AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069698

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069698.t1 MTR_6g072100 91.724 145 12 0 1 145 88 232 2.10e-95 276
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069698.t1 AT1G18335 59.184 147 53 1 1 147 99 238 1.24e-51 165
MS.gene069698.t1 AT1G18335 59.184 147 53 1 1 147 99 238 1.50e-51 166
MS.gene069698.t1 AT1G18335 59.184 147 53 1 1 147 99 238 1.50e-51 166

Find 38 sgRNAs with CRISPR-Local

Find 88 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTACATTACCGATTTGTTT+TGG 0.337734 6.1:+66602439 MS.gene069698:CDS
ACCATTGGATAAATTTACTT+TGG 0.424044 6.1:-66603638 None:intergenic
CGTGTCCAGGGGAAAGGATT+GGG 0.426522 6.1:+66602509 MS.gene069698:CDS
ACCAAGGGACCACTATCTTC+TGG 0.440378 6.1:-66602410 None:intergenic
ACAGCTCGAGCCTCGTGTCC+AGG 0.444598 6.1:+66602496 MS.gene069698:CDS
TATTGAGCTTATTGCCCAAA+AGG 0.445554 6.1:+66602550 MS.gene069698:CDS
ACAAATATATAGCGTGCTTC+AGG 0.453405 6.1:-66602314 None:intergenic
TCCAGAAGATAGTGGTCCCT+TGG 0.454435 6.1:+66602409 MS.gene069698:CDS
AAAGGTGAAGCGTATAGAAA+TGG 0.455948 6.1:+66602286 MS.gene069698:CDS
CTTAACATGGAAGGGCCATA+TGG 0.467460 6.1:+66602242 None:intergenic
TTGGATAAATTTACTTTGGA+AGG 0.468541 6.1:-66603634 None:intergenic
GCTTTCCCAATCCTTTCCCC+TGG 0.468580 6.1:-66602514 None:intergenic
CCTCTTCTTCCAAAACAAAT+CGG 0.471830 6.1:-66602448 None:intergenic
AGGATTGGGAAAGCTTCTAA+TGG 0.474839 6.1:+66602523 MS.gene069698:CDS
ACCTTTCTTGTAGAACTGCA+TGG 0.485776 6.1:+66602810 MS.gene069698:intron
CAGCTCGAGCCTCGTGTCCA+GGG 0.491833 6.1:+66602497 MS.gene069698:CDS
GAAGATAGTGGTCCCTTGGT+TGG 0.495248 6.1:+66602413 MS.gene069698:CDS
CCTTTCTTGTAGAACTGCAT+GGG 0.513452 6.1:+66602811 MS.gene069698:intron
TCTTGCCACTCAGATCCATA+TGG 0.513626 6.1:-66602257 None:intergenic
TCGTGTCCAGGGGAAAGGAT+TGG 0.525244 6.1:+66602508 MS.gene069698:CDS
TGAGTGGCAAGAGGAAGAAA+AGG 0.525897 6.1:+66602268 MS.gene069698:CDS
TCCAAAGTAAATTTATCCAA+TGG 0.526498 6.1:+66603637 MS.gene069698:CDS
ATCTACAGCTTAACATGGAA+GGG 0.529467 6.1:+66602234 None:intergenic
TCTTCTGGAAGACTAGTTGA+AGG 0.533222 6.1:-66602395 None:intergenic
GAGCCTCGTGTCCAGGGGAA+AGG 0.535185 6.1:+66602503 MS.gene069698:CDS
AATCTACAGCTTAACATGGA+AGG 0.544882 6.1:+66602233 None:intergenic
TGTTGTGCTAACTGTTCAAA+AGG 0.560279 6.1:+66602837 MS.gene069698:CDS
ACTAGTCTTCCAGAAGATAG+TGG 0.569548 6.1:+66602401 MS.gene069698:CDS
ACGCTATATATTTGTGCATG+AGG 0.569652 6.1:+66602322 MS.gene069698:CDS
ATTTACTTTGGAAGGTGACG+TGG 0.595506 6.1:-66603626 None:intergenic
