AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056675

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056675.t1 MTR_4g069220 91.346 104 9 0 1 104 1 104 1.89e-68 200
MS.gene056675.t1 MTR_4g069170 74.038 104 27 0 1 104 1 104 8.21e-54 163
MS.gene056675.t1 MTR_4g069200 56.190 105 44 2 1 104 1 104 2.89e-38 124
MS.gene056675.t1 MTR_4g069210 44.660 103 49 2 1 103 1 95 2.32e-22 86.7
MS.gene056675.t1 MTR_7g052640 41.748 103 57 1 2 104 5 104 6.58e-21 80.5
MS.gene056675.t1 MTR_5g094210 33.654 104 60 4 2 104 7 102 1.21e-11 56.6
MS.gene056675.t1 MTR_3g055250 36.667 90 49 3 7 96 4 85 2.06e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056675.t1 AT5G48485 41.558 77 42 1 28 104 29 102 2.39e-14 63.5
MS.gene056675.t1 AT5G48490 36.634 101 60 2 5 104 4 101 3.13e-14 63.2

Find 30 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAGGGTTGCTTTCTTTCTA+TGG 0.215569 4.3:-36092226 MS.gene056675:CDS
CTATGTCGTTATAAGGATTC+AGG 0.249484 4.3:-36092244 MS.gene056675:CDS
TCCTGTTAACTGTAAGCTTA+TGG 0.254280 4.3:-36092176 MS.gene056675:CDS
TCAATGCCTATGTCGTTATA+AGG 0.293667 4.3:-36092251 MS.gene056675:CDS
AATACCATGATGTTGGTTAA+TGG 0.374528 4.3:-36092400 MS.gene056675:CDS
AGTGGTGACAATTCTGTTAA+TGG 0.378651 4.3:-36092322 MS.gene056675:CDS
TCCATAAGCTTACAGTTAAC+AGG 0.382556 4.3:+36092175 None:intergenic
GGAAGTTCCATGGCTTGGTT+AGG 0.427875 4.3:+36092196 None:intergenic
TAGGCATTGAAGATCGGCTT+TGG 0.464541 4.3:+36092264 None:intergenic
ATTAACCAACATCATGGTAT+TGG 0.470830 4.3:+36092402 None:intergenic
TAACAGGAAGTTCCATGGCT+TGG 0.486774 4.3:+36092191 None:intergenic
TATGATTGTGGCGATGTTGT+TGG 0.507427 4.3:-36092431 MS.gene056675:CDS
GCCATCTGATGCTTGCTGCT+CGG 0.514604 4.3:-36092293 MS.gene056675:CDS
TATGTCGTTATAAGGATTCA+GGG 0.530226 4.3:-36092243 MS.gene056675:CDS
CTGAATCCTTATAACGACAT+AGG 0.550946 4.3:+36092245 None:intergenic
AGAGATGGAGGCATACAAGC+AGG 0.551353 4.3:-36092455 None:intergenic
ACAGTTAACAGGAAGTTCCA+TGG 0.568806 4.3:+36092186 None:intergenic
CTGACCATTAACCAACATCA+TGG 0.570185 4.3:+36092396 None:intergenic
GCCGAGCAGCAAGCATCAGA+TGG 0.582470 4.3:+36092292 None:intergenic
ACGACATAGGCATTGAAGAT+CGG 0.583458 4.3:+36092258 None:intergenic
CGACACCACATGACTAGCAA+TGG 0.585787 4.3:+36092146 None:intergenic
CATGACAAAACAAGGACTGA+AGG 0.588836 4.3:-36092362 MS.gene056675:CDS
GAATTGTCACCACTCACATA+CGG 0.589033 4.3:+36092331 None:intergenic
ATACAAGCAGGTTATGATTG+TGG 0.602790 4.3:-36092443 MS.gene056675:CDS
CAACATCATGGTATTGGCAA+TGG 0.605291 4.3:+36092408 None:intergenic
CATTGCCAATACCATGATGT+TGG 0.609484 4.3:-36092407 MS.gene056675:CDS
TTATGTCACATGACAAAACA+AGG 0.627195 4.3:-36092370 MS.gene056675:CDS
TATTGATCCTAACCAAGCCA+TGG 0.632800 4.3:-36092203 MS.gene056675:CDS
ACCACATGACTAGCAATGGA+AGG 0.644022 4.3:+36092150 None:intergenic
GCATGCGAGCCGTATGTGAG+TGG 0.699980 4.3:-36092340 MS.gene056675:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATTAACCAACATCATGGTAT+TGG + chr4.3:36092211-36092230 None:intergenic 30.0%
