AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023045.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023045.01.T01 MTR_8g085630 94.828 116 6 0 1 116 306 421 1.44e-67 211
MsG0480023045.01.T01 MTR_5g064750 66.667 108 36 0 1 108 291 398 4.92e-45 152
MsG0480023045.01.T01 MTR_1g112950 44.248 113 62 1 1 113 290 401 1.06e-26 103
MsG0480023045.01.T01 MTR_5g005160 47.273 110 57 1 1 110 275 383 1.16e-26 103
MsG0480023045.01.T01 MTR_5g026780 43.363 113 63 1 1 113 311 422 1.57e-23 94.4
MsG0480023045.01.T01 MTR_5g026780 43.363 113 63 1 1 113 295 406 1.65e-23 94.4
MsG0480023045.01.T01 MTR_0031s0060 42.857 112 63 1 1 112 380 490 3.59e-22 90.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023045.01.T01 AT3G13620 68.142 113 36 0 1 113 294 406 9.38e-49 162
MsG0480023045.01.T01 AT3G19553 52.252 111 52 1 1 111 288 397 1.98e-30 113
MsG0480023045.01.T01 AT1G31820 46.903 113 59 1 1 113 300 411 1.01e-26 103
MsG0480023045.01.T01 AT5G05630 41.593 113 65 1 1 113 319 430 1.34e-26 102
MsG0480023045.01.T01 AT1G31830 41.593 113 65 1 1 113 297 408 4.25e-24 95.9
MsG0480023045.01.T01 AT1G31830 41.593 113 65 1 1 113 313 424 4.46e-24 95.9

