 0.518817 4:+89913314 MsaT023547.1:CDS
ACGGAGGATTGGATGTATAG+AGG 0.522404 4:+89913325 MsaT023547.1:CDS
CCATCACAAAATATTCAGAC+GGG 0.528028 4:-89913444 None:intergenic
AGCACAGAAGTCACATGGAT+TGG 0.529243 4:+89913062 MsaT023547.1:CDS
TGAAGAGGAGGAGTTCGATT+GGG 0.536389 4:+89912022 MsaT023547.1:CDS
CTCATAGCAGCACAATGTCC+TGG 0.542263 4:-89912554 None:intergenic
GGCTAATCAAGCCCCTGCGC+TGG 0.542720 4:+89912814 MsaT023547.1:CDS
AACAAGTTGTGCATTTGGCA+GGG 0.544007 4:-89912582 None:intergenic
AATATCCAACAGTTGGCTGT+TGG 0.544187 4:-89912748 None:intergenic
AAATTAGAATATCCAACAGT+TGG 0.545058 4:-89912755 None:intergenic
TGCAACTACTTCAGCGTCAA+GGG 0.545212 4:+89912145 MsaT023547.1:CDS
GAATAACAACAGGCATGGAC+AGG 0.551052 4:+89913374 MsaT023547.1:CDS
GCAATTCTTTGGCCTGGCGA+AGG 0.555122 4:-89912614 None:intergenic
GTTATGCCACTTCCTTCGCC+AGG 0.555543 4:+89912602 MsaT023547.1:CDS
TAGATTTAGTTACCAGCGCA+GGG 0.556762 4:-89912826 None:intergenic
ACAAGTTGTGCATTTGGCAG+GGG 0.557390 4:-89912581 None:intergenic
GGCGTTTGTCCACTGTTATG+CGG 0.558202 4:-89912467 None:intergenic
GTGCAACTACTTCAGCGTCA+AGG 0.559076 4:+89912144 MsaT023547.1:CDS
AGCAGAAGCCCTCTCGCAAG+TGG 0.560089 4:+89913119 MsaT023547.1:CDS
AGAATCTGGGGTAGAGCATG+TGG 0.560420 4:-89912692 None:intergenic
AAAGTTGCTGGCAGAACTGG+TGG 0.562453 4:-89912203 None:intergenic
TTCCTAACAGGATTCTTCGA+TGG 0.563320 4:-89912287 None:intergenic
CAAGTTGTGCATTTGGCAGG+GGG 0.563383 4:-89912580 None:intergenic
AGTAGTTGCACTTGCTGCAA+CGG 0.563425 4:-89912132 None:intergenic
AATCAAAAGATGCTTGCTGA+TGG 0.564765 4:+89911744 None:intergenic
ATTCTACCTAATCCCAATCC+TGG 0.565745 4:+89912710 MsaT023547.1:CDS
TGGCTTGACACAGAAGGACC+AGG 0.566253 4:-89912728 None:intergenic
CTACTATGGTCTACTAGTGT+CGG 0.567210 4:-89912056 None:intergenic
GGCTGTTGGCTTGACACAGA+AGG 0.567803 4:-89912734 None:intergenic
TCCATCACAAAATATTCAGA+CGG 0.568109 4:-89913445 None:intergenic
TCAAGCCAACAGCCAACTGT+TGG 0.568482 4:+89912743 MsaT023547.1:CDS
GACGCTGCTGGATCCTGAGA+TGG 0.569203 4:-89912506 None:intergenic
CGGGTTAGATGAAATCAGAC+CGG 0.570016 4:-89912447 None:intergenic
GTAGACCATAGTAGAAGTAA+TGG 0.573238 4:+89912065 MsaT023547.1:CDS
ATTAGTTCACTCATGGCCCA+AGG 0.574805 4:+89912779 MsaT023547.1:CDS
GTTTGATCCAAATCTTCTGA+AGG 0.578645 4:+89912952 MsaT023547.1:CDS
GGAGTTATGCTGGGAGGACG+CGG 0.578950 4:-89912257 None:intergenic
CAGCTCTTTCAGTTTCCTGG+GGG 0.579833 4:+89912640 MsaT023547.1:CDS
TCCGGTCGCTCCACTAACAA+AGG 0.582967 4:-89911954 None:intergenic
ATGCAGGGCACCTATGAAGA+AGG 0.583079 4:+89913966 MsaT023547.1:intron
ACAGCTCTTTCAGTTTCCTG+GGG 0.586349 4:+89912639 MsaT023547.1:CDS
