AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene31867


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31867.t1 MTR_1g029600 93.839 211 12 1 1 211 1 210 1.49e-145 404
MS.gene31867.t1 MTR_1g029610 76.555 209 49 0 1 209 1 209 1.17e-119 352
MS.gene31867.t1 MTR_8g088780 45.455 220 101 5 8 209 5 223 1.46e-52 178
MS.gene31867.t1 MTR_2g006910 43.458 214 109 5 6 209 6 217 7.45e-50 171
MS.gene31867.t1 MTR_2g006910 43.458 214 109 5 6 209 6 217 7.73e-50 171
MS.gene31867.t1 MTR_8g088760 38.500 200 110 6 18 205 17 215 1.33e-36 135
MS.gene31867.t1 MTR_4g076660 42.188 128 71 2 86 211 1 127 2.33e-29 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene31867.t1 AT1G11050 42.188 192 104 4 25 210 26 216 6.36e-39 141

Find 34 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATCTCTTCTTAGTCTCTT+TGG 0.194083 1.4:+14686136 MS.gene31867:CDS
GTTGGTATTGTGAATCATTT+TGG 0.240330 1.4:+14686535 MS.gene31867:CDS
GAAAGAGTGAAGTTTCTTTC+AGG 0.244676 1.4:-14686177 None:intergenic
CAGAAGGAGTAGCTATGATA+AGG 0.380662 1.4:-14686015 None:intergenic
TTGTAAAGGTGATTTGAAAT+CGG 0.388227 1.4:+14686402 MS.gene31867:CDS
CAACAATGTTGTGTGTCAAT+TGG 0.393976 1.4:-14686112 None:intergenic
TGTGTCAATTGGGTCTCTGC+AGG 0.430262 1.4:-14686101 None:intergenic
CTTCTTAGTCTCTTTGGCAT+AGG 0.437265 1.4:+14686142 MS.gene31867:CDS
CTTTACAAGAAGTGTCTAAA+GGG 0.447705 1.4:-14686387 None:intergenic
TAAGGGTGAAGAGGAGGAGA+AGG 0.460180 1.4:-14685997 None:intergenic
CCTTTAGACACTTCTTGTAA+AGG 0.468879 1.4:+14686388 MS.gene31867:CDS
AACAATGTTGTGTGTCAATT+GGG 0.477153 1.4:-14686111 None:intergenic
TGCAGCACGTGCACTAATGC+TGG 0.478276 1.4:+14686433 MS.gene31867:CDS
GTATCACAAACATCAAAGAT+TGG 0.490764 1.4:+14686341 MS.gene31867:CDS
CTATGATAAGGGTGAAGAGG+AGG 0.492847 1.4:-14686003 None:intergenic
CCTTTACAAGAAGTGTCTAA+AGG 0.505136 1.4:-14686388 None:intergenic
TAGCTATGATAAGGGTGAAG+AGG 0.511716 1.4:-14686006 None:intergenic
GCTACAGCTAGTTGTATACT+TGG 0.511927 1.4:+14686571 MS.gene31867:CDS
AGAAGGAGTAGCTATGATAA+GGG 0.514017 1.4:-14686014 None:intergenic
TTCTGCAGTATCATGTCCTA+TGG 0.534711 1.4:+14686039 MS.gene31867:CDS
AAGAAGGGACTAACGAAGGT+TGG 0.536160 1.4:-14686270 None:intergenic
TGACAAATTGAGTTGAGTTG+TGG 0.541730 1.4:-14686297 None:intergenic
TCAACATAGCTGAGATCCAT+AGG 0.544235 1.4:-14686055 None:intergenic
ACAAACAACTCAAGCTGCGC+AGG 0.551790 1.4:+14686319 MS.gene31867:CDS
GTTGAGTTGTGGAAACAAGA+AGG 0.556459 1.4:-14686286 None:intergenic
AGTATACAACTAGCTGTAGC+AGG 0.563837 1.4:-14686568 None:intergenic
CTAGCTGTAGCAGGATCTGT+AGG 0.582604 1.4:-14686559 None:intergenic
CTATGTTGAGACCTTTCCAT+GGG 0.598491 1.4:+14686069 MS.gene31867:CDS
CTGCAGGTTGATGTGTCCCA+TGG 0.599274 1.4:-14686085 None:intergenic
CATGATACTGCAGAAGCAGA+AGG 0.601540 1.4:-14686031 None:intergenic
GGTTGATGTGTCCCATGGAA+AGG 0.611152 1.4:-14686080 None:intergenic
TTGAGTTGTGGAAACAAGAA+GGG 0.613460 1.4:-14686285 None:intergenic
GCTATGTTGAGACCTTTCCA+TGG 0.614762 1.4:+14686068 MS.gene31867:CDS
AAACAAGAAGGGACTAACGA+AGG 0.740560 1.4:-14686274 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTAAAGTGTTTTTATTA+GGG - chr1.4:14686207-14686226 None:intergenic 10.0%
!!! GATTTTAAAGTGTTTTTATT+AGG - chr1.4:14686208-14686227 None:intergenic 15.0%