Find 18 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGTTCCACTTGGATTATT+TGG 0.196544 4:+80135287 MsG0480023045.01.T01:CDS
TACAATGAAACGACCTTATA+AGG 0.253963 4:+80135268 MsG0480023045.01.T01:CDS
TTGAAATATTGGATGGAAAT+TGG 0.269249 4:+80134969 None:intergenic
AATCCAAGTGGAACCTTATA+AGG 0.308677 4:-80135281 None:intergenic
GTATAGTTTAGGGATGCTTT+TGG 0.333266 4:+80135208 MsG0480023045.01.T01:CDS
TTATAAGGTCGTTTCATTGT+AGG 0.398852 4:-80135266 None:intergenic
TATAAGGTCGTTTCATTGTA+GGG 0.413037 4:-80135265 None:intergenic
CAAAGTGGTTTAACCACCCT+TGG 0.456877 4:+80135102 MsG0480023045.01.T01:CDS
CGACCTTATAAGGTTCCACT+TGG 0.461269 4:+80135278 MsG0480023045.01.T01:CDS
ACATAAACCAACAGCACAGA+TGG 0.538480 4:-80135328 None:intergenic
TTGCTTCTTTCCTTAAGTTG+AGG 0.541531 4:+80135234 MsG0480023045.01.T01:CDS
GAAATCAAAATTGCCATCCA+AGG 0.547509 4:-80135119 None:intergenic
GTGGTTTAACCACCCTTGGA+TGG 0.551216 4:+80135106 MsG0480023045.01.T01:CDS
ATTTCAACAATAATATCACT+TGG 0.558408 4:+80135137 MsG0480023045.01.T01:CDS
ATCAAACCAAATAATCCAAG+TGG 0.591406 4:-80135293 None:intergenic
AAATCAAAATTGCCATCCAA+GGG 0.623675 4:-80135118 None:intergenic
TCAAAATTGCCATCCAAGGG+TGG 0.629098 4:-80135115 None:intergenic
TATTTGGTGAAAGGTCAAAG+TGG 0.630257 4:+80135087 MsG0480023045.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTAATTTTTTGTATAGTTTA+GGG + Chr4:80135198-80135217 MsG0480023045.01.T01:CDS 10.0%
!!! GTTAATTTTTTGTATAGTTT+AGG + Chr4:80135197-80135216 MsG0480023045.01.T01:CDS 15.0%
!! ACTATACAAAAAATTAACAG+TGG - Chr4:80135195-80135214 None:intergenic 20.0%
!! ATTTCAACAATAATATCACT+TGG + Chr4:80135137-80135156 MsG0480023045.01.T01:CDS 20.0%
! GGATTCATACCAAAAATATT+TGG + Chr4:80135071-80135090 MsG0480023045.01.T01:CDS 25.0%
!! TACCAAAAATATTTGGTGAA+AGG + Chr4:80135078-80135097 MsG0480023045.01.T01:CDS 25.0%
AAATCAAAATTGCCATCCAA+GGG - Chr4:80135121-80135140 None:intergenic 30.0%
ATCAAACCAAATAATCCAAG+TGG - Chr4:80135296-80135315 None:intergenic 30.0%
TACAATGAAACGACCTTATA+AGG + Chr4:80135268-80135287 MsG0480023045.01.T01:CDS 30.0%
TATAAGGTCGTTTCATTGTA+GGG - Chr4:80135268-80135287 None:intergenic 30.0%
TTATAAGGTCGTTTCATTGT+AGG - Chr4:80135269-80135288 None:intergenic 30.0%
! GACCTTTCACCAAATATTTT+TGG - Chr4:80135083-80135102 None:intergenic 30.0%
!!! GGAATTTTTTCCTCAACTTA+AGG - Chr4:80135247-80135266 None:intergenic 30.0%
AAGGTTCCACTTGGATTATT+TGG + Chr4:80135287-80135306 MsG0480023045.01.T01:CDS 35.0%
AATCCAAGTGGAACCTTATA+AGG - Chr4:80135284-80135303 None:intergenic 35.0%
GAAATCAAAATTGCCATCCA+AGG - Chr4:80135122-80135141 None:intergenic 35.0%
! AGTGCTGCATATCAACTTTT+AGG + Chr4:80135035-80135054 MsG0480023045.01.T01:CDS 35.0%
! GTATAGTTTAGGGATGCTTT+TGG + Chr4:80135208-80135227 MsG0480023045.01.T01:CDS 35.0%
! TATTTGGTGAAAGGTCAAAG+TGG + Chr4:80135087-80135106 MsG0480023045.01.T01:CDS 35.0%
! TTGCTTCTTTCCTTAAGTTG+AGG + Chr4:80135234-80135253 MsG0480023045.01.T01:CDS 35.0%
!! ACTTTTAGGTATGTCTGACT+TGG + Chr4:80135049-80135068 MsG0480023045.01.T01:CDS 35.0%
!! CTTTTAGGTATGTCTGACTT+GGG + Chr4:80135050-80135069 MsG0480023045.01.T01:CDS 35.0%
!!! GGTGCTGTTTTGTCAATTAT+TGG + Chr4:80134990-80135009 MsG0480023045.01.T01:CDS 35.0%
ACATAAACCAACAGCACAGA+TGG - Chr4:80135331-80135350 None:intergenic 40.0%
! TTTTGTTCCATCTGTGCTGT+TGG + Chr4:80135321-80135340 MsG0480023045.01.T01:CDS 40.0%
CAAAGTGGTTTAACCACCCT+TGG + Chr4:80135102-80135121 MsG0480023045.01.T01:CDS 45.0%
CGACCTTATAAGGTTCCACT+TGG + Chr4:80135278-80135297 MsG0480023045.01.T01:CDS 45.0%
TCAAAATTGCCATCCAAGGG+TGG - Chr4:80135118-80135137 None:intergenic 45.0%
GTGGTTTAACCACCCTTGGA+TGG + Chr4:80135106-80135125 MsG0480023045.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 80134981 80135352 80134981 ID=MsG0480023045.01;Name=MsG0480023045.01
Chr4 mRNA 80134981 80135352 80134981 ID=MsG0480023045.01.T01;Parent=MsG0480023045.01;Name=MsG0480023045.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|123
Chr4 exon 80134981 80135352 80134981 ID=MsG0480023045.01.T01:exon:23634;Parent=MsG0480023045.01.T01
Chr4 CDS 80134981 80135352 80134981 ID=MsG0480023045.01.T01:cds;Parent=MsG0480023045.01.T01
Gene Sequence

>MsG0480023045.01.T01

ATGGAAATTGGTGCTGTTTTGTCAATTATTGGATTATTTGAAGCTCAATTAAGTAGTGCTGCATATCAACTTTTAGGTATGTCTGACTTGGGATTCATACCAAAAATATTTGGTGAAAGGTCAAAGTGGTTTAACCACCCTTGGATGGCAATTTTGATTTCAACAATAATATCACTTGGTATGTCTTTTTTTAGTTTTACAGAGATTATATCCACTGTTAATTTTTTGTATAGTTTAGGGATGCTTTTGGAGTTTGCTTCTTTCCTTAAGTTGAGGAAAAAATTCCCTACAATGAAACGACCTTATAAGGTTCCACTTGGATTATTTGGTTTGATTTTGTTTTTGTTCCATCTGTGCTGTTGGTTTATGTGA

Protein sequence

>MsG0480023045.01.T01

MEIGAVLSIIGLFEAQLSSAAYQLLGMSDLGFIPKIFGERSKWFNHPWMAILISTIISLGMSFFSFTEIISTVNFLYSLGMLLEFASFLKLRKKFPTMKRPYKVPLGLFGLILFLFHLCCWFM*