AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene014199

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene014199.t1 MTR_3g118110 100.000 132 0 0 1 132 64 195 1.28e-95 275
MS.gene014199.t1 MTR_3g109260 71.631 141 37 1 1 141 1 138 2.48e-71 211
MS.gene014199.t1 MTR_3g118110 87.209 86 11 0 1 86 64 149 2.77e-49 156
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene014199.t1 AT1G02140 83.453 139 23 0 3 141 2 140 6.29e-85 246

Find 30 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCTGTGCTTAAGCAGTTT+TGG 0.314323 3.4:-100153656 None:intergenic
TCCTTTACTACTTCCAAGAT+TGG 0.348725 3.4:+100153533 MS.gene014199:CDS
TAAAAGATGCGAAGGCCTTC+AGG 0.353524 3.4:-100153587 None:intergenic
CAGGAACTTGAGATTGTTAT+GGG 0.355218 3.4:+100153497 MS.gene014199:CDS
TCAGGAACTTGAGATTGTTA+TGG 0.374992 3.4:+100153496 MS.gene014199:CDS
CGACCAACACGGTCTGGTTC+AGG 0.414314 3.4:-100153473 None:intergenic
GAGATACTACGTTGGTCATA+AGG 0.416637 3.4:+100153159 MS.gene014199:CDS
ATCAACAAGAGAACCAATCT+TGG 0.427300 3.4:-100153546 None:intergenic
ACCAGACCGTGTTGGTCGTC+AGG 0.432239 3.4:+100153478 MS.gene014199:CDS
GTTGGTCATAAGGGTAAATT+CGG 0.435065 3.4:+100153169 MS.gene014199:CDS
TTTGGTATGCTTAAATTTGA+AGG 0.452213 3.4:-100153638 None:intergenic
TCCTGACGACCAACACGGTC+TGG 0.460919 3.4:-100153479 None:intergenic
ATAAACCTCCTTACGAATGA+TGG 0.480860 3.4:-100153269 None:intergenic
ACCAATCTTGGAAGTAGTAA+AGG 0.483775 3.4:-100153534 None:intergenic
AGATACTACGTTGGTCATAA+GGG 0.498454 3.4:+100153160 MS.gene014199:CDS
TGAAGGAGGATGATAACAAC+TGG 0.499238 3.4:+100153450 MS.gene014199:CDS
GCATAACGAAGCTTACCATC+TGG 0.517649 3.4:-100153220 None:intergenic
CGACACTCACGAAGAACAGC+AGG 0.558457 3.4:-100153298 None:intergenic
TCAACAACAACAGATTATGA+AGG 0.558662 3.4:+100153433 MS.gene014199:intron
GAGTTTGAGTTCCGTCCAGA+TGG 0.565284 3.4:+100153205 MS.gene014199:CDS
CAAGATAGTAAAAGATGCGA+AGG 0.565769 3.4:-100153595 None:intergenic
CGATACCATCATTCGTAAGG+AGG 0.567991 3.4:+100153264 MS.gene014199:CDS
AAACGATACCATCATTCGTA+AGG 0.579284 3.4:+100153261 MS.gene014199:CDS
CAAAGCAGTGCTGATCCTGA+AGG 0.593679 3.4:+100153572 MS.gene014199:CDS
AACGAAGCTTACCATCTGGA+CGG 0.634567 3.4:-100153216 None:intergenic
ACAACAACAGATTATGAAGG+AGG 0.642882 3.4:+100153436 MS.gene014199:intron
CAAGTTCCTGACGACCAACA+CGG 0.649649 3.4:-100153484 None:intergenic
TGGCCTGAACCAGACCGTGT+TGG 0.677826 3.4:+100153470 MS.gene014199:CDS
TCGTATTATTTCTGACAGCG+AGG 0.703758 3.4:+100153321 MS.gene014199:CDS
AGGAACTTGAGATTGTTATG+GGG 0.708397 3.4:+100153498 MS.gene014199:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTATAAGCAATAATAAAAA+AGG - chr3.4:100153408-100153427 None:intergenic 15.0%
!! AATAATAAAAAAGGAAAAGG+GGG - chr3.4:100153399-100153418 None:intergenic 20.0%
!! AGCAATAATAAAAAAGGAAA+AGG - chr3.4:100153402-100153421 None:intergenic 20.0%
!! CAATAATAAAAAAGGAAAAG+GGG - chr3.4:100153400-100153419 None:intergenic 20.0%
!! GCAATAATAAAAAAGGAAAA+GGG - chr3.4:100153401-100153420 None:intergenic 20.0%
! ATAATAAAAAAGGAAAAGGG+GGG - chr3.4:100153398-100153417 None:intergenic 25.0%
! TTTGGTATGCTTAAATTTGA+AGG - chr3.4:100153641-100153660 None:intergenic 25.0%
!! TAAATTCGGACATGAATTTT+TGG + chr3.4:100153183-100153202 MS.gene014199:CDS 25.0%
TAATAAAAAAGGAAAAGGGG+GGG - chr3.4:100153397-100153416 None:intergenic 30.0%
TCAACAACAACAGATTATGA+AGG + chr3.4:100153433-100153452 MS.gene014199:intron 30.0%