AATCCTTTCCCCTGGACACG+AGG 0.597062 6.1:-66602506 None:intergenic
AGCTCGAGCCTCGTGTCCAG+GGG 0.623716 6.1:+66602498 MS.gene069698:CDS
AGTTCATACACATAAAGTAC+CGG 0.630714 6.1:-66602473 None:intergenic
ATATGGATCTGAGTGGCAAG+AGG 0.653218 6.1:+66602259 MS.gene069698:CDS
TAATGTACAAATCCAACCAA+GGG 0.659606 6.1:-66602425 None:intergenic
GTAATGTACAAATCCAACCA+AGG 0.665929 6.1:-66602426 None:intergenic
GACGACAACAGTGTTGACTG+AGG 0.677893 6.1:+66602367 MS.gene069698:CDS
AAGGGCCATATGGATCTGAG+TGG 0.737924 6.1:+66602252 MS.gene069698:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAATACAATTAAATTAATA+AGG - chr6.1:66603025-66603044 None:intergenic 10.0%
!! ATTCTCATAATAAAAAGTTA+AGG + chr6.1:66603376-66603395 MS.gene069698:intron 15.0%
!! TGTATTAGACTTATATATAA+GGG + chr6.1:66603173-66603192 MS.gene069698:intron 15.0%
!! TTCATAATTCTCATAATATT+TGG + chr6.1:66603461-66603480 MS.gene069698:intron 15.0%
!! AAATCAAAGATCATATTAGA+TGG - chr6.1:66602784-66602803 None:intergenic 20.0%
!! AACAAAGACTAAACATAAAA+AGG - chr6.1:66603562-66603581 None:intergenic 20.0%
!! AATCAAAGATCATATTAGAT+GGG - chr6.1:66602783-66602802 None:intergenic 20.0%
!! ACAAAGACTAAACATAAAAA+GGG - chr6.1:66603561-66603580 None:intergenic 20.0%
!! AGAGATAAAAAATTCAATGA+TGG - chr6.1:66602925-66602944 None:intergenic 20.0%
!! ATGAAAGTAGAAAATAGAAA+TGG - chr6.1:66603421-66603440 None:intergenic 20.0%
!! CCTGTAAATAAATCAATAAA+TGG - chr6.1:66602746-66602765 None:intergenic 20.0%
!! GAAAAATCTAGAAAGTAATT+AGG - chr6.1:66603518-66603537 None:intergenic 20.0%
!! GAATTATGAAAGTAGAAAAT+AGG - chr6.1:66603451-66603470 None:intergenic 20.0%
!! GTGTATTAGACTTATATATA+AGG + chr6.1:66603172-66603191 MS.gene069698:intron 20.0%
!!! ATTTTTACACTAGTAAACTA+AGG + chr6.1:66602878-66602897 MS.gene069698:CDS 20.0%
!!! CCATTTATTGATTTATTTAC+AGG + chr6.1:66602743-66602762 MS.gene069698:intron 20.0%
!!! TTTAGTCTTTGTTTTATTGA+CGG + chr6.1:66603569-66603588 MS.gene069698:intron 20.0%
! ACAGAATATAGTTATACATG+TGG - chr6.1:66603152-66603171 None:intergenic 25.0%
! ACCATTGGATAAATTTACTT+TGG - chr6.1:66603641-66603660 None:intergenic 25.0%
! CAAGTTTGATATGAATGAAA+GGG + chr6.1:66602961-66602980 MS.gene069698:intron 25.0%
! GAATTATTGTTATGTTGCAA+AGG + chr6.1:66602622-66602641 MS.gene069698:intron 25.0%
! TAATAATGATTGACATGTTG+AGG - chr6.1:66603236-66603255 None:intergenic 25.0%
! TCAAGTTTGATATGAATGAA+AGG + chr6.1:66602960-66602979 MS.gene069698:intron 25.0%
! TCCAAAGTAAATTTATCCAA+TGG + chr6.1:66603637-66603656 MS.gene069698:CDS 25.0%
