AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029482


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029482 MtrunA17_Chr5g0444621 82.960 223 38 0 51 273 42 264 2.56e-133 379
MsaG029482 MtrunA17_Chr7g0224601 63.390 295 99 3 4 293 2 292 5.11e-116 336
MsaG029482 MtrunA17_Chr3g0099561 59.259 270 102 3 30 298 26 288 1.81e-104 307
MsaG029482 MtrunA17_Chr8g0392781 51.662 331 120 4 1 295 9 335 1.94e-102 303
MsaG029482 MtrunA17_Chr1g0177151 60.338 237 93 1 13 248 17 253 9.31e-98 288
MsaG029482 MtrunA17_Chr6g0477171 65.445 191 66 0 56 246 51 241 1.49e-78 239
MsaG029482 MtrunA17_Chr3g0083821 67.368 95 31 0 71 165 36 130 9.31e-38 130
MsaG029482 MtrunA17_Chr3g0083811 58.511 94 39 0 177 270 1 94 1.02e-28 106
MsaG029482 MtrunA17_Chr5g0444631 73.585 53 14 0 103 155 4 56 4.83e-19 79.3
MsaG029482 MtrunA17_Chr6g0477181 61.538 52 20 0 1 52 9 60 1.43e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029482 AT3G20800.1 57.621 269 109 2 26 293 35 299 1.28e-101 300
MsaG029482 AT5G12980.1 53.506 271 121 2 30 299 35 301 8.51e-93 278
MsaG029482 AT2G32550.3 30.804 224 147 3 53 268 37 260 7.13e-27 106
MsaG029482 AT2G32550.2 30.038 263 172 6 18 268 37 299 1.41e-26 106
MsaG029482 AT2G32550.1 29.756 205 136 3 72 268 1 205 6.11e-22 92.4

