AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene45555

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45555.t1 MTR_1g093095 75.000 36 9 0 135 170 99 134 4.27e-14 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene45555.t1 AT1G51220 44.505 182 73 8 6 170 27 197 6.26e-35 125
MS.gene45555.t1 AT3G20880 43.478 161 62 6 36 170 118 275 3.00e-28 108
MS.gene45555.t1 AT3G57670 38.596 171 60 3 44 170 67 236 1.13e-25 101
MS.gene45555.t1 AT1G34790 46.341 82 43 1 90 170 83 164 1.03e-18 81.3
MS.gene45555.t1 AT1G13290 45.783 83 31 2 88 170 52 120 1.14e-17 78.6
MS.gene45555.t1 AT1G08290 48.276 58 24 1 113 170 148 199 2.52e-13 67.0

Find 41 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGACCCCTGCTAACTTTATT+TGG 0.155591 2.1:+6172984 None:intergenic
CCAATGACTTCAATGGTTAT+TGG 0.191789 2.1:-6173343 MS.gene45555:CDS
TATAGAATGGAGGGTTATTT+AGG 0.265203 2.1:+6173315 None:intergenic
GTTACTGTGGCTTTGCATCT+AGG 0.282488 2.1:-6173098 MS.gene45555:CDS
AAAGATATGTTGTTACTATA+AGG 0.326372 2.1:+6173287 None:intergenic
CATGTTGTTGTATCTATTGA+AGG 0.358064 2.1:+6172890 None:intergenic
CATCATTTCCATGGAACTAA+AGG 0.398872 2.1:+6173175 None:intergenic
CCAATAACCATTGAAGTCAT+TGG 0.409520 2.1:+6173343 None:intergenic
CCCCTGCTAACTTTATTTGG+TGG 0.417549 2.1:+6172987 None:intergenic
AGAATCTTCCTTTAGTTCCA+TGG 0.448392 2.1:-6173183 MS.gene45555:CDS
CTTCATATTCATCATTTCCA+TGG 0.449667 2.1:+6173166 None:intergenic
TTACTGTGGCTTTGCATCTA+GGG 0.458041 2.1:-6173097 MS.gene45555:CDS
ATTGAAGTCATTGGAGAAGT+AGG 0.466777 2.1:+6173352 None:intergenic
ACCCCTGCTCAGATTCTAAT+CGG 0.468227 2.1:-6172948 MS.gene45555:CDS
GTCCACCAAATAAAGTTAGC+AGG 0.476481 2.1:-6172989 MS.gene45555:CDS
TCTCTTGGAGGTGGAGATGA+AGG 0.479256 2.1:+6173254 None:intergenic
AAAGGAAGAGCTTCTCTTGG+AGG 0.486389 2.1:+6173242 None:intergenic
AAATCAGATGAACTTATACT+TGG 0.487140 2.1:+6173071 None:intergenic
AGCAAAGGAAGAGCTTCTCT+TGG 0.490887 2.1:+6173239 None:intergenic
TACTTCTCCAATGACTTCAA+TGG 0.492298 2.1:-6173350 MS.gene45555:CDS
TTGAAGGTCTTGAAACAAAG+AGG 0.499110 2.1:+6172906 None:intergenic
TAAGGAAAATTATAGAATGG+AGG 0.508828 2.1:+6173305 None:intergenic
GGACCGATTAGAATCTGAGC+AGG 0.523985 2.1:+6172945 None:intergenic
CATGGAAATGATGAATATGA+AGG 0.524476 2.1:-6173165 MS.gene45555:CDS
GGAAGAGCTTCTCTTGGAGG+TGG 0.534319 2.1:+6173245 None:intergenic
AAGTTAGCAGGGGTCAGTAT+TGG 0.539092 2.1:-6172977 MS.gene45555:CDS
CTATAAGGAAAATTATAGAA+TGG 0.547263 2.1:+6173302 None:intergenic
ATTAGAATCTGAGCAGGGGT+AGG 0.550899 2.1:+6172951 None:intergenic
AAGGAAAATTATAGAATGGA+GGG 0.551334 2.1:+6173306 None:intergenic
TTGAAGTCATTGGAGAAGTA+GGG 0.551474 2.1:+6173353 None:intergenic
AGAGGGCATGAAAACTGTGT+TGG 0.560971 2.1:+6172924 None:intergenic
TCCACCAAATAAAGTTAGCA+GGG 0.568063 2.1:-6172988 MS.gene45555:CDS
TTAGAATCTGAGCAGGGGTA+GGG 0.569587 2.1:+6172952 None:intergenic
TGAAGGTCTTGAAACAAAGA+GGG 0.613383 2.1:+6172907 None:intergenic
GTAGGGCTTAGGTTAAGCAA+AGG 0.619991 2.1:+6173224 None:intergenic
GACCGATTAGAATCTGAGCA+GGG 0.623713 2.1:+6172946 None:intergenic
AGATGATGATGCCGTTACTG+TGG 0.634808 2.1:-6173111 MS.gene45555:CDS
CAATAGATACAACAACATGC+AGG 0.643534 2.1:-6172886 MS.gene45555:CDS
TAGATGCAAAGCCACAGTAA+CGG 0.646015 2.1:+6173100 None:intergenic
ACCGATTAGAATCTGAGCAG+GGG 0.690964 2.1:+6172947 None:intergenic
CCACCAAATAAAGTTAGCAG+GGG 0.692099 2.1:-6172987 MS.gene45555:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGATATGTTGTTACTATA+AGG + chr2.1:6172956-6172975 None:intergenic 20.0%