! TTGGATAAATTTACTTTGGA+AGG - chr6.1:66603637-66603656 None:intergenic 25.0%
!! AAAAGCAGAGAAATATTTTC+TGG - chr6.1:66603062-66603081 None:intergenic 25.0%
!!! ATATTTTCTGGAATGCATTA+AGG - chr6.1:66603050-66603069 None:intergenic 25.0%
AAAAAGTTAAGGATCTTTGC+AGG + chr6.1:66603387-66603406 MS.gene069698:intron 30.0%
AAGACTAAACATAAAAAGGG+AGG - chr6.1:66603558-66603577 None:intergenic 30.0%
AGACTAAACATAAAAAGGGA+GGG - chr6.1:66603557-66603576 None:intergenic 30.0%
AGTTCATACACATAAAGTAC+CGG - chr6.1:66602476-66602495 None:intergenic 30.0%
CAAATAACTATGTGATGCTA+GGG - chr6.1:66603207-66603226 None:intergenic 30.0%
GATATCTTCACAGATAACTT+GGG - chr6.1:66603493-66603512 None:intergenic 30.0%
TAATGTACAAATCCAACCAA+GGG - chr6.1:66602428-66602447 None:intergenic 30.0%
TCTTCTTGTAGACATATATG+CGG - chr6.1:66603102-66603121 None:intergenic 30.0%
TGATATCTTCACAGATAACT+TGG - chr6.1:66603494-66603513 None:intergenic 30.0%
!! AAACACCATAAAGTACCTTT+TGG - chr6.1:66602568-66602587 None:intergenic 30.0%
!! AACACCATAAAGTACCTTTT+GGG - chr6.1:66602567-66602586 None:intergenic 30.0%
!!! TGTACATTACCGATTTGTTT+TGG + chr6.1:66602439-66602458 MS.gene069698:CDS 30.0%
AAAGGTGAAGCGTATAGAAA+TGG + chr6.1:66602286-66602305 MS.gene069698:CDS 35.0%
AAGGACACAACTTATAGTCT+AGG + chr6.1:66602641-66602660 MS.gene069698:intron 35.0%
ACAAATATATAGCGTGCTTC+AGG - chr6.1:66602317-66602336 None:intergenic 35.0%
ACGCTATATATTTGTGCATG+AGG + chr6.1:66602322-66602341 MS.gene069698:CDS 35.0%
AGGACACAACTTATAGTCTA+GGG + chr6.1:66602642-66602661 MS.gene069698:intron 35.0%
AGGCTTATACAAAAGCAGTT+AGG - chr6.1:66603005-66603024 None:intergenic 35.0%
CCTCTTCTTCCAAAACAAAT+CGG - chr6.1:66602451-66602470 None:intergenic 35.0%
GACTAAACATAAAAAGGGAG+GGG - chr6.1:66603556-66603575 None:intergenic 35.0%
GCAAATAACTATGTGATGCT+AGG - chr6.1:66603208-66603227 None:intergenic 35.0%
GGCTTATACAAAAGCAGTTA+GGG - chr6.1:66603004-66603023 None:intergenic 35.0%
GTAATGTACAAATCCAACCA+AGG - chr6.1:66602429-66602448 None:intergenic 35.0%
TATTGAGCTTATTGCCCAAA+AGG + chr6.1:66602550-66602569 MS.gene069698:CDS 35.0%
TGTTGTGCTAACTGTTCAAA+AGG + chr6.1:66602837-66602856 MS.gene069698:CDS 35.0%
TTTCTGTTCTCATATGCAGA+TGG + chr6.1:66603714-66603733 MS.gene069698:intron 35.0%
! TTTCACCACACTTACGATTT+TGG - chr6.1:66603675-66603694 None:intergenic 35.0%
!! ATATTTCTCTGCTTTTGAGC+AGG + chr6.1:66603066-66603085 MS.gene069698:intron 35.0%
!! ATTGCCCAAAAGGTACTTTA+TGG + chr6.1:66602560-66602579 MS.gene069698:intron 35.0%
ACCTTTCTTGTAGAACTGCA+TGG + chr6.1:66602810-66602829 MS.gene069698:intron 40.0%
