AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051719


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051719.t1 MTR_7g055747 97.665 257 6 0 1 257 173 429 6.71e-180 501
MS.gene051719.t1 MTR_7g055560 97.665 257 6 0 1 257 173 429 6.71e-180 501
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051719.t1 AT3G25130 45.902 183 73 5 93 254 228 405 1.01e-35 131

Find 46 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAGACTAAATGAAGATTT+TGG 0.193613 7.3:+49867075 MS.gene051719:CDS
TCAACAGGGAAGATGAATTT+AGG 0.246896 7.3:+49867429 MS.gene051719:CDS
TGTTCTAATCTTGGAAGTTT+TGG 0.255756 7.3:+49867156 MS.gene051719:CDS
ACACTATGGTCCATTGAAAA+TGG 0.271896 7.3:+49866997 MS.gene051719:CDS
GTTTAGTGAGGATGAGTTAG+AGG 0.283368 7.3:+49867359 MS.gene051719:CDS
TCCAATACCTTTCAAAGCTT+TGG 0.297202 7.3:-49867481 None:intergenic
TCCAAAGCTTTGAAAGGTAT+TGG 0.299212 7.3:+49867480 MS.gene051719:CDS
GAAGAAGTTTGTTCTAATCT+TGG 0.301550 7.3:+49867147 MS.gene051719:CDS
AGAAGTAGTCAAGCCTATAT+TGG 0.332436 7.3:+49866939 MS.gene051719:CDS
TGAGGATGAGTTAGAGGAAG+AGG 0.350921 7.3:+49867365 MS.gene051719:CDS
TTGAATTTAGTATCCAATAT+AGG 0.358936 7.3:-49866952 None:intergenic
CAAGCTTTGAAATTCTCAAC+AGG 0.378595 7.3:+49867414 MS.gene051719:CDS
GTGAAGGAATGGATATGCTT+TGG 0.388433 7.3:+49867259 MS.gene051719:CDS
GGACGTAGTTGAATCCATTA+AGG 0.402615 7.3:+49866828 MS.gene051719:CDS
GAGTATGGTGGAAAAGGTAT+AGG 0.411829 7.3:+49867117 MS.gene051719:CDS
AGTATGGTGGAAAAGGTATA+GGG 0.423952 7.3:+49867118 MS.gene051719:CDS
TTGGAGAATTTGACAAGGTT+AGG 0.431973 7.3:-49867462 None:intergenic
TGAAGGAATGGATATGCTTT+GGG 0.440242 7.3:+49867260 MS.gene051719:CDS
AAGAAAAGTAACACAAAGAA+AGG 0.440269 7.3:+49867315 MS.gene051719:CDS
AGAAAATGTGTCTTGTGAAA+AGG 0.452614 7.3:+49866909 MS.gene051719:CDS
GTCTCTATTACCCTTCACTT+TGG 0.467195 7.3:-49867022 None:intergenic
GAGTTAGAGGAAGAGGAGGT+AGG 0.471390 7.3:+49867372 MS.gene051719:CDS
TTGCATCATGTAGGCAAGAA+TGG 0.480234 7.3:+49867507 MS.gene051719:CDS
AATTGGGAGTATGGTGGAAA+AGG 0.481166 7.3:+49867111 MS.gene051719:CDS
GAGAGACATAATAATAGTGA+TGG 0.502040 7.3:+49867234 MS.gene051719:CDS
AGAAAACAAAGTTGAGAAAG+TGG 0.508967 7.3:+49866807 MS.gene051719:CDS
GGATACTAAATTCAATAAAG+TGG 0.514253 7.3:+49866960 MS.gene051719:CDS
AGGGAAGATGAATTTAGGAA+TGG 0.516981 7.3:+49867434 MS.gene051719:CDS
AAGCTTTGAAAGGTATTGGA+TGG 0.532498 7.3:+49867484 MS.gene051719:CDS
TAGTGATGGAAGTGAAGGAA+TGG 0.536155 7.3:+49867248 MS.gene051719:CDS
GGGAAGATGAATTTAGGAAT+GGG 0.537973 7.3:+49867435 MS.gene051719:CDS
GGATGAGTTAGAGGAAGAGG+AGG 0.538629 7.3:+49867368 MS.gene051719:CDS
AAGTGAAGTTGAGTTTAGTG+AGG 0.546215 7.3:+49867347 MS.gene051719:CDS
AATAATAGTGATGGAAGTGA+AGG 0.548220 7.3:+49867243 MS.gene051719:CDS
AAGAAAGCAAAGAAACACTA+TGG 0.554986 7.3:+49866983 MS.gene051719:CDS