!! CTATAAGGAAAATTATAGAA+TGG + chr2.1:6172941-6172960 None:intergenic 20.0%
! AAATCAGATGAACTTATACT+TGG + chr2.1:6173172-6173191 None:intergenic 25.0%
! AAGGAAAATTATAGAATGGA+GGG + chr2.1:6172937-6172956 None:intergenic 25.0%
! TAAGGAAAATTATAGAATGG+AGG + chr2.1:6172938-6172957 None:intergenic 25.0%
CATGGAAATGATGAATATGA+AGG - chr2.1:6173075-6173094 MS.gene45555:CDS 30.0%
CATGTTGTTGTATCTATTGA+AGG + chr2.1:6173353-6173372 None:intergenic 30.0%
CTTCATATTCATCATTTCCA+TGG + chr2.1:6173077-6173096 None:intergenic 30.0%
TATAGAATGGAGGGTTATTT+AGG + chr2.1:6172928-6172947 None:intergenic 30.0%
! AGAAGATCTTCATGTTTTGT+AGG + chr2.1:6173037-6173056 None:intergenic 30.0%
! GAAGATCTTCATGTTTTGTA+GGG + chr2.1:6173036-6173055 None:intergenic 30.0%
ATTGAAGTCATTGGAGAAGT+AGG + chr2.1:6172891-6172910 None:intergenic 35.0%
CAATAGATACAACAACATGC+AGG - chr2.1:6173354-6173373 MS.gene45555:CDS 35.0%
CATCATTTCCATGGAACTAA+AGG + chr2.1:6173068-6173087 None:intergenic 35.0%
CCAATAACCATTGAAGTCAT+TGG + chr2.1:6172900-6172919 None:intergenic 35.0%
CCAATGACTTCAATGGTTAT+TGG - chr2.1:6172897-6172916 MS.gene45555:CDS 35.0%
TACTTCTCCAATGACTTCAA+TGG - chr2.1:6172890-6172909 MS.gene45555:CDS 35.0%
TCCACCAAATAAAGTTAGCA+GGG - chr2.1:6173252-6173271 MS.gene45555:CDS 35.0%
TGAAGGTCTTGAAACAAAGA+GGG + chr2.1:6173336-6173355 None:intergenic 35.0%
TTGAAGGTCTTGAAACAAAG+AGG + chr2.1:6173337-6173356 None:intergenic 35.0%
TTGAAGTCATTGGAGAAGTA+GGG + chr2.1:6172890-6172909 None:intergenic 35.0%
! AGAATCTTCCTTTAGTTCCA+TGG - chr2.1:6173057-6173076 MS.gene45555:CDS 35.0%
CCACCAAATAAAGTTAGCAG+GGG - chr2.1:6173253-6173272 MS.gene45555:CDS 40.0%
GTCCACCAAATAAAGTTAGC+AGG - chr2.1:6173251-6173270 MS.gene45555:CDS 40.0%
TAGATGCAAAGCCACAGTAA+CGG + chr2.1:6173143-6173162 None:intergenic 40.0%
TGACCCCTGCTAACTTTATT+TGG + chr2.1:6173259-6173278 None:intergenic 40.0%
! CTTCATGTTTTGTAGGGCTT+AGG + chr2.1:6173030-6173049 None:intergenic 40.0%
! TTACTGTGGCTTTGCATCTA+GGG - chr2.1:6173143-6173162 MS.gene45555:CDS 40.0%
AAAGGAAGAGCTTCTCTTGG+AGG + chr2.1:6173001-6173020 None:intergenic 45.0%
AAGTTAGCAGGGGTCAGTAT+TGG - chr2.1:6173263-6173282 MS.gene45555:CDS 45.0%
ACCCCTGCTCAGATTCTAAT+CGG - chr2.1:6173292-6173311 MS.gene45555:CDS 45.0%
ACCGATTAGAATCTGAGCAG+GGG + chr2.1:6173296-6173315 None:intergenic 45.0%
AGCAAAGGAAGAGCTTCTCT+TGG + chr2.1:6173004-6173023 None:intergenic 45.0%
ATTAGAATCTGAGCAGGGGT+AGG + chr2.1:6173292-6173311 None:intergenic 45.0%
GACCGATTAGAATCTGAGCA+GGG + chr2.1:6173297-6173316 None:intergenic 45.0%
GTAGGGCTTAGGTTAAGCAA+AGG + chr2.1:6173019-6173038 None:intergenic 45.0%
TTAGAATCTGAGCAGGGGTA+GGG + chr2.1:6173291-6173310 None:intergenic 45.0%
! AGAGGGCATGAAAACTGTGT+TGG + chr2.1:6173319-6173338 None:intergenic 45.0%
! AGATGATGATGCCGTTACTG+TGG - chr2.1:6173129-6173148 MS.gene45555:CDS 45.0%
! CCCCTGCTAACTTTATTTGG+TGG + chr2.1:6173256-6173275 None:intergenic 45.0%
! GTTACTGTGGCTTTGCATCT+AGG - chr2.1:6173142-6173161 MS.gene45555:CDS 45.0%
GGACCGATTAGAATCTGAGC+AGG + chr2.1:6173298-6173317 None:intergenic 50.0%
TCTCTTGGAGGTGGAGATGA+AGG + chr2.1:6172989-6173008 None:intergenic 50.0%
GGAAGAGCTTCTCTTGGAGG+TGG + chr2.1:6172998-6173017 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 6172875 6173387 6172875 ID=MS.gene45555
chr2.1 mRNA 6172875 6173387 6172875 ID=MS.gene45555.t1;Parent=MS.gene45555
chr2.1 exon 6172875 6173387 6172875 ID=MS.gene45555.t1.exon1;Parent=MS.gene45555.t1
chr2.1 CDS 6172875 6173387 6172875 ID=cds.MS.gene45555.t1;Parent=MS.gene45555.t1
Gene Sequence

