AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene056075


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056075.t1 MTR_1g083460 98.519 135 2 0 1 135 1 135 1.10e-92 266
MS.gene056075.t1 MTR_7g108805 93.333 135 9 0 1 135 1 135 5.84e-88 254
MS.gene056075.t1 MTR_7g112880 83.704 135 22 0 1 135 1 135 1.39e-80 235
MS.gene056075.t1 MTR_7g112880 78.049 82 18 0 54 135 1 82 5.56e-44 141
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene056075.t1 AT5G27850 83.704 135 22 0 1 135 1 135 8.32e-80 233
MS.gene056075.t1 AT3G05590 82.963 135 23 0 1 135 1 135 1.73e-78 230
MS.gene056075.t1 AT2G47570 75.373 134 32 1 3 135 1 134 4.97e-68 204
MS.gene056075.t1 AT3G05590 81.707 82 15 0 54 135 1 82 1.11e-44 142
MS.gene056075.t1 AT3G05590 81.707 82 15 0 54 135 1 82 1.11e-44 142
MS.gene056075.t1 AT5G27850 80.488 82 16 0 54 135 1 82 5.89e-44 141

Find 41 sgRNAs with CRISPR-Local

Find 82 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATTCGATCAGTTGGCTCTT+AGG 0.165548 1.4:+67535662 MS.gene056075:CDS
TATTCTTGCCCTTGCCTTCT+CGG 0.231639 1.4:-67535614 None:intergenic
AGATAGATATCATTGGATTT+TGG 0.265066 1.4:-67534504 None:intergenic
TGATATCTATCTCAAGCTTT+TGG 0.326212 1.4:+67534515 MS.gene056075:CDS
GTTGGCTCTTAGGGCCCCTC+TGG 0.332505 1.4:+67535672 MS.gene056075:CDS
AGCTTTATCGGTTCCTTGTT+CGG 0.346996 1.4:+67535293 MS.gene056075:intron
CGGTTCCTTGTTCGGAGAAC+TGG 0.351555 1.4:+67535301 MS.gene056075:CDS
ATTCGATCAGTTGGCTCTTA+GGG 0.374062 1.4:+67535663 MS.gene056075:CDS
CCTGAGTGCTGTAACCTTGA+TGG 0.411463 1.4:-67535587 None:intergenic
GGTAAAATTGCTGTCGTGGT+GGG 0.429219 1.4:+67535526 MS.gene056075:CDS
AAGCTTGAGATAGATATCAT+TGG 0.447582 1.4:-67534511 None:intergenic
TTTGTAGGGTATCGATCTTA+AGG 0.453950 1.4:+67534446 MS.gene056075:intron
ATCAACCTTGACAAAGATAG+TGG 0.491899 1.4:-67535382 None:intergenic
GTAAAATTGCTGTCGTGGTG+GGG 0.493129 1.4:+67535527 MS.gene056075:CDS
CAAGAGGTTGTTTATGAGCA+AGG 0.493391 1.4:+67535348 MS.gene056075:CDS
ATGCTTAACATTCGATCAGT+TGG 0.511340 1.4:+67535654 MS.gene056075:CDS
TAATGAAGTTCCAGCCATCA+AGG 0.511887 1.4:+67535573 MS.gene056075:CDS
TTGGCTCTTAGGGCCCCTCT+GGG 0.540521 1.4:+67535673 MS.gene056075:CDS
AGGTAAAATTGCTGTCGTGG+TGG 0.541180 1.4:+67535525 MS.gene056075:CDS
TAAAATTGCTGTCGTGGTGG+GGG 0.545281 1.4:+67535528 MS.gene056075:CDS
TCAGGTTTACCGAGAAGGCA+AGG 0.546899 1.4:+67535605 MS.gene056075:CDS
TCAATGCTGTTATACTCAAG+AGG 0.549427 1.4:+67535332 MS.gene056075:CDS
TGCTGCCAGTTCTCCGAACA+AGG 0.549972 1.4:-67535306 None:intergenic
AGGCAAGGGCAAGAATAGAA+AGG 0.551093 1.4:+67535620 MS.gene056075:CDS
AGTGCTGTAACCTTGATGGC+TGG 0.551868 1.4:-67535583 None:intergenic
GGCAAGGGCAAGAATAGAAA+GGG 0.553936 1.4:+67535621 MS.gene056075:CDS
AGATTGACAAACCTTGCCAT+TGG 0.555253 1.4:-67535413 None:intergenic
TAGGGTATCGATCTTAAGGC+AGG 0.555670 1.4:+67534450 MS.gene056075:intron
AGCACTCAGGTTTACCGAGA+AGG 0.559032 1.4:+67535600 MS.gene056075:CDS
CCATCAAGGTTACAGCACTC+AGG 0.567655 1.4:+67535587 MS.gene056075:CDS
AACCTCCACTATCTTTGTCA+AGG 0.576324 1.4:+67535377 MS.gene056075:CDS
GGCCCCTCTGGGACAAAACA+CGG 0.583895 1.4:+67535684 MS.gene056075:CDS
AGGGCAAGAATAGAAAGGGC+TGG 0.616183 1.4:+67535625 MS.gene056075:CDS
CAGGTTTACCGAGAAGGCAA+GGG 0.616460 1.4:+67535606 MS.gene056075:CDS
GATCAAGTATACCAATGGCA+AGG 0.626076 1.4:+67535402 MS.gene056075:CDS
TGGCTGGAACTTCATTAACA+CGG 0.640444 1.4:-67535567 None:intergenic
AGGTTGATCAAGTATACCAA+TGG 0.643281 1.4:+67535397 MS.gene056075:CDS
