AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050323


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050323.t1 MTR_7g104540 95.322 171 6 1 10 178 1 171 3.01e-117 330
MS.gene050323.t1 MTR_1g059990 67.647 68 21 1 104 170 47 114 1.09e-27 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050323.t1 AT3G52740 49.180 122 52 2 66 180 18 136 4.50e-32 112
MS.gene050323.t1 AT3G44450 58.182 55 23 0 109 163 39 93 8.78e-16 70.1

Find 39 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCTTTATCATCATGGTTT+TGG 0.183603 7.2:+8304585 None:intergenic
TCCTCTTGACCCCATATTTC+AGG 0.201417 7.2:+8304368 None:intergenic
GAGTTTGGATTCCTGAAATA+TGG 0.212739 7.2:-8304379 MS.gene050323:CDS
GATAGCTCCTGTTTCTTCTA+TGG 0.252691 7.2:-8304501 MS.gene050323:CDS
TTGAAGTAGCTGGAAGAGTT+TGG 0.294041 7.2:-8304394 MS.gene050323:CDS
CACTATGGCACGTGCTGCTT+TGG 0.339934 7.2:-8304285 MS.gene050323:CDS
AGCAAAAGAGTTAACAACTA+TGG 0.376017 7.2:-8304468 MS.gene050323:CDS
CACCTGTTGTGTATAGTTAG+AGG 0.380745 7.2:+8304233 None:intergenic
CATCTTTATCTTTATCATCA+TGG 0.388480 7.2:+8304579 None:intergenic
AAGAGGATTTATTGAAGGAT+TGG 0.393645 7.2:-8304352 MS.gene050323:CDS
AGTTTGGATTCCTGAAATAT+GGG 0.425242 7.2:-8304378 MS.gene050323:CDS
AGTTCCAAGCAAGATCACTA+TGG 0.434204 7.2:-8304300 MS.gene050323:CDS
ACATCATCCATAGAAGAAAC+AGG 0.460873 7.2:+8304494 None:intergenic
CTCCTCTAACTATACACAAC+AGG 0.463941 7.2:-8304235 MS.gene050323:CDS
GGGTCAAGAGGATTTATTGA+AGG 0.475977 7.2:-8304357 MS.gene050323:CDS
CAAGATTCCTTCACACCCAT+TGG 0.482903 7.2:-8304690 MS.gene050323:CDS
GTGATCTTGCTTGGAACTAA+AGG 0.483762 7.2:+8304305 None:intergenic
TCCTTGTTGCAAAGAAGAGA+TGG 0.484001 7.2:+8304545 None:intergenic
AGGCATAGAGTTGAAGTAGC+TGG 0.488896 7.2:-8304404 MS.gene050323:CDS
AACAACTATGGATGAAGTAT+TGG 0.489801 7.2:-8304456 MS.gene050323:CDS
CTCATCTAAAGATGTCAACT+TGG 0.490619 7.2:-8304651 MS.gene050323:CDS
ATTGGTAAGACATTATGAAA+AGG 0.507200 7.2:+8304732 None:intergenic
CCTTGTTGCAAAGAAGAGAT+GGG 0.508262 7.2:+8304546 None:intergenic
CATCAGATTCAACAGAGGAT+TGG 0.517512 7.2:+8304714 None:intergenic
CGTGCCATAGTGATCTTGCT+TGG 0.523167 7.2:+8304296 None:intergenic
TATAGTTAGAGGAGCAGCAT+TGG 0.530992 7.2:+8304244 None:intergenic
CCCATCTCTTCTTTGCAACA+AGG 0.533413 7.2:-8304546 MS.gene050323:CDS
TTTGAGTCCAATGGGTGTGA+AGG 0.539347 7.2:+8304683 None:intergenic
GTTGACATCTTTAGATGAGT+GGG 0.544029 7.2:+8304655 None:intergenic
GTGAAAGAGAGAGGCTGAAG+AGG 0.548904 7.2:-8304424 MS.gene050323:CDS
TCCTGAAATATGGGGTCAAG+AGG 0.551314 7.2:-8304369 MS.gene050323:CDS
TATGGATGAAGTATTGGAAG+AGG 0.560016 7.2:-8304450 MS.gene050323:CDS
AGTTGACATCTTTAGATGAG+TGG 0.576084 7.2:+8304654 None:intergenic
CGTGCTGCTTTGGTTGAAGA+GGG 0.579273 7.2:-8304275 MS.gene050323:CDS
AAGAGGATAGTGAAAGAGAG+AGG 0.580510 7.2:-8304433 MS.gene050323:CDS
ACGTGCTGCTTTGGTTGAAG+AGG 0.593330 7.2:-8304276 MS.gene050323:CDS
TTGACATCTTTAGATGAGTG+GGG 0.627794 7.2:+8304656 None:intergenic
GTTTGGATTCCTGAAATATG+GGG 0.638334 7.2:-8304377 MS.gene050323:CDS
CTTGTCATCAGATTCAACAG+AGG 0.696844 7.2:+8304709 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTGGTAAGACATTATGAAA+AGG + chr7.2:8304249-8304268 None:intergenic 25.0%
! CATCTTTATCTTTATCATCA+TGG + chr7.2:8304402-8304421 None:intergenic 25.0%
!! TATCTTTATCATCATGGTTT+TGG + chr7.2:8304396-8304415 None:intergenic 25.0%
AACAACTATGGATGAAGTAT+TGG - chr7.2:8304522-8304541 MS.gene050323:CDS 30.0%