Find 55 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAAGACAATTGATGAAAT+TGG 0.182381 5:+77594062 None:intergenic
ATTTCAGATGACGTCATTTC+AGG 0.232530 5:-77596773 MsaT029482.1:intron
CCTTTATTGTGGAATTCTTT+TGG 0.239207 5:-77596742 MsaT029482.1:CDS
TATGAGCAGTGGTGCTAAAC+TGG 0.287121 5:+77597688 None:intergenic
TCCACTATGCTTGGGTTGTA+TGG 0.297190 5:-77594591 MsaT029482.1:CDS
CGATGTTCTTGCGCTACTTC+TGG 0.299500 5:-77595950 MsaT029482.1:intron
AAGGAAACTCATGACTTCTT+TGG 0.319816 5:+77594631 None:intergenic
CTTGGTAGTCTTGGAGTCAT+TGG 0.346879 5:-77595391 MsaT029482.1:CDS
CTTCATTTGTAGCTCCTCTC+AGG 0.352750 5:-77597719 MsaT029482.1:CDS
CCAAAAGAATTCCACAATAA+AGG 0.356330 5:+77596742 None:intergenic
AGAGCATTTGCTCTTAGATC+TGG 0.364235 5:+77597624 None:intergenic
TGAAATAATTCCACTATGCT+TGG 0.366345 5:-77594600 MsaT029482.1:CDS
TTGGAATCTTTGAGAATGTC+TGG 0.372338 5:+77594081 None:intergenic
TTAAATTACTTGTCGTTTGA+AGG 0.381214 5:+77595434 None:intergenic
AGGAATGACATCTTTGTATC+CGG 0.390087 5:+77595763 None:intergenic
AAAATGTTGTTAGACGTTGA+TGG 0.395577 5:-77594373 MsaT029482.1:CDS
TCTTGGAGTCATTGGTGCTT+TGG 0.402629 5:-77595383 MsaT029482.1:CDS
TTACTTGTCGTTTGAAGGAA+TGG 0.412465 5:+77595439 None:intergenic
GTTGTTAGACGTTGATGGTT+TGG 0.426908 5:-77594368 MsaT029482.1:CDS
GGTGGGTTCAAAGAATTCTA+AGG 0.427559 5:-77593496 MsaT029482.1:intron
CTCGTTTGTCTGAACATAGC+AGG 0.439986 5:-77594225 MsaT029482.1:intron
CACATTCGAGTTGATTGTGT+TGG 0.440645 5:+77595973 None:intergenic
GAAATAATTCCACTATGCTT+GGG 0.444586 5:-77594599 MsaT029482.1:CDS
CATAGTGGAATTATTTCACT+TGG 0.458939 5:+77594605 None:intergenic
TGGTTGAGGCTTGGTAGTCT+TGG 0.464688 5:-77595400 MsaT029482.1:CDS
TGTGTTGGAGTAAGATTTAG+TGG 0.471165 5:+77595988 None:intergenic
TGCTCTTCGTGTGCTTTCCA+AGG 0.477321 5:-77597607 MsaT029482.1:intron
GAATTATTTCACTTGGAAGA+AGG 0.485164 5:+77594612 None:intergenic
TAACACAATATGAGTGGTTG+AGG 0.491507 5:-77595414 MsaT029482.1:CDS
TTCAGGAAGATTCAACAACT+TGG 0.491745 5:-77593308 MsaT029482.1:intron
GAAAATTGACATTACCATTG+AGG 0.492991 5:+77595743 None:intergenic
AGGAGCTTGCACCTTTATTG+TGG 0.506558 5:-77596753 MsaT029482.1:CDS
TTCATTTGTAGCTCCTCTCA+GGG 0.519648 5:-77597718 MsaT029482.1:CDS
TAAAGAAGTGTCACATAGGT+GGG 0.529473 5:-77593513 MsaT029482.1:CDS
AGATTTAGTGGTGAAAGAGT+AGG 0.532575 5:+77596000 None:intergenic
AACGCCTTGTTATTGAACTT+AGG 0.532607 5:-77597650 MsaT029482.1:CDS
CAATATGAGTGGTTGAGGCT+TGG 0.532866 5:-77595409 MsaT029482.1:CDS
GTTGATGGTTTGGCTTATGT+TGG 0.552096 5:-77594358 MsaT029482.1:CDS
ACAAAGATGTCATTCCTCAA+TGG 0.552200 5:-77595757 MsaT029482.1:intron
TCCATACAACCCAAGCATAG+TGG 0.555182 5:+77594590 None:intergenic
TAGCACCACTGCTCATATGA+TGG 0.556679 5:-77597682 MsaT029482.1:CDS
GGAATGACATCTTTGTATCC+GGG 0.558198 5:+77595764 None:intergenic
AGTCATTGGTGCTTTGGTGA+AGG 0.559413 5:-77595377 MsaT029482.1:intron
TTAAAGAAGTGTCACATAGG+TGG 0.578021 5:-77593514 MsaT029482.1:CDS
AGGAAGATTCAACAACTTGG+AGG 0.584872 5:-77593305 MsaT029482.1:CDS
ATGAGCAGTGGTGCTAAACT+GGG 0.605309 5:+77597689 None:intergenic
GTAATTTAACACAATATGAG+TGG 0.620131 5:-77595420 MsaT029482.1:CDS
AAATTAAAGAAGTGTCACAT+AGG 0.625388 5:-77593517 MsaT029482.1:CDS
GTCCACCATCATATGAGCAG+TGG 0.629949 5:+77597677 None:intergenic
CACCACTGCTCATATGATGG+TGG 0.655595 5:-77597679 MsaT029482.1:CDS
GATTCCTAAGTTCAATAACA+AGG 0.670050 5:+77597646 None:intergenic
ATAGTGTGTAGCATCTCACC+CGG 0.679113 5:-77595782 MsaT029482.1:intron
AACTGGGTAGAAGCCCTGAG+AGG 0.696390 5:+77597705 None:intergenic
GGGTTGTATGGAAATCGACA+AGG 0.706182 5:-77594579 MsaT029482.1:CDS
ATTATAAGCTTCAACAAACG+AGG 0.715153 5:+77594259 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 77593298 77597760 77593298 ID=MsaG029482
Chr5 mRNA 77593298 77597760 77593298 ID=MsaT029482.1;Parent=MsaG029482
Chr5 exon 77593298 77593325 77593298 ID=MsaT029482.1.exon10;Parent=MsaT029482.1
Chr5 CDS 77593298 77593325 77593298 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77593497 77593549 77593497 ID=MsaT029482.1.exon9;Parent=MsaT029482.1
Chr5 CDS 77593497 77593549 77593497 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77594062 77594131 77594062 ID=MsaT029482.1.exon8;Parent=MsaT029482.1
Chr5 CDS 77594062 77594131 77594062 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77594226 77594416 77594226 ID=MsaT029482.1.exon7;Parent=MsaT029482.1
Chr5 CDS 77594226 77594416 77594226 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77594565 77594660 77594565 ID=MsaT029482.1.exon6;Parent=MsaT029482.1
Chr5 CDS 77594565 77594660 77594565 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77595378 77595484 77595378 ID=MsaT029482.1.exon5;Parent=MsaT029482.1
Chr5 CDS 77595378 77595484 77595378 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77595758 77595800 77595758 ID=MsaT029482.1.exon4;Parent=MsaT029482.1
Chr5 CDS 77595758 77595800 77595758 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77595951 77596040 77595951 ID=MsaT029482.1.exon3;Parent=MsaT029482.1
Chr5 CDS 77595951 77596040 77595951 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77596720 77596788 77596720 ID=MsaT029482.1.exon2;Parent=MsaT029482.1
Chr5 CDS 77596720 77596788 77596720 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Chr5 exon 77597608 77597760 77597608 ID=MsaT029482.1.exon1;Parent=MsaT029482.1
Chr5 CDS 77597608 77597760 77597608 ID=cds.MsaT029482.1;Parent=MsaT029482.1
Gene Sequence