>MS.gene45555

ATGAGTACTCATCCCTACTTCTCCAATGACTTCAATGGTTATTGGTTTGACCTAAATAACCCTCCATTCTATAATTTTCCTTATAGTAACAACATATCTTTTGCATCTTCTCCTTCATCTCCACCTCCAAGAGAAGCTCTTCCTTTGCTTAACCTAAGCCCTACAAAACATGAAGATCTTCTAGAATCTTCCTTTAGTTCCATGGAAATGATGAATATGAAGGAGAAAGAACTAAGCATATCATCAAATTCTTTAGATGATGATGCCGTTACTGTGGCTTTGCATCTAGGGCTTCCAAGTATAAGTTCATCTGATTTAGCTTCTTCAAATATTTACAAAGATGATGAAAAAGTAGTGACTGTTGATTCTTCTGAGTGTCCACCAAATAAAGTTAGCAGGGGTCAGTATTGGATCCCTACCCCTGCTCAGATTCTAATCGGTCCAACACAGTTTTCATGCCCTCTTTGTTTCAAGACCTTCAATAGATACAACAACATGCAGGTATATATTTAA
Protein sequence

>MS.gene45555.t1

MSTHPYFSNDFNGYWFDLNNPPFYNFPYSNNISFASSPSSPPPREALPLLNLSPTKHEDLLESSFSSMEMMNMKEKELSISSNSLDDDAVTVALHLGLPSISSSDLASSNIYKDDEKVVTVDSSECPPNKVSRGQYWIPTPAQILIGPTQFSCPLCFKTFNRYNNMQVYI