AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene66809

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66809.t1 MTR_4g073100 97.248 218 6 0 1 218 1 218 8.45e-162 447
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene66809.t1 AT4G35040 67.265 223 63 7 1 218 1 218 1.70e-97 285
MS.gene66809.t1 AT4G35040 67.265 223 63 7 1 218 1 218 1.70e-97 285
MS.gene66809.t1 AT4G35040 67.265 223 63 7 1 218 1 218 1.70e-97 285
MS.gene66809.t1 AT4G35040 67.265 223 63 7 1 218 1 218 1.70e-97 285
MS.gene66809.t1 AT2G16770 64.840 219 57 6 1 218 1 200 1.97e-94 276
MS.gene66809.t1 AT2G16770 64.840 219 57 6 1 218 1 200 1.97e-94 276
MS.gene66809.t1 AT3G51960 54.478 134 54 3 39 171 13 140 3.68e-46 151
MS.gene66809.t1 AT3G51960 54.478 134 54 3 39 171 52 179 8.35e-46 152
MS.gene66809.t1 AT3G51960 52.239 134 56 2 39 171 52 178 2.72e-44 148

Find 63 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGAGGATTGAAGGGGAAAT+TGG 0.206995 4.2:-35255346 MS.gene66809:CDS
GTGTTTGTTGGTTGATATTA+GGG 0.255056 4.2:-35255368 MS.gene66809:CDS
CCCAACCGGTCGCTTCTTAC+TGG 0.266035 4.2:+35255543 None:intergenic
AGTGTTTGTTGGTTGATATT+AGG 0.273430 4.2:-35255369 MS.gene66809:CDS
GTTGCAAGGGCAGGCTGCTT+TGG 0.335855 4.2:-35255413 MS.gene66809:CDS
GTTTGAAATTCAGCCATGTT+TGG 0.367715 4.2:+35255760 None:intergenic
GGAGGATTGAAGGGGAAATT+GGG 0.382575 4.2:-35255345 MS.gene66809:CDS
CCGAATGAGGATGGATTTGA+TGG 0.385392 4.2:-35255178 MS.gene66809:CDS
ATTTCAAACAAGTGGTTCAA+TGG 0.405614 4.2:-35255746 MS.gene66809:CDS
TGCGAGGTTGAAGTGTTTGT+TGG 0.420725 4.2:-35255380 MS.gene66809:CDS
GCAAGGGCAGGCTGCTTTGG+AGG 0.426440 4.2:-35255410 MS.gene66809:CDS
GGCTGCGTCGTTGGAGGATG+AGG 0.428168 4.2:-35255476 MS.gene66809:CDS
TCATCACACTGCACATTACA+AGG 0.429810 4.2:+35255253 None:intergenic
ACCGCCTCTTTATTCCCAAC+CGG 0.455765 4.2:+35255529 None:intergenic
TCAGCAGCAATCTTCCCATC+TGG 0.456534 4.2:+35255211 None:intergenic
ACATTCGCGGGTTTCTGATA+CGG 0.475335 4.2:+35255316 None:intergenic
GAAAGCTAGGGCTGCGTCGT+TGG 0.478279 4.2:-35255485 MS.gene66809:CDS
CCATCAAATCCATCCTCATT+CGG 0.481252 4.2:+35255178 None:intergenic
AGCTAGGGCTGCGTCGTTGG+AGG 0.489293 4.2:-35255482 MS.gene66809:CDS
CTGCTGAAGATGATCAGGTT+GGG 0.489651 4.2:-35255600 MS.gene66809:CDS
ATCTTCAGCAGGGACAATCT+TGG 0.499105 4.2:+35255612 None:intergenic
GGGTTCATCACATGAGAGCC+AGG 0.513240 4.2:+35255274 None:intergenic
GCATATTGCCTTCGTCCAGA+TGG 0.514127 4.2:-35255226 MS.gene66809:CDS