AAGAGGATTTATTGAAGGAT+TGG - chr7.2:8304626-8304645 MS.gene050323:CDS 30.0%
AGCAAAAGAGTTAACAACTA+TGG - chr7.2:8304510-8304529 MS.gene050323:CDS 30.0%
AGTTTGGATTCCTGAAATAT+GGG - chr7.2:8304600-8304619 MS.gene050323:CDS 30.0%
TTTGAGTGTTCAAAAAAGGA+GGG + chr7.2:8304369-8304388 None:intergenic 30.0%
!! ACCTTTTGAGTGTTCAAAAA+AGG + chr7.2:8304373-8304392 None:intergenic 30.0%
!! TTTTGAGTGTTCAAAAAAGG+AGG + chr7.2:8304370-8304389 None:intergenic 30.0%
!!! TCCTTTTTTGAACACTCAAA+AGG - chr7.2:8304369-8304388 MS.gene050323:CDS 30.0%
ACATCATCCATAGAAGAAAC+AGG + chr7.2:8304487-8304506 None:intergenic 35.0%
AGTTGACATCTTTAGATGAG+TGG + chr7.2:8304327-8304346 None:intergenic 35.0%
CTCATCTAAAGATGTCAACT+TGG - chr7.2:8304327-8304346 MS.gene050323:CDS 35.0%
GAGTTTGGATTCCTGAAATA+TGG - chr7.2:8304599-8304618 MS.gene050323:CDS 35.0%
GTTGACATCTTTAGATGAGT+GGG + chr7.2:8304326-8304345 None:intergenic 35.0%
GTTTGGATTCCTGAAATATG+GGG - chr7.2:8304601-8304620 MS.gene050323:CDS 35.0%
TTGACATCTTTAGATGAGTG+GGG + chr7.2:8304325-8304344 None:intergenic 35.0%
!! TATGGATGAAGTATTGGAAG+AGG - chr7.2:8304528-8304547 MS.gene050323:CDS 35.0%
AAGAGGATAGTGAAAGAGAG+AGG - chr7.2:8304545-8304564 MS.gene050323:CDS 40.0%
AGTTCCAAGCAAGATCACTA+TGG - chr7.2:8304678-8304697 MS.gene050323:CDS 40.0%
CACCTGTTGTGTATAGTTAG+AGG + chr7.2:8304748-8304767 None:intergenic 40.0%
CATCAGATTCAACAGAGGAT+TGG + chr7.2:8304267-8304286 None:intergenic 40.0%
CCTTGTTGCAAAGAAGAGAT+GGG + chr7.2:8304435-8304454 None:intergenic 40.0%
CTCCTCTAACTATACACAAC+AGG - chr7.2:8304743-8304762 MS.gene050323:CDS 40.0%
CTTGTCATCAGATTCAACAG+AGG + chr7.2:8304272-8304291 None:intergenic 40.0%
GGGTCAAGAGGATTTATTGA+AGG - chr7.2:8304621-8304640 MS.gene050323:CDS 40.0%
GTGATCTTGCTTGGAACTAA+AGG + chr7.2:8304676-8304695 None:intergenic 40.0%
TATAGTTAGAGGAGCAGCAT+TGG + chr7.2:8304737-8304756 None:intergenic 40.0%
TCCTTGTTGCAAAGAAGAGA+TGG + chr7.2:8304436-8304455 None:intergenic 40.0%
TTGAAGTAGCTGGAAGAGTT+TGG - chr7.2:8304584-8304603 MS.gene050323:CDS 40.0%
! GATAGCTCCTGTTTCTTCTA+TGG - chr7.2:8304477-8304496 MS.gene050323:CDS 40.0%
!!! GGGGTTTTTTTGAGTCCAAT+GGG + chr7.2:8304306-8304325 None:intergenic 40.0%
!!! TGGGGTTTTTTTGAGTCCAA+TGG + chr7.2:8304307-8304326 None:intergenic 40.0%
AGGCATAGAGTTGAAGTAGC+TGG - chr7.2:8304574-8304593 MS.gene050323:CDS 45.0%
CAAGATTCCTTCACACCCAT+TGG - chr7.2:8304288-8304307 MS.gene050323:CDS 45.0%
CCCATCTCTTCTTTGCAACA+AGG - chr7.2:8304432-8304451 MS.gene050323:CDS 45.0%
TCCTCTTGACCCCATATTTC+AGG + chr7.2:8304613-8304632 None:intergenic 45.0%
TCCTGAAATATGGGGTCAAG+AGG - chr7.2:8304609-8304628 MS.gene050323:CDS 45.0%
TTTGAGTCCAATGGGTGTGA+AGG + chr7.2:8304298-8304317 None:intergenic 45.0%
CGTGCCATAGTGATCTTGCT+TGG + chr7.2:8304685-8304704 None:intergenic 50.0%
GTGAAAGAGAGAGGCTGAAG+AGG - chr7.2:8304554-8304573 MS.gene050323:CDS 50.0%
!! ACGTGCTGCTTTGGTTGAAG+AGG - chr7.2:8304702-8304721 MS.gene050323:CDS 50.0%
!! CGTGCTGCTTTGGTTGAAGA+GGG - chr7.2:8304703-8304722 MS.gene050323:CDS 50.0%
!! CACTATGGCACGTGCTGCTT+TGG - chr7.2:8304693-8304712 MS.gene050323:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 8304229 8304771 8304229 ID=MS.gene050323
chr7.2 mRNA 8304229 8304771 8304229 ID=MS.gene050323.t1;Parent=MS.gene050323
chr7.2 exon 8304229 8304771 8304229 ID=MS.gene050323.t1.exon1;Parent=MS.gene050323.t1
chr7.2 CDS 8304229 8304771 8304229 ID=cds.MS.gene050323.t1;Parent=MS.gene050323.t1
Gene Sequence