AGAAAAGTAACACAAAGAAA+GGG 0.575353 7.3:+49867316 MS.gene051719:CDS
AAATTCTCCAAAGCTTTGAA+AGG 0.585068 7.3:+49867474 MS.gene051719:CDS
TGAAAATGGATCCAAAGTGA+AGG 0.588660 7.3:+49867011 MS.gene051719:CDS
AAAAGAGTGGAGAAGGACAT+TGG 0.588797 7.3:+49867194 MS.gene051719:CDS
GAAAATGGATCCAAAGTGAA+GGG 0.600047 7.3:+49867012 MS.gene051719:CDS
AAAAGCAATTGGGAGTATGG+TGG 0.613321 7.3:+49867105 MS.gene051719:CDS
ATTGGATGGTTGCATCATGT+AGG 0.636955 7.3:+49867498 MS.gene051719:CDS
AGATGAATTTAGGAATGGGA+AGG 0.640076 7.3:+49867439 MS.gene051719:CDS
AAGCTTTGAAATTCTCAACA+GGG 0.664595 7.3:+49867415 MS.gene051719:CDS
AAGCTTTGGAGAATTTGACA+AGG 0.677569 7.3:-49867467 None:intergenic
ATATGAGAAAGAATCAAACA+AGG 0.721458 7.3:+49867287 MS.gene051719:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTGAATTTAGTATCCAATAT+AGG - chr7.3:49866955-49866974 None:intergenic 20.0%
! AAGAAAAGTAACACAAAGAA+AGG + chr7.3:49867315-49867334 MS.gene051719:CDS 25.0%
! AGAAAAGTAACACAAAGAAA+GGG + chr7.3:49867316-49867335 MS.gene051719:CDS 25.0%
! ATATGAGAAAGAATCAAACA+AGG + chr7.3:49867287-49867306 MS.gene051719:CDS 25.0%
! GGATACTAAATTCAATAAAG+TGG + chr7.3:49866960-49866979 MS.gene051719:CDS 25.0%
!! CAAAGACTAAATGAAGATTT+TGG + chr7.3:49867075-49867094 MS.gene051719:CDS 25.0%
!!! TAACACTTTTTCTTCCTTAA+TGG - chr7.3:49866845-49866864 None:intergenic 25.0%
AAGAAAGCAAAGAAACACTA+TGG + chr7.3:49866983-49867002 MS.gene051719:CDS 30.0%
AGAAAACAAAGTTGAGAAAG+TGG + chr7.3:49866807-49866826 MS.gene051719:CDS 30.0%
AGAAAATGTGTCTTGTGAAA+AGG + chr7.3:49866909-49866928 MS.gene051719:CDS 30.0%
GAGAGACATAATAATAGTGA+TGG + chr7.3:49867234-49867253 MS.gene051719:CDS 30.0%
TGAAGAGAAAAAAGTGAACT+TGG + chr7.3:49866780-49866799 MS.gene051719:CDS 30.0%
! AATAATAGTGATGGAAGTGA+AGG + chr7.3:49867243-49867262 MS.gene051719:CDS 30.0%
! GAAGAAGTTTGTTCTAATCT+TGG + chr7.3:49867147-49867166 MS.gene051719:CDS 30.0%
! TGTTCTAATCTTGGAAGTTT+TGG + chr7.3:49867156-49867175 MS.gene051719:CDS 30.0%
!! AAATTCTCCAAAGCTTTGAA+AGG + chr7.3:49867474-49867493 MS.gene051719:CDS 30.0%
!! AAGCTTTGAAATTCTCAACA+GGG + chr7.3:49867415-49867434 MS.gene051719:CDS 30.0%
AAGTGAAGTTGAGTTTAGTG+AGG + chr7.3:49867347-49867366 MS.gene051719:CDS 35.0%
ACACTATGGTCCATTGAAAA+TGG + chr7.3:49866997-49867016 MS.gene051719:CDS 35.0%
AGAAGTAGTCAAGCCTATAT+TGG + chr7.3:49866939-49866958 MS.gene051719:CDS 35.0%
AGATGAATTTAGGAATGGGA+AGG + chr7.3:49867439-49867458 MS.gene051719:CDS 35.0%
AGGGAAGATGAATTTAGGAA+TGG + chr7.3:49867434-49867453 MS.gene051719:CDS 35.0%
GAAAATGGATCCAAAGTGAA+GGG + chr7.3:49867012-49867031 MS.gene051719:CDS 35.0%
GGGAAGATGAATTTAGGAAT+GGG + chr7.3:49867435-49867454 MS.gene051719:CDS 35.0%
TCAACAGGGAAGATGAATTT+AGG + chr7.3:49867429-49867448 MS.gene051719:CDS 35.0%
TCCAATACCTTTCAAAGCTT+TGG - chr7.3:49867484-49867503 None:intergenic 35.0%