TGTCCCTGCTGAAGATGATC+AGG 0.516014 4.2:-35255605 MS.gene66809:CDS
CCAGTAAGAAGCGACCGGTT+GGG 0.517346 4.2:-35255543 MS.gene66809:CDS
ATCGTGAGAAGAAGAAAGCT+AGG 0.518063 4.2:-35255498 MS.gene66809:CDS
TAATGTGCAGTGTGATGATC+GGG 0.521659 4.2:-35255248 MS.gene66809:CDS
CTTTGGAGGCCGAAGTTGCG+AGG 0.525689 4.2:-35255396 MS.gene66809:CDS
CCAACCTGATCATCTTCAGC+AGG 0.525807 4.2:+35255601 None:intergenic
GATGAGGAAGTTGCAAGGGC+AGG 0.525833 4.2:-35255422 MS.gene66809:CDS
TCCAGTAAGAAGCGACCGGT+TGG 0.526553 4.2:-35255544 MS.gene66809:CDS
AGGATGAGGTCATGAAATTG+AGG 0.534541 4.2:-35255462 MS.gene66809:CDS
ATCGCGGGATTCACATTCGC+GGG 0.538798 4.2:+35255304 None:intergenic
CATATTGCCTTCGTCCAGAT+GGG 0.548979 4.2:-35255225 MS.gene66809:CDS
ATGGCTGAATTTCAAACAAG+TGG 0.554218 4.2:-35255754 MS.gene66809:CDS
GACCAGGTGGGTTACACGTG+TGG 0.559695 4.2:+35255674 None:intergenic
AATCCCGCGATGAATTTGCC+TGG 0.562632 4.2:-35255292 MS.gene66809:CDS
ACACTTCAACCTCGCAACTT+CGG 0.570082 4.2:+35255387 None:intergenic
GTTTGTTGGTTGATATTAGG+GGG 0.578395 4.2:-35255366 MS.gene66809:CDS
GGATGAGGTCATGAAATTGA+GGG 0.578672 4.2:-35255461 MS.gene66809:CDS
ACACGTGTGGGTATGAGTAC+AGG 0.580524 4.2:+35255687 None:intergenic
TGTTTGTTGGTTGATATTAG+GGG 0.581606 4.2:-35255367 MS.gene66809:CDS
GTAATGTGCAGTGTGATGAT+CGG 0.581966 4.2:-35255249 MS.gene66809:CDS
GAAGTCCAGTAAGAAGCGAC+CGG 0.585566 4.2:-35255548 MS.gene66809:CDS
CGAATGAGGATGGATTTGAT+GGG 0.588265 4.2:-35255177 MS.gene66809:CDS
TGAAGTGGCGTTGCCGAATG+AGG 0.594233 4.2:-35255191 MS.gene66809:CDS
ATTTGATGAGGAAGTTGCAA+GGG 0.596253 4.2:-35255426 MS.gene66809:CDS
GTGGCGTTGCCGAATGAGGA+TGG 0.599193 4.2:-35255187 MS.gene66809:CDS
CATCGCGGGATTCACATTCG+CGG 0.599241 4.2:+35255303 None:intergenic
CATTTGATGAGGAAGTTGCA+AGG 0.604562 4.2:-35255427 MS.gene66809:CDS
ACCCACACGTGTAACCCACC+TGG 0.607124 4.2:-35255676 MS.gene66809:CDS
ACCAGGTGGGTTACACGTGT+GGG 0.610384 4.2:+35255675 None:intergenic
GAGCCAGGCAAATTCATCGC+GGG 0.610422 4.2:+35255289 None:intergenic
TCGTGAGAAGAAGAAAGCTA+GGG 0.612179 4.2:-35255497 MS.gene66809:CDS
TGGGAAGATTGCTGCTGAAG+TGG 0.614233 4.2:-35255206 MS.gene66809:CDS
CTTTGAATCAGCATTTGATG+AGG 0.616238 4.2:-35255438 MS.gene66809:CDS
CAATCTTCCCATCTGGACGA+AGG 0.622375 4.2:+35255218 None:intergenic
CCTGCTGAAGATGATCAGGT+TGG 0.627520 4.2:-35255601 MS.gene66809:CDS
GCGACCGGTTGGGAATAAAG+AGG 0.649541 4.2:-35255533 MS.gene66809:CDS