TATGTCGTTATAAGGATTCA+GGG - chr4.3:36092367-36092386 MS.gene056675:CDS 30.0%
TTATGTCACATGACAAAACA+AGG - chr4.3:36092240-36092259 MS.gene056675:CDS 30.0%
! AATACCATGATGTTGGTTAA+TGG - chr4.3:36092210-36092229 MS.gene056675:CDS 30.0%
AGTGGTGACAATTCTGTTAA+TGG - chr4.3:36092288-36092307 MS.gene056675:CDS 35.0%
ATACAAGCAGGTTATGATTG+TGG - chr4.3:36092167-36092186 MS.gene056675:CDS 35.0%
CTATGTCGTTATAAGGATTC+AGG - chr4.3:36092366-36092385 MS.gene056675:CDS 35.0%
CTGAATCCTTATAACGACAT+AGG + chr4.3:36092368-36092387 None:intergenic 35.0%
TCAATGCCTATGTCGTTATA+AGG - chr4.3:36092359-36092378 MS.gene056675:CDS 35.0%
TCCATAAGCTTACAGTTAAC+AGG + chr4.3:36092438-36092457 None:intergenic 35.0%
TCCTGTTAACTGTAAGCTTA+TGG - chr4.3:36092434-36092453 MS.gene056675:CDS 35.0%
ACAGTTAACAGGAAGTTCCA+TGG + chr4.3:36092427-36092446 None:intergenic 40.0%
CATGACAAAACAAGGACTGA+AGG - chr4.3:36092248-36092267 MS.gene056675:CDS 40.0%
CATTGCCAATACCATGATGT+TGG - chr4.3:36092203-36092222 MS.gene056675:CDS 40.0%
CTGACCATTAACCAACATCA+TGG + chr4.3:36092217-36092236 None:intergenic 40.0%
GAATTGTCACCACTCACATA+CGG + chr4.3:36092282-36092301 None:intergenic 40.0%
TATGATTGTGGCGATGTTGT+TGG - chr4.3:36092179-36092198 MS.gene056675:CDS 40.0%
TATTGATCCTAACCAAGCCA+TGG - chr4.3:36092407-36092426 MS.gene056675:CDS 40.0%
! TCAGGGTTGCTTTCTTTCTA+TGG - chr4.3:36092384-36092403 MS.gene056675:CDS 40.0%
!! ACGACATAGGCATTGAAGAT+CGG + chr4.3:36092355-36092374 None:intergenic 40.0%
!! CAACATCATGGTATTGGCAA+TGG + chr4.3:36092205-36092224 None:intergenic 40.0%
TAACAGGAAGTTCCATGGCT+TGG + chr4.3:36092422-36092441 None:intergenic 45.0%
!! TAGGCATTGAAGATCGGCTT+TGG + chr4.3:36092349-36092368 None:intergenic 45.0%
!! GGAAGTTCCATGGCTTGGTT+AGG + chr4.3:36092417-36092436 None:intergenic 50.0%
! GCCATCTGATGCTTGCTGCT+CGG - chr4.3:36092317-36092336 MS.gene056675:CDS 55.0%
GCATGCGAGCCGTATGTGAG+TGG - chr4.3:36092270-36092289 MS.gene056675:CDS 60.0%
GCCGAGCAGCAAGCATCAGA+TGG + chr4.3:36092321-36092340 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 36092159 36092473 36092159 ID=MS.gene056675
chr4.3 mRNA 36092159 36092473 36092159 ID=MS.gene056675.t1;Parent=MS.gene056675
chr4.3 exon 36092159 36092473 36092159 ID=MS.gene056675.t1.exon1;Parent=MS.gene056675.t1
chr4.3 CDS 36092159 36092473 36092159 ID=cds.MS.gene056675.t1;Parent=MS.gene056675.t1
Gene Sequence

>MS.gene056675

ATGGAGGCATACAAGCAGGTTATGATTGTGGCGATGTTGTTGGCCATTGCCAATACCATGATGTTGGTTAATGGTCAGTCGTTATGTCACATGACAAAACAAGGACTGAAGGCATGCGAGCCGTATGTGAGTGGTGACAATTCTGTTAATGGTCAAAAGCCATCTGATGCTTGCTGCTCGGCTATTGCCAAAGCCGATCTTCAATGCCTATGTCGTTATAAGGATTCAGGGTTGCTTTCTTTCTATGGTATTGATCCTAACCAAGCCATGGAACTTCCTGTTAACTGTAAGCTTATGGACTCCTTCCATTGCTAG
Protein sequence

>MS.gene056675.t1

MEAYKQVMIVAMLLAIANTMMLVNGQSLCHMTKQGLKACEPYVSGDNSVNGQKPSDACCSAIAKADLQCLCRYKDSGLLSFYGIDPNQAMELPVNCKLMDSFHC