AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055895

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055895.t1 MTR_6g463260 98.276 116 2 0 1 116 412 527 6.46e-81 246
MS.gene055895.t1 MTR_5g011400 59.483 116 47 0 1 116 379 494 8.65e-49 162
MS.gene055895.t1 MTR_4g097540 45.299 117 63 1 1 116 321 437 1.75e-35 126
MS.gene055895.t1 MTR_6g091760 43.103 116 66 0 1 116 321 436 4.29e-34 122
MS.gene055895.t1 MTR_8g101820 42.857 112 64 0 1 112 300 411 1.36e-33 120
MS.gene055895.t1 MTR_8g101750 42.857 112 64 0 1 112 313 424 1.54e-33 120
MS.gene055895.t1 MTR_5g015020 40.870 115 67 1 1 114 319 433 1.96e-31 115
MS.gene055895.t1 MTR_3g103550 40.517 116 69 0 1 116 314 429 7.39e-29 108
MS.gene055895.t1 MTR_8g098930 37.719 114 71 0 1 114 322 435 6.76e-28 106
MS.gene055895.t1 MTR_8g028600 35.088 114 74 0 1 114 318 431 3.02e-23 93.2
MS.gene055895.t1 MTR_7g079080 37.069 116 73 0 1 116 214 329 7.02e-23 91.7
MS.gene055895.t1 MTR_7g079080 37.719 114 71 0 1 114 319 432 1.24e-22 91.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055895.t1 AT5G51690 58.621 116 48 0 1 116 254 369 5.14e-48 157
MS.gene055895.t1 AT1G62960 53.043 115 54 0 2 116 438 552 1.65e-47 160
MS.gene055895.t1 AT5G51690 58.621 116 48 0 1 116 377 492 7.52e-47 157
MS.gene055895.t1 AT4G37770 45.217 115 63 0 1 115 315 429 4.80e-37 130
MS.gene055895.t1 AT3G49700 44.828 116 64 0 1 116 315 430 5.81e-35 125
MS.gene055895.t1 AT2G22810 43.478 115 65 0 1 115 316 430 1.58e-34 124
MS.gene055895.t1 AT5G65800 43.966 116 65 0 1 116 315 430 2.22e-34 123
MS.gene055895.t1 AT4G08040 41.379 116 68 0 1 116 310 425 2.66e-33 120
MS.gene055895.t1 AT4G26200 41.739 115 67 0 1 115 328 442 2.75e-28 107
MS.gene055895.t1 AT3G61510 34.211 114 75 0 1 114 316 429 3.18e-25 99.0
MS.gene055895.t1 AT4G11280 37.838 111 69 0 1 111 323 433 6.23e-25 98.2
MS.gene055895.t1 AT1G01480 36.522 115 72 1 1 114 216 330 3.12e-23 92.4
MS.gene055895.t1 AT1G01480 36.522 115 72 1 1 114 322 436 4.41e-23 92.8