CCTAGACAGTGCACAACTTG+TGG 0.586792 4:+89913016 MsaT023547.1:CDS
TCAACACCATGTTCATGCAC+AGG 0.588454 4:-89912374 None:intergenic
GTTGGCAGTTCTTGCTGACG+AGG 0.590256 4:+89913246 MsaT023547.1:CDS
GACGATGTGGCTAGGTGCAG+AGG 0.597079 4:+89913153 MsaT023547.1:CDS
GTGAGTGAGACGATGTGGCT+AGG 0.601495 4:+89913145 MsaT023547.1:CDS
TAATGGAATAACAACAGGCA+TGG 0.604751 4:+89913369 MsaT023547.1:CDS
AATAGTACCAGTGTGAGTAA+TGG 0.608110 4:+89912332 MsaT023547.1:CDS
AGAGCATGTGGGCCAGCTGG+AGG 0.611285 4:-89912680 None:intergenic
GGAAATATAGGAGTTATGCT+GGG 0.611878 4:-89912266 None:intergenic
AATTAGACCATTACTCACAC+TGG 0.612003 4:-89912339 None:intergenic
CTCACAAACCACTTGCGAGA+GGG 0.612344 4:-89913127 None:intergenic
GGGTTAGATGAAATCAGACC+GGG 0.617202 4:-89912446 None:intergenic
ATTGGGATTAGGTAGAATCT+GGG 0.617573 4:-89912705 None:intergenic
TAGCCAATGACATAACACCT+TGG 0.621234 4:-89912796 None:intergenic
TGCATTTAGCATGAATAATG+GGG 0.625810 4:-89913408 None:intergenic
ATGGCAGAATACTGAAGAGG+AGG 0.632607 4:+89912010 MsaT023547.1:CDS
ACTCACAAACCACTTGCGAG+AGG 0.632815 4:-89913128 None:intergenic
AGCTCTTTCAGTTTCCTGGG+GGG 0.634048 4:+89912641 MsaT023547.1:CDS
AGATGAGCACAGAAGTCACA+TGG 0.637659 4:+89913057 MsaT023547.1:CDS
GGGCCAGCTGGAGGTAAAGG+TGG 0.639466 4:-89912671 None:intergenic
CAGTTGCCTAATCAGCTACC+CGG 0.639744 4:+89912428 MsaT023547.1:CDS
ATAAGTTTATGACAACATCA+TGG 0.644139 4:+89911991 MsaT023547.1:CDS
CATCTTGGGACTTGAATCGG+AGG 0.650361 4:-89913039 None:intergenic
TCAATATTAGAATTGAGACC+AGG 0.653967 4:-89912173 None:intergenic
ATCATGGCAGAATACTGAAG+AGG 0.665757 4:+89912007 MsaT023547.1:CDS
AGATTTAGTTACCAGCGCAG+GGG 0.672730 4:-89912825 None:intergenic
TCATCTAACCCGCATAACAG+TGG 0.680332 4:+89912458 MsaT023547.1:CDS
GAATCTGGGGTAGAGCATGT+GGG 0.680646 4:-89912691 None:intergenic
CATCACAAAATATTCAGACG+GGG 0.686925 4:-89913443 None:intergenic
TTGGGATTAGGTAGAATCTG+GGG 0.686989 4:-89912704 None:intergenic
TTGCTGGCAGAACTGGTGGA+CGG 0.691595 4:-89912199 None:intergenic
GAGTTAAGCTATCTCAACAA+CGG 0.702080 4:+89911855 MsaT023547.1:CDS
AATATAGGAGTTATGCTGGG+AGG 0.735215 4:-89912263 None:intergenic
GGTTTGTGAGTGAGACGATG+TGG 0.738502 4:+89913140 MsaT023547.1:CDS
TTTGCCAACCGAGACCACTG+AGG 0.774441 4:+89913204 MsaT023547.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 89911753 89914016 89911753 ID=MsaG023547
Chr4 mRNA 89911753 89914016 89911753 ID=MsaT023547.1;Parent=MsaG023547
Chr4 exon 89911753 89912835 89911753 ID=MsaT023547.1.exon1;Parent=MsaT023547.1
Chr4 CDS 89911753 89912835 89911753 ID=cds.MsaT023547.1;Parent=MsaT023547.1
Chr4 exon 89912935 89913474 89912935 ID=MsaT023547.1.exon2;Parent=MsaT023547.1
