AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene63957


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63957.t1 MTR_0004s0440 84.848 231 13 4 1 228 1 212 1.73e-132 372
MS.gene63957.t1 MTR_1g021995 31.696 224 147 3 11 228 37 260 4.82e-31 115
MS.gene63957.t1 MTR_7g076200 26.754 228 145 8 8 227 14 227 7.12e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene63957.t1 AT3G47430 72.566 226 60 1 3 228 4 227 1.57e-115 329
MS.gene63957.t1 AT1G47750 31.624 234 150 6 3 228 16 247 4.34e-25 99.4

Find 40 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAGCAGTGCTTTCTAATTC+AGG 0.262558 4.1:-56307188 MS.gene63957:CDS
TTGAACCTCTTGGATATATC+AGG 0.291987 4.1:+56307323 None:intergenic
CACACGCCAGTTTGCAAGCT+TGG 0.301187 4.1:+56307358 None:intergenic
CTGGTTCTACTCTCACTTTA+AGG 0.302972 4.1:-56307214 MS.gene63957:CDS
ATGAGTTTCATATCTGCTTT+TGG 0.310972 4.1:-56307086 MS.gene63957:CDS
TTGCAAGCTTGGAAACATAT+TGG 0.323667 4.1:+56307369 None:intergenic
TTTCTTTGGTTATCAAGAAT+TGG 0.329320 4.1:-56307137 MS.gene63957:CDS
ACTGTTTCTCTTGGTATTAG+TGG 0.331245 4.1:-56306825 MS.gene63957:CDS
AGAACTGGAAGGTTTCTTAC+TGG 0.334576 4.1:-56307260 MS.gene63957:CDS
GGGCTGGTTGGTATAGAAAT+TGG 0.339600 4.1:-56306788 MS.gene63957:CDS
TTTGTCCACCGTGTCATTCA+TGG 0.348673 4.1:+56307445 None:intergenic
GAATGACACGGTGGACAAAT+TGG 0.367068 4.1:-56307441 MS.gene63957:CDS
TTCTCTTGGTATTAGTGGAT+TGG 0.370396 4.1:-56306820 MS.gene63957:CDS
TTCTTGATAACCAAAGAAAA+TGG 0.395137 4.1:+56307141 None:intergenic
TGCAATCACACTGTTTCTCT+TGG 0.395141 4.1:-56306834 MS.gene63957:CDS
GTGTGATTGCAGAAAGGGTT+TGG 0.412924 4.1:+56306846 None:intergenic
GCTTTCTAATTCAGGAGAAA+TGG 0.428114 4.1:-56307180 MS.gene63957:CDS
AAACAGTGTGATTGCAGAAA+GGG 0.428854 4.1:+56306841 None:intergenic
TGATAGAATAATGAGGCTTA+TGG 0.438357 4.1:-56306919 MS.gene63957:CDS
TGGAACTGTGGATGCAAACT+TGG 0.446439 4.1:-56307117 MS.gene63957:CDS
ATGTTTCCAAGCTTGCAAAC+TGG 0.447747 4.1:-56307364 MS.gene63957:CDS
GGAATTAATTGACTTTATGA+AGG 0.456415 4.1:+56306765 None:intergenic
AGCAGAAAAGCATTCAGAAC+TGG 0.460756 4.1:-56307275 MS.gene63957:CDS
TGGTTTCTGCATGGGCTGGT+TGG 0.463961 4.1:-56306800 MS.gene63957:CDS
TAGTGGATTGGTTTCTGCAT+GGG 0.486842 4.1:-56306808 MS.gene63957:CDS
TGCAGATTTGATTATAGCAT+TGG 0.487810 4.1:-56306880 MS.gene63957:CDS
GGATTGGTTTCTGCATGGGC+TGG 0.505965 4.1:-56306804 MS.gene63957:CDS
TTAGTGGATTGGTTTCTGCA+TGG 0.506709 4.1:-56306809 MS.gene63957:CDS
TTTGTTGAATGAAGGGTTGA+AGG 0.511768 4.1:-56307021 MS.gene63957:CDS
AATGCTCTTAGAAGAAATCC+TGG 0.530140 4.1:-56307233 MS.gene63957:CDS
GAAACAGTGTGATTGCAGAA+AGG 0.556504 4.1:+56306840 None:intergenic
CAAGCTTGCAAACTGGCGTG+TGG 0.589710 4.1:-56307357 MS.gene63957:CDS
CTTAAAGTGAGAGTAGAACC+AGG 0.591365 4.1:+56307215 None:intergenic
AAAGCGTAGAAGTTCTTCAG+AGG 0.604842 4.1:-56306991 MS.gene63957:CDS
AAGCGTAGAAGTTCTTCAGA+GGG 0.606810 4.1:-56306990 MS.gene63957:CDS
GAAAAGCATTCAGAACTGGA+AGG 0.628321 4.1:-56307271 MS.gene63957:CDS
GTTATCAAGAATTGGAACTG+TGG 0.648703 4.1:-56307129 MS.gene63957:CDS
CTCATCCTGATATATCCAAG+AGG 0.684877 4.1:-56307328 MS.gene63957:CDS
TATTTCTACCATGAATGACA+CGG 0.724279 4.1:-56307453 None:intergenic
TTCTACCATGAATGACACGG+TGG 0.727599 4.1:-56307450 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAAAGTGATAGAATAATG+AGG - chr4.1:56307296-56307315 MS.gene63957:CDS 20.0%
!!! ATTTCATTTTGTTGAATGAA+GGG - chr4.1:56307194-56307213 MS.gene63957:CDS 20.0%
! TTTCTTTGGTTATCAAGAAT+TGG - chr4.1:56307085-56307104 MS.gene63957:CDS 25.0%
!! GATTTCATTTTGTTGAATGA+AGG - chr4.1:56307193-56307212 MS.gene63957:CDS 25.0%
!! TTCTTGATAACCAAAGAAAA+TGG + chr4.1:56307084-56307103 None:intergenic 25.0%
ATCCAAGAGGTTCAAAAATT+GGG - chr4.1:56306907-56306926 MS.gene63957:CDS 30.0%