!! TTGTAAAGGTGATTTGAAAT+CGG + chr1.4:14686402-14686421 MS.gene31867:CDS 25.0%
!!! TTTTCAGTTTTATATGCTGT+TGG + chr1.4:14686517-14686536 MS.gene31867:CDS 25.0%
AAAGATTGGAAGCAAAAAGT+TGG + chr1.4:14686355-14686374 MS.gene31867:CDS 30.0%
AACAATGTTGTGTGTCAATT+GGG - chr1.4:14686114-14686133 None:intergenic 30.0%
GTATCACAAACATCAAAGAT+TGG + chr1.4:14686341-14686360 MS.gene31867:CDS 30.0%
! GTTGGTATTGTGAATCATTT+TGG + chr1.4:14686535-14686554 MS.gene31867:CDS 30.0%
!! CTTTACAAGAAGTGTCTAAA+GGG - chr1.4:14686390-14686409 None:intergenic 30.0%
!!! AAGCACTTAGTTGCATTTTT+TGG - chr1.4:14686493-14686512 None:intergenic 30.0%
AGAAGGAGTAGCTATGATAA+GGG - chr1.4:14686017-14686036 None:intergenic 35.0%
CAACAATGTTGTGTGTCAAT+TGG - chr1.4:14686115-14686134 None:intergenic 35.0%
CAATCTCTTCTTAGTCTCTT+TGG + chr1.4:14686136-14686155 MS.gene31867:CDS 35.0%
CCTTTAGACACTTCTTGTAA+AGG + chr1.4:14686388-14686407 MS.gene31867:CDS 35.0%
GAAAGAGTGAAGTTTCTTTC+AGG - chr1.4:14686180-14686199 None:intergenic 35.0%
! TTGAGTTGTGGAAACAAGAA+GGG - chr1.4:14686288-14686307 None:intergenic 35.0%
!! CCTTTACAAGAAGTGTCTAA+AGG - chr1.4:14686391-14686410 None:intergenic 35.0%
!! TGACAAATTGAGTTGAGTTG+TGG - chr1.4:14686300-14686319 None:intergenic 35.0%
AAACAAGAAGGGACTAACGA+AGG - chr1.4:14686277-14686296 None:intergenic 40.0%
AGTATACAACTAGCTGTAGC+AGG - chr1.4:14686571-14686590 None:intergenic 40.0%
CAGAAGGAGTAGCTATGATA+AGG - chr1.4:14686018-14686037 None:intergenic 40.0%
CTATGTTGAGACCTTTCCAT+GGG + chr1.4:14686069-14686088 MS.gene31867:CDS 40.0%
CTTCTTAGTCTCTTTGGCAT+AGG + chr1.4:14686142-14686161 MS.gene31867:CDS 40.0%
GCTACAGCTAGTTGTATACT+TGG + chr1.4:14686571-14686590 MS.gene31867:CDS 40.0%
TAGCTATGATAAGGGTGAAG+AGG - chr1.4:14686009-14686028 None:intergenic 40.0%
TCAACATAGCTGAGATCCAT+AGG - chr1.4:14686058-14686077 None:intergenic 40.0%
TTCTGCAGTATCATGTCCTA+TGG + chr1.4:14686039-14686058 MS.gene31867:CDS 40.0%
! GTTGAGTTGTGGAAACAAGA+AGG - chr1.4:14686289-14686308 None:intergenic 40.0%
AAGAAGGGACTAACGAAGGT+TGG - chr1.4:14686273-14686292 None:intergenic 45.0%
CATGATACTGCAGAAGCAGA+AGG - chr1.4:14686034-14686053 None:intergenic 45.0%
CTATGATAAGGGTGAAGAGG+AGG - chr1.4:14686006-14686025 None:intergenic 45.0%
GCTATGTTGAGACCTTTCCA+TGG + chr1.4:14686068-14686087 MS.gene31867:CDS 45.0%
ACAAACAACTCAAGCTGCGC+AGG + chr1.4:14686319-14686338 MS.gene31867:CDS 50.0%
CTAGCTGTAGCAGGATCTGT+AGG - chr1.4:14686562-14686581 None:intergenic 50.0%
TAAGGGTGAAGAGGAGGAGA+AGG - chr1.4:14686000-14686019 None:intergenic 50.0%
TGTGTCAATTGGGTCTCTGC+AGG - chr1.4:14686104-14686123 None:intergenic 50.0%
! GGTTGATGTGTCCCATGGAA+AGG - chr1.4:14686083-14686102 None:intergenic 50.0%
TGCAGCACGTGCACTAATGC+TGG + chr1.4:14686433-14686452 MS.gene31867:CDS 55.0%
!! CTGCAGGTTGATGTGTCCCA+TGG - chr1.4:14686088-14686107 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 14685977 14686612 14685977 ID=MS.gene31867
chr1.4 mRNA 14685977 14686612 14685977 ID=MS.gene31867.t1;Parent=MS.gene31867
chr1.4 exon 14685977 14686612 14685977 ID=MS.gene31867.t1.exon1;Parent=MS.gene31867.t1
chr1.4 CDS 14685977 14686612 14685977 ID=cds.MS.gene31867.t1;Parent=MS.gene31867.t1
Gene Sequence