! CATCTTTTACTATCTTGTTC+AGG + chr3.4:100153601-100153620 MS.gene014199:CDS 30.0%
! TTTTACTTGAGATACTACGT+TGG + chr3.4:100153151-100153170 MS.gene014199:CDS 30.0%
!! GATGGTATCGTTTTTGTAAT+TGG - chr3.4:100153254-100153273 None:intergenic 30.0%
AAACGATACCATCATTCGTA+AGG + chr3.4:100153261-100153280 MS.gene014199:CDS 35.0%
ACAACAACAGATTATGAAGG+AGG + chr3.4:100153436-100153455 MS.gene014199:intron 35.0%
ACCAATCTTGGAAGTAGTAA+AGG - chr3.4:100153537-100153556 None:intergenic 35.0%
AGATACTACGTTGGTCATAA+GGG + chr3.4:100153160-100153179 MS.gene014199:CDS 35.0%
AGGAACTTGAGATTGTTATG+GGG + chr3.4:100153498-100153517 MS.gene014199:CDS 35.0%
ATAAACCTCCTTACGAATGA+TGG - chr3.4:100153272-100153291 None:intergenic 35.0%
ATCAACAAGAGAACCAATCT+TGG - chr3.4:100153549-100153568 None:intergenic 35.0%
CAAGATAGTAAAAGATGCGA+AGG - chr3.4:100153598-100153617 None:intergenic 35.0%
CAGGAACTTGAGATTGTTAT+GGG + chr3.4:100153497-100153516 MS.gene014199:CDS 35.0%
GTTGGTCATAAGGGTAAATT+CGG + chr3.4:100153169-100153188 MS.gene014199:CDS 35.0%
TCAGGAACTTGAGATTGTTA+TGG + chr3.4:100153496-100153515 MS.gene014199:CDS 35.0%
TCCTTTACTACTTCCAAGAT+TGG + chr3.4:100153533-100153552 MS.gene014199:CDS 35.0%
! TATCTGTGCTTAAGCAGTTT+TGG - chr3.4:100153659-100153678 None:intergenic 35.0%
GAGATACTACGTTGGTCATA+AGG + chr3.4:100153159-100153178 MS.gene014199:CDS 40.0%
TGAAGGAGGATGATAACAAC+TGG + chr3.4:100153450-100153469 MS.gene014199:CDS 40.0%
!! TCGTATTATTTCTGACAGCG+AGG + chr3.4:100153321-100153340 MS.gene014199:CDS 40.0%
AACGAAGCTTACCATCTGGA+CGG - chr3.4:100153219-100153238 None:intergenic 45.0%
CGATACCATCATTCGTAAGG+AGG + chr3.4:100153264-100153283 MS.gene014199:CDS 45.0%
GAAAAGGGGGGGTGAAATTA+GGG - chr3.4:100153386-100153405 None:intergenic 45.0%
GCATAACGAAGCTTACCATC+TGG - chr3.4:100153223-100153242 None:intergenic 45.0%
TAAAAGATGCGAAGGCCTTC+AGG - chr3.4:100153590-100153609 None:intergenic 45.0%
CAAGTTCCTGACGACCAACA+CGG - chr3.4:100153487-100153506 None:intergenic 50.0%
GGAAAAGGGGGGGTGAAATT+AGG - chr3.4:100153387-100153406 None:intergenic 50.0%
GGGGGGTGAAATTAGGGTTA+GGG - chr3.4:100153380-100153399 None:intergenic 50.0%
! GAGTTTGAGTTCCGTCCAGA+TGG + chr3.4:100153205-100153224 MS.gene014199:CDS 50.0%
!! CAAAGCAGTGCTGATCCTGA+AGG + chr3.4:100153572-100153591 MS.gene014199:CDS 50.0%
CGACACTCACGAAGAACAGC+AGG - chr3.4:100153301-100153320 None:intergenic 55.0%
GGGGGGGTGAAATTAGGGTT+AGG - chr3.4:100153381-100153400 None:intergenic 55.0%
TCCTGACGACCAACACGGTC+TGG - chr3.4:100153482-100153501 None:intergenic 60.0%
TGGCCTGAACCAGACCGTGT+TGG + chr3.4:100153470-100153489 MS.gene014199:CDS 60.0%
! ACCAGACCGTGTTGGTCGTC+AGG + chr3.4:100153478-100153497 MS.gene014199:CDS 60.0%
! CGACCAACACGGTCTGGTTC+AGG - chr3.4:100153476-100153495 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 100153124 100153679 100153124 ID=MS.gene014199
chr3.4 mRNA 100153124 100153679 100153124 ID=MS.gene014199.t1;Parent=MS.gene014199
chr3.4 exon 100153124 100153342 100153124 ID=MS.gene014199.t1.exon1;Parent=MS.gene014199.t1
chr3.4 CDS 100153124 100153342 100153124 ID=cds.MS.gene014199.t1;Parent=MS.gene014199.t1
chr3.4 exon 100153446 100153679 100153446 ID=MS.gene014199.t1.exon2;Parent=MS.gene014199.t1
chr3.4 CDS 100153446 100153679 100153446 ID=cds.MS.gene014199.t1;Parent=MS.gene014199.t1
Gene Sequence