AGGATTGGGAAAGCTTCTAA+TGG + chr6.1:66602523-66602542 MS.gene069698:CDS 40.0%
CCTTTCTTGTAGAACTGCAT+GGG + chr6.1:66602811-66602830 MS.gene069698:intron 40.0%
TGTAGACATATATGCGGTTC+AGG - chr6.1:66603096-66603115 None:intergenic 40.0%
! ACCACACTTACGATTTTGGA+GGG - chr6.1:66603671-66603690 None:intergenic 40.0%
! ATTTACTTTGGAAGGTGACG+TGG - chr6.1:66603629-66603648 None:intergenic 40.0%
! TCTTCTGGAAGACTAGTTGA+AGG - chr6.1:66602398-66602417 None:intergenic 40.0%
!! ACTAGTCTTCCAGAAGATAG+TGG + chr6.1:66602401-66602420 MS.gene069698:CDS 40.0%
!!! CCGATTTGTTTTGGAAGAAG+AGG + chr6.1:66602448-66602467 MS.gene069698:CDS 40.0%
!!! TGTTTTGGAAGAAGAGGTAC+CGG + chr6.1:66602454-66602473 MS.gene069698:CDS 40.0%
ATATGGATCTGAGTGGCAAG+AGG + chr6.1:66602259-66602278 MS.gene069698:CDS 45.0%
CCCATGCAGTTCTACAAGAA+AGG - chr6.1:66602814-66602833 None:intergenic 45.0%
TCTTGCCACTCAGATCCATA+TGG - chr6.1:66602260-66602279 None:intergenic 45.0%
TGAGTGGCAAGAGGAAGAAA+AGG + chr6.1:66602268-66602287 MS.gene069698:CDS 45.0%
! CACCACACTTACGATTTTGG+AGG - chr6.1:66603672-66603691 None:intergenic 45.0%
!! CACACTTACGATTTTGGAGG+GGG - chr6.1:66603669-66603688 None:intergenic 45.0%
!! CCACACTTACGATTTTGGAG+GGG - chr6.1:66603670-66603689 None:intergenic 45.0%
AAGGGCCATATGGATCTGAG+TGG + chr6.1:66602252-66602271 MS.gene069698:CDS 50.0%
ACCAAGGGACCACTATCTTC+TGG - chr6.1:66602413-66602432 None:intergenic 50.0%
CCCCTCCAAAATCGTAAGTG+TGG + chr6.1:66603667-66603686 MS.gene069698:intron 50.0%
! GAAGATAGTGGTCCCTTGGT+TGG + chr6.1:66602413-66602432 MS.gene069698:CDS 50.0%
! TCCAGAAGATAGTGGTCCCT+TGG + chr6.1:66602409-66602428 MS.gene069698:CDS 50.0%
! TTGGAGGGGGTACATACCAT+TGG - chr6.1:66603656-66603675 None:intergenic 50.0%
!! GACGACAACAGTGTTGACTG+AGG + chr6.1:66602367-66602386 MS.gene069698:CDS 50.0%
AATCCTTTCCCCTGGACACG+AGG - chr6.1:66602509-66602528 None:intergenic 55.0%
CGTGTCCAGGGGAAAGGATT+GGG + chr6.1:66602509-66602528 MS.gene069698:CDS 55.0%
GCTTTCCCAATCCTTTCCCC+TGG - chr6.1:66602517-66602536 None:intergenic 55.0%
TCGTGTCCAGGGGAAAGGAT+TGG + chr6.1:66602508-66602527 MS.gene069698:CDS 55.0%
ACAGCTCGAGCCTCGTGTCC+AGG + chr6.1:66602496-66602515 MS.gene069698:CDS 65.0%
AGCTCGAGCCTCGTGTCCAG+GGG + chr6.1:66602498-66602517 MS.gene069698:CDS 65.0%
CAGCTCGAGCCTCGTGTCCA+GGG + chr6.1:66602497-66602516 MS.gene069698:CDS 65.0%
GAGCCTCGTGTCCAGGGGAA+AGG + chr6.1:66602503-66602522 MS.gene069698:CDS 65.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 66602248 66603749 66602248 ID=MS.gene069698