>MS.gene31867

ATGGATAACAAAGCAATGTTCCTTCTCCTCCTCTTCACCCTTATCATAGCTACTCCTTCTGCTTCTGCAGTATCATGTCCTATGGATCTCAGCTATGTTGAGACCTTTCCATGGGACACATCAACCTGCAGAGACCCAATTGACACACAACATTGTTGTCAATCTCTTCTTAGTCTCTTTGGCATAGGACTTGCAAAACACCTGAAAGAAACTTCACTCTTTCAACTCCCTAATAAAAACACTTTAAAATCTTGCTTACAAGATTTCAAACTCAAACTTTCATGCTCAAAGATCCAACCTTCGTTAGTCCCTTCTTGTTTCCACAACTCAACTCAATTTGTCACAAACAACTCAAGCTGCGCAGGTATCACAAACATCAAAGATTGGAAGCAAAAAGTTGGTAGAATTAGCCCTTTAGACACTTCTTGTAAAGGTGATTTGAAATCGGACACTAGTTGCAGCACGTGCACTAATGCTGGTTTCAAAGTCACTTCTCAGCTTACAAGTATTGATCCAAAAAATGCAACTAAGTGCTTTTTCTTTTCAGTTTTATATGCTGTTGGTATTGTGAATCATTTTGGTCCTACAGATCCTGCTACAGCTAGTTGTATACTTGGTATCCCACTTAGAAGATGA

Protein sequence

>MS.gene31867.t1

MDNKAMFLLLLFTLIIATPSASAVSCPMDLSYVETFPWDTSTCRDPIDTQHCCQSLLSLFGIGLAKHLKETSLFQLPNKNTLKSCLQDFKLKLSCSKIQPSLVPSCFHNSTQFVTNNSSCAGITNIKDWKQKVGRISPLDTSCKGDLKSDTSCSTCTNAGFKVTSQLTSIDPKNATKCFFFSVLYAVGIVNHFGPTDPATASCILGIPLRR