Find 29 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAAGGAGAACTTGAATTA+TGG 0.243969 6.2:+64273656 MS.gene055895:CDS
AGCACACTTGATTCCTAGTT+TGG 0.291076 6.2:-64273572 None:intergenic
TTCCGATAAACGATTCATTC+AGG 0.315188 6.2:+64273486 MS.gene055895:CDS
TTCCTGAATGAATCGTTTAT+CGG 0.368687 6.2:-64273488 None:intergenic
GAAAGGAGAACTTGAATTAT+GGG 0.372458 6.2:+64273657 MS.gene055895:CDS
AGTTCTCCTTTCTCGCTATA+AGG 0.388101 6.2:-64273646 None:intergenic
GCACCCGTCTTATTCTATTT+CGG 0.391124 6.2:-64273525 None:intergenic
AAATCCCTCTAGTTATTGAT+AGG 0.392176 6.2:+64273785 MS.gene055895:CDS
CTCTAGTTATTGATAGGATT+CGG 0.409149 6.2:+64273791 MS.gene055895:CDS
ATCAGACCTTATAGCGAGAA+AGG 0.438192 6.2:+64273640 MS.gene055895:CDS
GCAGCGCCGGTATGTTCTGT+TGG 0.448478 6.2:+64273599 MS.gene055895:CDS
CAGCGCCGGTATGTTCTGTT+GGG 0.459303 6.2:+64273600 MS.gene055895:CDS
ATGCAATGGCAAGCCGATCC+AGG 0.473529 6.2:-64273715 None:intergenic
GCTAAGATAAATATAACTCC+TGG 0.479435 6.2:+64273697 MS.gene055895:CDS
CCGTCTTATTCTATTTCGGT+TGG 0.485045 6.2:-64273521 None:intergenic
ACGGGTGCACAATGAGTTTG+TGG 0.494025 6.2:+64273540 MS.gene055895:CDS
GTGGATTGTTTAACCAAACT+AGG 0.523731 6.2:+64273559 MS.gene055895:CDS
GATAAATATAACTCCTGGAT+CGG 0.540003 6.2:+64273702 MS.gene055895:CDS
ACCATCCTGGTTCTATGCAA+TGG 0.546338 6.2:-64273729 None:intergenic
AAGTGTGCTAAGAGCAGCGC+CGG 0.573828 6.2:+64273586 MS.gene055895:CDS
GCCATTGCATAGAACCAGGA+TGG 0.576139 6.2:+64273728 MS.gene055895:CDS
TTCTGTTGGGCTGATATGAG+TGG 0.577234 6.2:+64273613 MS.gene055895:CDS
CGAATCCTATCAATAACTAG+AGG 0.584201 6.2:-64273790 None:intergenic
CAACCGAAATAGAATAAGAC+GGG 0.592241 6.2:+64273522 MS.gene055895:CDS
AAACAAATACGAAACCATCC+TGG 0.595378 6.2:-64273742 None:intergenic
GCTTGCCATTGCATAGAACC+AGG 0.608825 6.2:+64273724 MS.gene055895:CDS
CCAACCGAAATAGAATAAGA+CGG 0.633080 6.2:+64273521 MS.gene055895:CDS
ATCAGCCCAACAGAACATAC+CGG 0.634233 6.2:-64273605 None:intergenic
GAATCCTATCAATAACTAGA+GGG 0.646614 6.2:-64273789 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATCCCTCTAGTTATTGAT+AGG + chr6.2:64273785-64273804 MS.gene055895:CDS 30.0%
AGAAAGGAGAACTTGAATTA+TGG + chr6.2:64273656-64273675 MS.gene055895:CDS 30.0%
CTCTAGTTATTGATAGGATT+CGG + chr6.2:64273791-64273810 MS.gene055895:CDS 30.0%
GAAAGGAGAACTTGAATTAT+GGG + chr6.2:64273657-64273676 MS.gene055895:CDS 30.0%
GAATCCTATCAATAACTAGA+GGG - chr6.2:64273792-64273811 None:intergenic 30.0%
GATAAATATAACTCCTGGAT+CGG + chr6.2:64273702-64273721 MS.gene055895:CDS 30.0%
GCTAAGATAAATATAACTCC+TGG + chr6.2:64273697-64273716 MS.gene055895:CDS 30.0%
TTCCTGAATGAATCGTTTAT+CGG - chr6.2:64273491-64273510 None:intergenic 30.0%