TGAAAATGGATCCAAAGTGA+AGG + chr7.3:49867011-49867030 MS.gene051719:CDS 35.0%
TGAAGGAATGGATATGCTTT+GGG + chr7.3:49867260-49867279 MS.gene051719:CDS 35.0%
TGGAAGTCCAAAAAGCAATT+GGG + chr7.3:49867095-49867114 MS.gene051719:CDS 35.0%
TTGGAAGTCCAAAAAGCAAT+TGG + chr7.3:49867094-49867113 MS.gene051719:CDS 35.0%
TTGGAGAATTTGACAAGGTT+AGG - chr7.3:49867465-49867484 None:intergenic 35.0%
! AGTATGGTGGAAAAGGTATA+GGG + chr7.3:49867118-49867137 MS.gene051719:CDS 35.0%
! CACTTTGGATCCATTTTCAA+TGG - chr7.3:49867010-49867029 None:intergenic 35.0%
!! AAGCTTTGAAAGGTATTGGA+TGG + chr7.3:49867484-49867503 MS.gene051719:CDS 35.0%
!! AAGCTTTGGAGAATTTGACA+AGG - chr7.3:49867470-49867489 None:intergenic 35.0%
!! CAAGCTTTGAAATTCTCAAC+AGG + chr7.3:49867414-49867433 MS.gene051719:CDS 35.0%
!! TCCAAAGCTTTGAAAGGTAT+TGG + chr7.3:49867480-49867499 MS.gene051719:CDS 35.0%
!!! AAGTTTTGGTTCAATGAGAG+TGG + chr7.3:49867170-49867189 MS.gene051719:CDS 35.0%
AAAAGAGTGGAGAAGGACAT+TGG + chr7.3:49867194-49867213 MS.gene051719:CDS 40.0%
ATTGGATGGTTGCATCATGT+AGG + chr7.3:49867498-49867517 MS.gene051719:CDS 40.0%
CAATGAGAGTGGAAAAAGAG+TGG + chr7.3:49867181-49867200 MS.gene051719:CDS 40.0%
CCAAAAAGCAATTGGGAGTA+TGG + chr7.3:49867102-49867121 MS.gene051719:CDS 40.0%
GGACGTAGTTGAATCCATTA+AGG + chr7.3:49866828-49866847 MS.gene051719:CDS 40.0%
GTCTCTATTACCCTTCACTT+TGG - chr7.3:49867025-49867044 None:intergenic 40.0%
GTGAAGGAATGGATATGCTT+TGG + chr7.3:49867259-49867278 MS.gene051719:CDS 40.0%
GTTTAGTGAGGATGAGTTAG+AGG + chr7.3:49867359-49867378 MS.gene051719:CDS 40.0%
TTGCATCATGTAGGCAAGAA+TGG + chr7.3:49867507-49867526 MS.gene051719:CDS 40.0%
! AAAAGCAATTGGGAGTATGG+TGG + chr7.3:49867105-49867124 MS.gene051719:CDS 40.0%
! AATTGGGAGTATGGTGGAAA+AGG + chr7.3:49867111-49867130 MS.gene051719:CDS 40.0%
! GAGTATGGTGGAAAAGGTAT+AGG + chr7.3:49867117-49867136 MS.gene051719:CDS 40.0%
! TAGTGATGGAAGTGAAGGAA+TGG + chr7.3:49867248-49867267 MS.gene051719:CDS 40.0%
!! CCATACTCCCAATTGCTTTT+TGG - chr7.3:49867105-49867124 None:intergenic 40.0%
!!! ATTGGCTTGCAAGCTTTTTG+AGG + chr7.3:49867212-49867231 MS.gene051719:CDS 40.0%
GAGTGGAAAAAGAGTGGAGA+AGG + chr7.3:49867187-49867206 MS.gene051719:CDS 45.0%
TGAGGATGAGTTAGAGGAAG+AGG + chr7.3:49867365-49867384 MS.gene051719:CDS 45.0%
GAGTTAGAGGAAGAGGAGGT+AGG + chr7.3:49867372-49867391 MS.gene051719:CDS 50.0%
GGATGAGTTAGAGGAAGAGG+AGG + chr7.3:49867368-49867387 MS.gene051719:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 49866775 49867548 49866775 ID=MS.gene051719
chr7.3 mRNA 49866775 49867548 49866775 ID=MS.gene051719.t1;Parent=MS.gene051719
chr7.3 exon 49866775 49867548 49866775 ID=MS.gene051719.t1.exon1;Parent=MS.gene051719.t1
chr7.3 CDS 49866775 49867548 49866775 ID=cds.MS.gene051719.t1;Parent=MS.gene051719.t1
Gene Sequence