CAACCTGATCATCTTCAGCA+GGG 0.684116 4.2:+35255602 None:intergenic
ACCGGTTGGGAATAAAGAGG+CGG 0.690479 4.2:-35255530 MS.gene66809:CDS
CATCACACTGCACATTACAA+GGG 0.696358 4.2:+35255254 None:intergenic
AGAGCCAGGCAAATTCATCG+CGG 0.740100 4.2:+35255288 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTTGATGAATTGTTGA+AGG - chr4.2:35255260-35255279 MS.gene66809:CDS 20.0%
ATTTCAAACAAGTGGTTCAA+TGG - chr4.2:35255233-35255252 MS.gene66809:CDS 30.0%
! AGTGTTTGTTGGTTGATATT+AGG - chr4.2:35255610-35255629 MS.gene66809:CDS 30.0%
! GTGTTTGTTGGTTGATATTA+GGG - chr4.2:35255611-35255630 MS.gene66809:CDS 30.0%
! TGTTTGTTGGTTGATATTAG+GGG - chr4.2:35255612-35255631 MS.gene66809:CDS 30.0%
ATGGCTGAATTTCAAACAAG+TGG - chr4.2:35255225-35255244 MS.gene66809:CDS 35.0%
ATTTGATGAGGAAGTTGCAA+GGG - chr4.2:35255553-35255572 MS.gene66809:CDS 35.0%
CTTTGAATCAGCATTTGATG+AGG - chr4.2:35255541-35255560 MS.gene66809:CDS 35.0%
! GTTTGAAATTCAGCCATGTT+TGG + chr4.2:35255222-35255241 None:intergenic 35.0%
! GTTTGTTGGTTGATATTAGG+GGG - chr4.2:35255613-35255632 MS.gene66809:CDS 35.0%
AGGATGAGGTCATGAAATTG+AGG - chr4.2:35255517-35255536 MS.gene66809:CDS 40.0%
ATATTAGGGGGAGGATTGAA+GGG - chr4.2:35255625-35255644 MS.gene66809:CDS 40.0%
ATCGTGAGAAGAAGAAAGCT+AGG - chr4.2:35255481-35255500 MS.gene66809:CDS 40.0%
CATCACACTGCACATTACAA+GGG + chr4.2:35255728-35255747 None:intergenic 40.0%
CATTTGATGAGGAAGTTGCA+AGG - chr4.2:35255552-35255571 MS.gene66809:CDS 40.0%
CCATCAAATCCATCCTCATT+CGG + chr4.2:35255804-35255823 None:intergenic 40.0%
GGATGAGGTCATGAAATTGA+GGG - chr4.2:35255518-35255537 MS.gene66809:CDS 40.0%
GTAATGTGCAGTGTGATGAT+CGG - chr4.2:35255730-35255749 MS.gene66809:CDS 40.0%
GTGTGAGTGTGTGAAAAATC+AGG + chr4.2:35255330-35255349 None:intergenic 40.0%
TAATGTGCAGTGTGATGATC+GGG - chr4.2:35255731-35255750 MS.gene66809:CDS 40.0%
TCATCACACTGCACATTACA+AGG + chr4.2:35255729-35255748 None:intergenic 40.0%
TCGTGAGAAGAAGAAAGCTA+GGG - chr4.2:35255482-35255501 MS.gene66809:CDS 40.0%
! CGAATGAGGATGGATTTGAT+GGG - chr4.2:35255802-35255821 MS.gene66809:CDS 40.0%
ACACTTCAACCTCGCAACTT+CGG + chr4.2:35255595-35255614 None:intergenic 45.0%
ACATTCGCGGGTTTCTGATA+CGG + chr4.2:35255666-35255685 None:intergenic 45.0%
ATCTTCAGCAGGGACAATCT+TGG + chr4.2:35255370-35255389 None:intergenic 45.0%
CAACCTGATCATCTTCAGCA+GGG + chr4.2:35255380-35255399 None:intergenic 45.0%