! TTTTACAACTATATCGTTCG+AGG + chr6.2:64273762-64273781 MS.gene055895:CDS 30.0%
AAACAAATACGAAACCATCC+TGG - chr6.2:64273745-64273764 None:intergenic 35.0%
CAACCGAAATAGAATAAGAC+GGG + chr6.2:64273522-64273541 MS.gene055895:CDS 35.0%
CCAACCGAAATAGAATAAGA+CGG + chr6.2:64273521-64273540 MS.gene055895:CDS 35.0%
CGAATCCTATCAATAACTAG+AGG - chr6.2:64273793-64273812 None:intergenic 35.0%
TTCCGATAAACGATTCATTC+AGG + chr6.2:64273486-64273505 MS.gene055895:CDS 35.0%
! GTGGATTGTTTAACCAAACT+AGG + chr6.2:64273559-64273578 MS.gene055895:CDS 35.0%
AGCACACTTGATTCCTAGTT+TGG - chr6.2:64273575-64273594 None:intergenic 40.0%
AGTTCTCCTTTCTCGCTATA+AGG - chr6.2:64273649-64273668 None:intergenic 40.0%
ATCAGACCTTATAGCGAGAA+AGG + chr6.2:64273640-64273659 MS.gene055895:CDS 40.0%
! CCGTCTTATTCTATTTCGGT+TGG - chr6.2:64273524-64273543 None:intergenic 40.0%
! GCACCCGTCTTATTCTATTT+CGG - chr6.2:64273528-64273547 None:intergenic 40.0%
ATCAGCCCAACAGAACATAC+CGG - chr6.2:64273608-64273627 None:intergenic 45.0%
TTCTGTTGGGCTGATATGAG+TGG + chr6.2:64273613-64273632 MS.gene055895:CDS 45.0%
!! ACCATCCTGGTTCTATGCAA+TGG - chr6.2:64273732-64273751 None:intergenic 45.0%
ACGGGTGCACAATGAGTTTG+TGG + chr6.2:64273540-64273559 MS.gene055895:CDS 50.0%
GCCATTGCATAGAACCAGGA+TGG + chr6.2:64273728-64273747 MS.gene055895:CDS 50.0%
GCTTGCCATTGCATAGAACC+AGG + chr6.2:64273724-64273743 MS.gene055895:CDS 50.0%
AAGTGTGCTAAGAGCAGCGC+CGG + chr6.2:64273586-64273605 MS.gene055895:CDS 55.0%
ATGCAATGGCAAGCCGATCC+AGG - chr6.2:64273718-64273737 None:intergenic 55.0%
!! CAGCGCCGGTATGTTCTGTT+GGG + chr6.2:64273600-64273619 MS.gene055895:CDS 55.0%
!! GCAGCGCCGGTATGTTCTGT+TGG + chr6.2:64273599-64273618 MS.gene055895:CDS 60.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 64273481 64273829 64273481 ID=MS.gene055895
chr6.2 mRNA 64273481 64273829 64273481 ID=MS.gene055895.t1;Parent=MS.gene055895
chr6.2 exon 64273481 64273829 64273481 ID=MS.gene055895.t1.exon1;Parent=MS.gene055895.t1
chr6.2 CDS 64273481 64273829 64273481 ID=cds.MS.gene055895.t1;Parent=MS.gene055895.t1
Gene Sequence

>MS.gene055895

ATGCTTTCCGATAAACGATTCATTCAGGAATACATTGAAACCAACCGAAATAGAATAAGACGGGTGCACAATGAGTTTGTGGATTGTTTAACCAAACTAGGAATCAAGTGTGCTAAGAGCAGCGCCGGTATGTTCTGTTGGGCTGATATGAGTGGTTTAATCAGACCTTATAGCGAGAAAGGAGAACTTGAATTATGGGAGAAGTTTATGAGTGTTGCTAAGATAAATATAACTCCTGGATCGGCTTGCCATTGCATAGAACCAGGATGGTTTCGTATTTGTTTTACAACTATATCGTTCGAGGAAATCCCTCTAGTTATTGATAGGATTCGGAAAGTTGTTGAAAGTT
Protein sequence

>MS.gene055895.t1

MLSDKRFIQEYIETNRNRIRRVHNEFVDCLTKLGIKCAKSSAGMFCWADMSGLIRPYSEKGELELWEKFMSVAKINITPGSACHCIEPGWFRICFTTISFEEIPLVIDRIRKVVES