>MsaT029482.1

ATGTCAACAAAGAGTGATGCTTCATTTGTAGCTCCTCTCAGGGCTTCTACCCAGTTTAGCACCACTGCTCATATGATGGTGGACATGAAACGCCTTGTTATTGAACTTAGGAATCCAGATCTAAGAGCAAATGCTCTTCGTGTGCTTTCCAAGATGACGTCATTTCAGGAGCTTGCACCTTTATTGTGGAATTCTTTTGGTACTATTACAATACTTGTGCAAGAAATAATTTCAATATATCCTACTCTTTCACCACTAAATCTTACTCCAACACAATCAACTCGAATGTGCGATGTTCTTGCGCTACTTCTGTGTGTAGCATCTCACCCGGATACAAAGATGTCATTCCTCAATGCTAACATGCACTTATATTTATATCCATTCCTTCAAACGACAAGTAATTTAACACAATATGAGTGGTTGAGGCTTGGTAGTCTTGGAGTCATTGGTGCTTTGGTGAAGGTTAACACCAAAGAAGTCATGAGTTTCCTTCTTCCAAGTGAAATAATTCCACTATGCTTGGGTTGTATGGAAATCGACAAGGAGCCATCAAAATCTGTTGGAACATTTATCATTCATAAAATGTTGTTAGACGTTGATGGTTTGGCTTATGTTGGTGATACAGCAGAGCAATTTTTTACAGTAGCTCGAGTTTTTGACATGATGCTGTCAAGTTTTGAGAATCAACATTCACCTCGTTTGTTGAAGCTTATAATTCGATGCTATTCTCGTTTGTCTGAACATAGCAGGGCTCGCAGTGCATTAACAAGTTGTCTTCCAGACATTCTCAAAGATTCCAATTTCATCAATTGTCTTCATAGGATGTTAAAAATTAAAGAAGTGTCACATAGGTGGGTTCAAAGAATTCTAAGGAAGATTCAACAACTTGGAGGTGCATAA

Protein sequence

>MsaT029482.1

MSTKSDASFVAPLRASTQFSTTAHMMVDMKRLVIELRNPDLRANALRVLSKMTSFQELAPLLWNSFGTITILVQEIISIYPTLSPLNLTPTQSTRMCDVLALLLCVASHPDTKMSFLNANMHLYLYPFLQTTSNLTQYEWLRLGSLGVIGALVKVNTKEVMSFLLPSEIIPLCLGCMEIDKEPSKSVGTFIIHKMLLDVDGLAYVGDTAEQFFTVARVFDMMLSSFENQHSPRLLKLIIRCYSRLSEHSRARSALTSCLPDILKDSNFINCLHRMLKIKEVSHRWVQRILRKIQQLGGA*