CATATTGCCTTCGTCCAGAT+GGG - chr4.2:35255754-35255773 MS.gene66809:CDS 45.0%
CTGCTGAAGATGATCAGGTT+GGG - chr4.2:35255379-35255398 MS.gene66809:CDS 45.0%
GATATTAGGGGGAGGATTGA+AGG - chr4.2:35255624-35255643 MS.gene66809:CDS 45.0%
GGAGGATTGAAGGGGAAATT+GGG - chr4.2:35255634-35255653 MS.gene66809:CDS 45.0%
GTGAAAAATCAGGACCAGGT+GGG + chr4.2:35255320-35255339 None:intergenic 45.0%
GTGTGTGAAAAATCAGGACC+AGG + chr4.2:35255324-35255343 None:intergenic 45.0%
TATTAGGGGGAGGATTGAAG+GGG - chr4.2:35255626-35255645 MS.gene66809:CDS 45.0%
TGTGAAAAATCAGGACCAGG+TGG + chr4.2:35255321-35255340 None:intergenic 45.0%
! CCGAATGAGGATGGATTTGA+TGG - chr4.2:35255801-35255820 MS.gene66809:CDS 45.0%
! TGCGAGGTTGAAGTGTTTGT+TGG - chr4.2:35255599-35255618 MS.gene66809:CDS 45.0%
! TGTTGGTTGATATTAGGGGG+AGG - chr4.2:35255616-35255635 MS.gene66809:CDS 45.0%
!!! CGTGTTTTCGAGTCCAAACA+TGG - chr4.2:35255206-35255225 MS.gene66809:CDS 45.0%
AATCCCGCGATGAATTTGCC+TGG - chr4.2:35255687-35255706 MS.gene66809:CDS 50.0%
ACACGTGTGGGTATGAGTAC+AGG + chr4.2:35255295-35255314 None:intergenic 50.0%
ACCGCCTCTTTATTCCCAAC+CGG + chr4.2:35255453-35255472 None:intergenic 50.0%
ACCGGTTGGGAATAAAGAGG+CGG - chr4.2:35255449-35255468 MS.gene66809:CDS 50.0%
AGAGCCAGGCAAATTCATCG+CGG + chr4.2:35255694-35255713 None:intergenic 50.0%
CAATCTTCCCATCTGGACGA+AGG + chr4.2:35255764-35255783 None:intergenic 50.0%
CCAACCTGATCATCTTCAGC+AGG + chr4.2:35255381-35255400 None:intergenic 50.0%
CCTGCTGAAGATGATCAGGT+TGG - chr4.2:35255378-35255397 MS.gene66809:CDS 50.0%
GAAGTCCAGTAAGAAGCGAC+CGG - chr4.2:35255431-35255450 MS.gene66809:CDS 50.0%
GCATATTGCCTTCGTCCAGA+TGG - chr4.2:35255753-35255772 MS.gene66809:CDS 50.0%
GGGAGGATTGAAGGGGAAAT+TGG - chr4.2:35255633-35255652 MS.gene66809:CDS 50.0%
TCAGCAGCAATCTTCCCATC+TGG + chr4.2:35255771-35255790 None:intergenic 50.0%
TGGGAAGATTGCTGCTGAAG+TGG - chr4.2:35255773-35255792 MS.gene66809:CDS 50.0%
TGTCCCTGCTGAAGATGATC+AGG - chr4.2:35255374-35255393 MS.gene66809:CDS 50.0%
ATCGCGGGATTCACATTCGC+GGG + chr4.2:35255678-35255697 None:intergenic 55.0%
CATCGCGGGATTCACATTCG+CGG + chr4.2:35255679-35255698 None:intergenic 55.0%
CCAGTAAGAAGCGACCGGTT+GGG - chr4.2:35255436-35255455 MS.gene66809:CDS 55.0%
GAGCCAGGCAAATTCATCGC+GGG + chr4.2:35255693-35255712 None:intergenic 55.0%
GATGAGGAAGTTGCAAGGGC+AGG - chr4.2:35255557-35255576 MS.gene66809:CDS 55.0%
GCGACCGGTTGGGAATAAAG+AGG - chr4.2:35255446-35255465 MS.gene66809:CDS 55.0%