TATCCAAGAGGTTCAAAAAT+TGG - chr4.1:56306906-56306925 MS.gene63957:CDS 30.0%
TGATAGAATAATGAGGCTTA+TGG - chr4.1:56307303-56307322 MS.gene63957:CDS 30.0%
TGCAGATTTGATTATAGCAT+TGG - chr4.1:56307342-56307361 MS.gene63957:CDS 30.0%
! ATGAGTTTCATATCTGCTTT+TGG - chr4.1:56307136-56307155 MS.gene63957:CDS 30.0%
! TCTTCTTTGACCATTTTCTT+TGG - chr4.1:56307071-56307090 MS.gene63957:CDS 30.0%
AAAAATTGGGAAGTAGCTTC+TGG - chr4.1:56306920-56306939 MS.gene63957:CDS 35.0%
AAACAGTGTGATTGCAGAAA+GGG + chr4.1:56307384-56307403 None:intergenic 35.0%
AATGCTCTTAGAAGAAATCC+TGG - chr4.1:56306989-56307008 MS.gene63957:CDS 35.0%
ATCTTCCTAGCAAAAAGAGA+TGG - chr4.1:56306806-56306825 MS.gene63957:CDS 35.0%
GCTTTCTAATTCAGGAGAAA+TGG - chr4.1:56307042-56307061 MS.gene63957:CDS 35.0%
GTTATCAAGAATTGGAACTG+TGG - chr4.1:56307093-56307112 MS.gene63957:CDS 35.0%
TTGAACCTCTTGGATATATC+AGG + chr4.1:56306902-56306921 None:intergenic 35.0%
TTGCAAGCTTGGAAACATAT+TGG + chr4.1:56306856-56306875 None:intergenic 35.0%
TTTGTTGAATGAAGGGTTGA+AGG - chr4.1:56307201-56307220 MS.gene63957:CDS 35.0%
! ACTGTTTCTCTTGGTATTAG+TGG - chr4.1:56307397-56307416 MS.gene63957:CDS 35.0%
! TTCCCAATTTTTGAACCTCT+TGG + chr4.1:56306912-56306931 None:intergenic 35.0%
! TTCTCTTGGTATTAGTGGAT+TGG - chr4.1:56307402-56307421 MS.gene63957:CDS 35.0%
!! TTTCATATCTGCTTTTGGTG+AGG - chr4.1:56307141-56307160 MS.gene63957:CDS 35.0%
AAAGCGTAGAAGTTCTTCAG+AGG - chr4.1:56307231-56307250 MS.gene63957:CDS 40.0%
AAGCGTAGAAGTTCTTCAGA+GGG - chr4.1:56307232-56307251 MS.gene63957:CDS 40.0%
AGAACTGGAAGGTTTCTTAC+TGG - chr4.1:56306962-56306981 MS.gene63957:CDS 40.0%
ATGTTTCCAAGCTTGCAAAC+TGG - chr4.1:56306858-56306877 MS.gene63957:CDS 40.0%
CTAGCAGTGCTTTCTAATTC+AGG - chr4.1:56307034-56307053 MS.gene63957:CDS 40.0%
CTCATCCTGATATATCCAAG+AGG - chr4.1:56306894-56306913 MS.gene63957:CDS 40.0%
CTTAAAGTGAGAGTAGAACC+AGG + chr4.1:56307010-56307029 None:intergenic 40.0%
GAAACAGTGTGATTGCAGAA+AGG + chr4.1:56307385-56307404 None:intergenic 40.0%
! CTATGCCATCTCTTTTTGCT+AGG + chr4.1:56306814-56306833 None:intergenic 40.0%
! TGCAATCACACTGTTTCTCT+TGG - chr4.1:56307388-56307407 MS.gene63957:CDS 40.0%
!! AGCAGAAAAGCATTCAGAAC+TGG - chr4.1:56306947-56306966 MS.gene63957:CDS 40.0%
!! CTGGTTCTACTCTCACTTTA+AGG - chr4.1:56307008-56307027 MS.gene63957:CDS 40.0%
!! GAAAAGCATTCAGAACTGGA+AGG - chr4.1:56306951-56306970 MS.gene63957:CDS 40.0%
!! TAGTGGATTGGTTTCTGCAT+GGG - chr4.1:56307414-56307433 MS.gene63957:CDS 40.0%
!! TTAGTGGATTGGTTTCTGCA+TGG - chr4.1:56307413-56307432 MS.gene63957:CDS 40.0%
GAATGACACGGTGGACAAAT+TGG - chr4.1:56306781-56306800 MS.gene63957:CDS 45.0%
GTGTGATTGCAGAAAGGGTT+TGG + chr4.1:56307379-56307398 None:intergenic 45.0%
TGGAACTGTGGATGCAAACT+TGG - chr4.1:56307105-56307124 MS.gene63957:CDS 45.0%
!! GGGCTGGTTGGTATAGAAAT+TGG - chr4.1:56307434-56307453 MS.gene63957:CDS 45.0%
!! ATCTGCTTTTGGTGAGGCTG+TGG - chr4.1:56307147-56307166 MS.gene63957:CDS 50.0%
!! TCTGCTTTTGGTGAGGCTGT+GGG - chr4.1:56307148-56307167 MS.gene63957:CDS 50.0%
CAAGCTTGCAAACTGGCGTG+TGG - chr4.1:56306865-56306884 MS.gene63957:CDS 55.0%
CACACGCCAGTTTGCAAGCT+TGG + chr4.1:56306867-56306886 None:intergenic 55.0%
!! GGATTGGTTTCTGCATGGGC+TGG - chr4.1:56307418-56307437 MS.gene63957:CDS 55.0%
!! TGGTTTCTGCATGGGCTGGT+TGG - chr4.1:56307422-56307441 MS.gene63957:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 56306779 56307465 56306779 ID=MS.gene63957
chr4.1 mRNA 56306779 56307465 56306779 ID=MS.gene63957.t1;Parent=MS.gene63957
chr4.1 exon 56306779 56307465 56306779 ID=MS.gene63957.t1.exon1;Parent=MS.gene63957.t1
chr4.1 CDS 56306779 56307465 56306779 ID=cds.MS.gene63957.t1;Parent=MS.gene63957.t1
Gene Sequence