>MS.gene051719

ATGGATGAAGAGAAAAAAGTGAACTTGGATGAAGAAAACAAAGTTGAGAAAGTGGACGTAGTTGAATCCATTAAGGAAGAAAAAGTGTTAGATGTGAAAAGTTTAGTAACTTTGTTTCAAGAATATGCAGAGTTAGAAAATGTGTCTTGTGAAAAGGAAGAAAAAGAAGTAGTCAAGCCTATATTGGATACTAAATTCAATAAAGTGGAAGAAAGCAAAGAAACACTATGGTCCATTGAAAATGGATCCAAAGTGAAGGGTAATAGAGACATGTATGCAAATAAAGTGAAAGTGAAATCTCAAAGACTAAATGAAGATTTTGGAAGTCCAAAAAGCAATTGGGAGTATGGTGGAAAAGGTATAGGGAATAATGAAGAAGTTTGTTCTAATCTTGGAAGTTTTGGTTCAATGAGAGTGGAAAAAGAGTGGAGAAGGACATTGGCTTGCAAGCTTTTTGAGGAGAGACATAATAATAGTGATGGAAGTGAAGGAATGGATATGCTTTGGGAAACATATGAGAAAGAATCAAACAAGGTTGTGAAGAAAAGTAACACAAAGAAAGGGAAGAAATTAAGTGAAGTTGAGTTTAGTGAGGATGAGTTAGAGGAAGAGGAGGTAGGAGCTAAGTTATGTTGTTTACAAGCTTTGAAATTCTCAACAGGGAAGATGAATTTAGGAATGGGAAGGCCTAACCTTGTCAAATTCTCCAAAGCTTTGAAAGGTATTGGATGGTTGCATCATGTAGGCAAGAATGGAAAGAAGAATAACCACTGA

Protein sequence

>MS.gene051719.t1

MDEEKKVNLDEENKVEKVDVVESIKEEKVLDVKSLVTLFQEYAELENVSCEKEEKEVVKPILDTKFNKVEESKETLWSIENGSKVKGNRDMYANKVKVKSQRLNEDFGSPKSNWEYGGKGIGNNEEVCSNLGSFGSMRVEKEWRRTLACKLFEERHNNSDGSEGMDMLWETYEKESNKVVKKSNTKKGKKLSEVEFSEDELEEEEVGAKLCCLQALKFSTGKMNLGMGRPNLVKFSKALKGIGWLHHVGKNGKKNNH