Chr4 CDS 89912935 89913474 89912935 ID=cds.MsaT023547.1;Parent=MsaT023547.1
Chr4 exon 89913972 89914016 89913972 ID=MsaT023547.1.exon3;Parent=MsaT023547.1
Chr4 CDS 89913972 89914016 89913972 ID=cds.MsaT023547.1;Parent=MsaT023547.1
Gene Sequence

>MsaT023547.1

ATGCTTGCTGATGGTTTTCATCTTGGTGGGAATACTCGGAGCGAAATACCAAAGAATTCTTCATCAGTTATCTCAAACATTCCGCGAAAGAGATGTTTTGATGAGTTAAGCTATCTCAACAACGGACAACCGCGTCAAAATCCAAGAGCTCTAATTGATGCCTATGGTAGTGACAAAAGCCAAGAAACTTCTGGCAGTAAGCCTTTGTTAGTGGAGCGACCGGATAAAAACAGTATGGATAAGTTTATGACAACATCATGGCAGAATACTGAAGAGGAGGAGTTCGATTGGGAAGATATGAGTCCGACACTAGTAGACCATAGTAGAAGTAATGGTTTCTTGCAACCAACTATTGGTTTCTCATCAGAAAAGCCTGTTACCGTTGCAGCAAGTGCAACTACTTCAGCGTCAAGGGTGTTTCCTGGTCTCAATTCTAATATTGAGTACCGTCCACCAGTTCTGCCAGCAACTTTTGAAACGAGGCGCTCCATAAATGTGCATGCTCCGCGTCCTCCCAGCATAACTCCTATATTTCCATCGAAGAATCCTGTTAGGAATCCATTCGAATCAATAAATGCTAATAGTACCAGTGTGAGTAATGGTCTAATTAACAGACCTTTTCCTGTGCATGAACATGGTGTTGAGAACAACAATACCAGTAAAAGAAACCTGTATCAGTTGCCTAATCAGCTACCCGGTCTGATTTCATCTAACCCGCATAACAGTGGACAAACGCCACCATTCCGGTTTTTTCCATCTCAGGATCCAGCAGCGTCACAATTTACTTATAGCACTTCTTTGCCAGGACATTGTGCTGCTATGAGTAACCCCCTGCCAAATGCACAACTTGTTATGCCACTTCCTTCGCCAGGCCAAAGAATTGCAAACAGCTCTTTCAGTTTCCTGGGGGGAGCTTTGCCACCTTTACCTCCAGCTGGCCCACATGCTCTACCCCAGATTCTACCTAATCCCAATCCTGGTCCTTCTGTGTCAAGCCAACAGCCAACTGTTGGATATTCTAATTTGATTAGTTCACTCATGGCCCAAGGTGTTATGTCATTGGCTAATCAAGCCCCTGCGCTGGATTTTGTTGGCATTGAGTTTGATCCAAATCTTCTGAAGGTTCGTCATGAATCTGCAATCAGTGCCTTATATGGCGATCTTCCTAGACAGTGCACAACTTGTGGCCTCCGATTCAAGTCCCAAGATGAGCACAGAAGTCACATGGATTGGCATGTGACTAAGAACCGTATGTCTAAAATCCATAAGCAGAAGCCCTCTCGCAAGTGGTTTGTGAGTGAGACGATGTGGCTAGGTGCAGAGGCATTGGGAGCTGAATCAGCTCCAGGTTTTTTGCCAACCGAGACCACTGAGGAAAAGAAAGAAGATGAAGAGTTGGCAGTTCTTGCTGACGAGGACCAAAATACATGTGCATTATGTAGAGAACCTTTTGACAAGTTTTACAGTGATGAAACGGAGGATTGGATGTATAGAGGAGCTGTATACCTTAATACGCCTAATGGAATAACAACAGGCATGGACAGGTCGCAGTTAGGCCCCATTATTCATGCTAAATGCATATCTGAATCTACCCCGTCTGAATATTTTGTGATGGATGAAGGGGGCACCTATGAAGAAGGCAGCCAAAGAAAACGAATGCAGAGCTGA
Protein sequence

>MsaT023547.1

MLADGFHLGGNTRSEIPKNSSSVISNIPRKRCFDELSYLNNGQPRQNPRALIDAYGSDKSQETSGSKPLLVERPDKNSMDKFMTTSWQNTEEEEFDWEDMSPTLVDHSRSNGFLQPTIGFSSEKPVTVAASATTSASRVFPGLNSNIEYRPPVLPATFETRRSINVHAPRPPSITPIFPSKNPVRNPFESINANSTSVSNGLINRPFPVHEHGVENNNTSKRNLYQLPNQLPGLISSNPHNSGQTPPFRFFPSQDPAASQFTYSTSLPGHCAAMSNPLPNAQLVMPLPSPGQRIANSSFSFLGGALPPLPPAGPHALPQILPNPNPGPSVSSQQPTVGYSNLISSLMAQGVMSLANQAPALDFVGIEFDPNLLKVRHESAISALYGDLPRQCTTCGLRFKSQDEHRSHMDWHVTKNRMSKIHKQKPSRKWFVSETMWLGAEALGAESAPGFLPTETTEEKKEDEELAVLADEDQNTCALCREPFDKFYSDETEDWMYRGAVYLNTPNGITTGMDRSQLGPIIHAKCISESTPSEYFVMDEGGTYEEGSQRKRMQS*