chr6.1 mRNA 66602248 66603749 66602248 ID=MS.gene069698.t1;Parent=MS.gene069698
chr6.1 exon 66602248 66602571 66602248 ID=MS.gene069698.t1.exon1;Parent=MS.gene069698.t1
chr6.1 CDS 66602248 66602571 66602248 ID=cds.MS.gene069698.t1;Parent=MS.gene069698.t1
chr6.1 exon 66602823 66602899 66602823 ID=MS.gene069698.t1.exon2;Parent=MS.gene069698.t1
chr6.1 CDS 66602823 66602899 66602823 ID=cds.MS.gene069698.t1;Parent=MS.gene069698.t1
chr6.1 exon 66603612 66603658 66603612 ID=MS.gene069698.t1.exon3;Parent=MS.gene069698.t1
chr6.1 CDS 66603612 66603658 66603612 ID=cds.MS.gene069698.t1;Parent=MS.gene069698.t1
chr6.1 exon 66603733 66603749 66603733 ID=MS.gene069698.t1.exon4;Parent=MS.gene069698.t1
chr6.1 CDS 66603733 66603749 66603733 ID=cds.MS.gene069698.t1;Parent=MS.gene069698.t1
Gene Sequence

>MS.gene069698

ATGGAAGGGCCATATGGATCTGAGTGGCAAGAGGAAGAAAAGGTGAAGCGTATAGAAATGGTTGATCCTGAAGCACGCTATATATTTGTGCATGAGGTTACTAATGCAAATGCTGACGAGACGACAACAGTGTTGACTGAGGAAGATCCTTCAACTAGTCTTCCAGAAGATAGTGGTCCCTTGGTTGGATTTGTACATTACCGATTTGTTTTGGAAGAAGAGGTACCGGTACTTTATGTGTATGAACTACAGCTCGAGCCTCGTGTCCAGGGGAAAGGATTGGGAAAGCTTCTAATGGAACTTATTGAGCTTATTGCCCAAAAGGTACTTTATGGTGTTTTTCTAAACTCACTCTGACTCTTGACGATAATAAAGAATTATTGTTATGTTGCAAAGGACACAACTTATAGTCTAGGGAAAGATGATGAATTGTTGAATTATGAATTTGTGATCTTTGAAGAAACTAATTTCATTTATTGATTGATTTATACTGTTCCATTTATTGATTTATTTACAGGCTTGAGTTTAATGACCCATCTAATATGATCTTTGATTTTTTTTAACCTTTCTTGTAGAACTGCATGGGTGCTGTTGTGCTAACTGTTCAAAAGGCGAACATATCAGCTATGAATTTTTACACTAGTAAACTAAGGTAATATTTTCAGAGATGTATGCCATCATTGAATTTTTTATCTCTTACGAAAAGTACATGTCAAGTTTGATATGAATGAAAGGGAAAAAAGTATGTTATATCCCTAACTGCTTTTGTATAAGCCTTATTAATTTAATTGTATTTCAACCTTAATGCATTCCAGAAAATATTTCTCTGCTTTTGAGCAGGTATTCCTGAACCGCATATATGTCTACAAGAAGAGACGATTCATTAGTTTCGTTATGAAATCCACATGTATAACTATATTCTGTGTGTATTAGACTTATATATAAGGGTATGTTTACCCTAGCATCACATAGTTATTTGCACAATCCTCAACATGTCAATCATTATTACAATTCTAATTTCAATTTATAAATTTGTAATGATAATGTTAGTTGTTATATGTGATGATTATACATGAACTTGAAGTAAGAACAATGTGATCGTTAGATTAGAATTATTGCTGTATCTTGATTCTCATAATAAAAAGTTAAGGATCTTTGCAGGTGTTGTAACCATTTCTATTTTCTACTTTCATAAACACTCCTATTTTCTACTTTCATAATTCTCATAATATTTGGTTTTAGCCCAAGTTATCTGTGAAGATATCATCCTAATTACTTTCTAGATTTTTCTGTTATATTACTTTTCCCCTCCCTTTTTATGTTTAGTCTTTGTTTTATTGACGGATGAAATATTTCTGTTACAGATATATCATATCAGCCACGTCACCTTCCAAAGTAAATTTATCCAATGGTATGTACCCCCTCCAAAATCGTAAGTGTGGTGAAATTCTATGCACAAATTAATTTTTCTGTTCTCATATGCAGATGGAGAAGAGTTATGA
Protein sequence

>MS.gene069698.t1

MEGPYGSEWQEEEKVKRIEMVDPEARYIFVHEVTNANADETTTVLTEEDPSTSLPEDSGPLVGFVHYRFVLEEEVPVLYVYELQLEPRVQGKGLGKLLMELIELIAQKNCMGAVVLTVQKANISAMNFYTSKLRYIISATSPSKVNLSNDGEEL