>MS.gene63957

ATGAATGACACGGTGGACAAATTGGTGATCTTCCTAGCAAAAAGAGATGGCATAGACAAACTTGTGAAGACATTCCAATATGTTTCCAAGCTTGCAAACTGGCGTGTGGAAGTCACTCATCCTGATATATCCAAGAGGTTCAAAAATTGGGAAGTAGCTTCTGGTCTCAGCAGAAAAGCATTCAGAACTGGAAGGTTTCTTACTGGATTCAATGCTCTTAGAAGAAATCCTGGTTCTACTCTCACTTTAAGGCTACTAGCAGTGCTTTCTAATTCAGGAGAAATGGTGTATTTCTTCTTTGACCATTTTCTTTGGTTATCAAGAATTGGAACTGTGGATGCAAACTTGGCAAAGAAGATGAGTTTCATATCTGCTTTTGGTGAGGCTGTGGGATATGTTTTCTTCATTATAGCTGATTTCATTTTGTTGAATGAAGGGTTGAAGGCTGAGAGAAAGCGTAGAAGTTCTTCAGAGGGAAAAGAAAAATCAGAAGATAATGAGAAAGAGATTCAGAAATTAAAAAGTGATAGAATAATGAGGCTTATGGCTGTTGCTGCTAATGTTGCAGATTTGATTATAGCATTGGCTGAAATTGAGCCAAACCCTTTCTGCAATCACACTGTTTCTCTTGGTATTAGTGGATTGGTTTCTGCATGGGCTGGTTGGTATAGAAATTGGCCTTCATAA

Protein sequence

>MS.gene63957.t1

MNDTVDKLVIFLAKRDGIDKLVKTFQYVSKLANWRVEVTHPDISKRFKNWEVASGLSRKAFRTGRFLTGFNALRRNPGSTLTLRLLAVLSNSGEMVYFFFDHFLWLSRIGTVDANLAKKMSFISAFGEAVGYVFFIIADFILLNEGLKAERKRRSSSEGKEKSEDNEKEIQKLKSDRIMRLMAVAANVADLIIALAEIEPNPFCNHTVSLGISGLVSAWAGWYRNWPS