GGGTTCATCACATGAGAGCC+AGG + chr4.2:35255708-35255727 None:intergenic 55.0%
TCCAGTAAGAAGCGACCGGT+TGG - chr4.2:35255435-35255454 MS.gene66809:CDS 55.0%
TGAAGTGGCGTTGCCGAATG+AGG - chr4.2:35255788-35255807 MS.gene66809:CDS 55.0%
!! ACCAGGTGGGTTACACGTGT+GGG + chr4.2:35255307-35255326 None:intergenic 55.0%
ACCCACACGTGTAACCCACC+TGG - chr4.2:35255303-35255322 MS.gene66809:CDS 60.0%
CCCAACCGGTCGCTTCTTAC+TGG + chr4.2:35255439-35255458 None:intergenic 60.0%
GAAAGCTAGGGCTGCGTCGT+TGG - chr4.2:35255494-35255513 MS.gene66809:CDS 60.0%
GTGGCGTTGCCGAATGAGGA+TGG - chr4.2:35255792-35255811 MS.gene66809:CDS 60.0%
GTTGCAAGGGCAGGCTGCTT+TGG - chr4.2:35255566-35255585 MS.gene66809:CDS 60.0%
! CTTTGGAGGCCGAAGTTGCG+AGG - chr4.2:35255583-35255602 MS.gene66809:CDS 60.0%
!! GACCAGGTGGGTTACACGTG+TGG + chr4.2:35255308-35255327 None:intergenic 60.0%
AGCTAGGGCTGCGTCGTTGG+AGG - chr4.2:35255497-35255516 MS.gene66809:CDS 65.0%
GGCTGCGTCGTTGGAGGATG+AGG - chr4.2:35255503-35255522 MS.gene66809:CDS 65.0%
! GCAAGGGCAGGCTGCTTTGG+AGG - chr4.2:35255569-35255588 MS.gene66809:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 35255171 35255830 35255171 ID=MS.gene66809
chr4.2 mRNA 35255171 35255830 35255171 ID=MS.gene66809.t1;Parent=MS.gene66809
chr4.2 exon 35255171 35255830 35255171 ID=MS.gene66809.t1.exon1;Parent=MS.gene66809.t1
chr4.2 CDS 35255171 35255830 35255171 ID=cds.MS.gene66809.t1;Parent=MS.gene66809.t1
Gene Sequence

>MS.gene66809

ATGGAAGACGGTGAACTTGATTTCTCAAATCAAGTCGTGTTTTCGAGTCCAAACATGGCTGAATTTCAAACAAGTGGTTCAATGGATAGTTTTTTTGATGAATTGTTGAAGGATACACACGCCTGTACTCATACCCACACGTGTAACCCACCTGGTCCTGATTTTTCACACACTCACACGTGTTATCATGTTCACACCAAGATTGTCCCTGCTGAAGATGATCAGGTTGGGACTGATGATACTGCTGAATCTGCTGAGAAGAAGTCCAGTAAGAAGCGACCGGTTGGGAATAAAGAGGCGGTTAAGAAGTATCGTGAGAAGAAGAAAGCTAGGGCTGCGTCGTTGGAGGATGAGGTCATGAAATTGAGGGCTTTGAATCAGCATTTGATGAGGAAGTTGCAAGGGCAGGCTGCTTTGGAGGCCGAAGTTGCGAGGTTGAAGTGTTTGTTGGTTGATATTAGGGGGAGGATTGAAGGGGAAATTGGGTCGTTTCCGTATCAGAAACCCGCGAATGTGAATCCCGCGATGAATTTGCCTGGCTCTCATGTGATGAACCCTTGTAATGTGCAGTGTGATGATCGGGCATATTGCCTTCGTCCAGATGGGAAGATTGCTGCTGAAGTGGCGTTGCCGAATGAGGATGGATTTGATGGGTTGTGA
Protein sequence

>MS.gene66809.t1

MEDGELDFSNQVVFSSPNMAEFQTSGSMDSFFDELLKDTHACTHTHTCNPPGPDFSHTHTCYHVHTKIVPAEDDQVGTDDTAESAEKKSSKKRPVGNKEAVKKYREKKKARAASLEDEVMKLRALNQHLMRKLQGQAALEAEVARLKCLLVDIRGRIEGEIGSFPYQKPANVNPAMNLPGSHVMNPCNVQCDDRAYCLRPDGKIAAEVALPNEDGFDGL