>MS.gene014199

ATGGGAAGCGAAGAAGAGAATGCAGAGTTTTACTTGAGATACTACGTTGGTCATAAGGGTAAATTCGGACATGAATTTTTGGAGTTTGAGTTCCGTCCAGATGGTAAGCTTCGTTATGCTAACAATTCCAATTACAAAAACGATACCATCATTCGTAAGGAGGTTTATCTTACTCCTGCTGTTCTTCGTGAGTGTCGTCGTATTATTTCTGACAGCGAGGTATTCTTCTTTTCTTTTCTTTTCTTTTTACTAACCCTAACCCTAATTTCACCCCCCCTTTTCCTTTTTTATTATTGCTTATAACTCTATTCAACAACAACAGATTATGAAGGAGGATGATAACAACTGGCCTGAACCAGACCGTGTTGGTCGTCAGGAACTTGAGATTGTTATGGGGAATGAGCATATCTCCTTTACTACTTCCAAGATTGGTTCTCTTGTTGATGTTCAAAGCAGTGCTGATCCTGAAGGCCTTCGCATCTTTTACTATCTTGTTCAGGTCTGTCAGATTCTTCCTTCAAATTTAAGCATACCAAAACTGCTTAAGCACAGATAA
Protein sequence

>MS.gene014199.t1

MGSEEENAEFYLRYYVGHKGKFGHEFLEFEFRPDGKLRYANNSNYKNDTIIRKEVYLTPAVLRECRRIISDSEIMKEDDNNWPEPDRVGRQELEIVMGNEHISFTTSKIGSLVDVQSSADPEGLRIFYYLVQVCQILPSNLSIPKLLKHR