>MS.gene050323

ATGAAAGAAAACAACAACCTTTTCATAATGTCTTACCAATCCTCTGTTGAATCTGATGACAAGATTCCTTCACACCCATTGGACTCAAAAAAACCCCACTCATCTAAAGATGTCAACTTGGAGACAAAACAAGATGACCCTCCTTTTTTGAACACTCAAAAGGTCCAAAACCATGATGATAAAGATAAAGATGCAACACAAAACCCATCTCTTCTTTGCAACAAGGAGAAAATGACACTATTGCAAGAGATAGCTCCTGTTTCTTCTATGGATGATGTTGAAGCAAAAGAGTTAACAACTATGGATGAAGTATTGGAAGAGGATAGTGAAAGAGAGAGGCTGAAGAGGCATAGAGTTGAAGTAGCTGGAAGAGTTTGGATTCCTGAAATATGGGGTCAAGAGGATTTATTGAAGGATTGGATAGATTGCACTGCATTTGATGCTCCTTTAGTTCCAAGCAAGATCACTATGGCACGTGCTGCTTTGGTTGAAGAGGGTACTAAAACCAATGCTGCTCCTCTAACTATACACAACAGGTGTTAG

Protein sequence

>MS.gene050323.t1

MKENNNLFIMSYQSSVESDDKIPSHPLDSKKPHSSKDVNLETKQDDPPFLNTQKVQNHDDKDKDATQNPSLLCNKEKMTLLQEIAPVSSMDDVEAKELTTMDEVLEEDSERERLKRHRVEVAGRVWIPEIWGQEDLLKDWIDCTAFDAPLVPSKITMARAALVEEGTKTNAAPLTIHNRC