AACCTTGACAAAGATAGTGG+AGG 0.643571 1.4:-67535379 None:intergenic
GGAAGGTAAAATTGCTGTCG+TGG 0.652028 1.4:+67535522 MS.gene056075:intron
GGTATCGATCTTAAGGCAGG+AGG 0.692243 1.4:+67534453 MS.gene056075:CDS
GCAAGAATAGAAAGGGCTGG+TGG 0.708893 1.4:+67535628 MS.gene056075:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGTTTTCAAAATATTATTAT+GGG + chr1.4:67534885-67534904 MS.gene056075:intron 10.0%
!! AATGAAATATAACCAAAAAT+AGG - chr1.4:67534835-67534854 None:intergenic 15.0%
!! ATAGTCAAAAAAAAAATCAT+TGG - chr1.4:67534670-67534689 None:intergenic 15.0%
!! TAGTCAAAAAAAAAATCATT+GGG - chr1.4:67534669-67534688 None:intergenic 15.0%
!!! CTGTTTTCAAAATATTATTA+TGG + chr1.4:67534884-67534903 MS.gene056075:intron 15.0%
!!! GTTTTAGCTTTATAAAAAAA+TGG - chr1.4:67535152-67535171 None:intergenic 15.0%
!!! TATTGTTGTTTTAAAAAACA+AGG + chr1.4:67534981-67535000 MS.gene056075:intron 15.0%
!!! TTAATAGAAGTGATTTTTAT+GGG + chr1.4:67535047-67535066 MS.gene056075:intron 15.0%
!! TACATAGGTAAATTTCAAAA+TGG - chr1.4:67535502-67535521 None:intergenic 20.0%
!! TAGATATATGAGAAAAATGA+GGG - chr1.4:67535182-67535201 None:intergenic 20.0%
!! TCAGTTTACTATAGTTATAA+TGG + chr1.4:67535473-67535492 MS.gene056075:intron 20.0%
!!! AAGTTTAATTTATAATGCTG+AGG + chr1.4:67534716-67534735 MS.gene056075:intron 20.0%
!!! AGTTTAATTTATAATGCTGA+GGG + chr1.4:67534717-67534736 MS.gene056075:intron 20.0%
!!! ATTTTGAAATTTACCTATGT+AGG + chr1.4:67535501-67535520 MS.gene056075:intron 20.0%
!!! GTTAATAGAAGTGATTTTTA+TGG + chr1.4:67535046-67535065 MS.gene056075:intron 20.0%
!!! TTACATTGAATTGTTTTGAT+TGG + chr1.4:67535257-67535276 MS.gene056075:intron 20.0%
!!! TTTTTGGTTATATTTCATTG+CGG + chr1.4:67534836-67534855 MS.gene056075:intron 20.0%
! AAGAAATAACATAAAGCTAC+AGG - chr1.4:67534599-67534618 None:intergenic 25.0%
! AATTCAAACGTAAGAAACAA+TGG - chr1.4:67534422-67534441 None:intergenic 25.0%
! AGAAATAACATAAAGCTACA+GGG - chr1.4:67534598-67534617 None:intergenic 25.0%
! GTAGATATATGAGAAAAATG+AGG - chr1.4:67535183-67535202 None:intergenic 25.0%
! GTTGAAATGTAAGCAAAAAT+GGG + chr1.4:67534800-67534819 MS.gene056075:intron 25.0%
! TGTTGAAATGTAAGCAAAAA+TGG + chr1.4:67534799-67534818 MS.gene056075:intron 25.0%
!! AGATAGATATCATTGGATTT+TGG - chr1.4:67534507-67534526 None:intergenic 25.0%
!! TGTCATTGACAAACAATTTT+AGG + chr1.4:67534623-67534642 MS.gene056075:intron 25.0%
!!! TGTTGTTTTAAAAAACAAGG+AGG + chr1.4:67534984-67535003 MS.gene056075:intron 25.0%
!!! TTTTACATGATCAGCTTTAT+CGG + chr1.4:67535281-67535300 MS.gene056075:intron 25.0%
AAGCTTGAGATAGATATCAT+TGG - chr1.4:67534514-67534533 None:intergenic 30.0%
ACGTTTGAATTGAACTTTGT+AGG + chr1.4:67534431-67534450 MS.gene056075:intron 30.0%
CGTTTGAATTGAACTTTGTA+GGG + chr1.4:67534432-67534451 MS.gene056075:intron 30.0%
TATTATGGGTGTGTTTGTTT+AGG + chr1.4:67534899-67534918 MS.gene056075:intron 30.0%
TGAAATTTACCTATGTAGGA+AGG + chr1.4:67535505-67535524 MS.gene056075:intron 30.0%
TTGCTTACATTTCAACATAG+AGG - chr1.4:67534796-67534815 None:intergenic 30.0%
! AGGAAAAGCTAACTCATTTT+AGG - chr1.4:67534948-67534967 None:intergenic 30.0%
! GGAAAAGCTAACTCATTTTA+GGG - chr1.4:67534947-67534966 None:intergenic 30.0%
! TGATATCTATCTCAAGCTTT+TGG + chr1.4:67534515-67534534 MS.gene056075:CDS 30.0%
ATCAACCTTGACAAAGATAG+TGG - chr1.4:67535385-67535404 None:intergenic 35.0%
ATGCTTAACATTCGATCAGT+TGG + chr1.4:67535654-67535673 MS.gene056075:CDS 35.0%
TCAATGCTGTTATACTCAAG+AGG + chr1.4:67535332-67535351 MS.gene056075:CDS 35.0%
TGGTTATATTTCATTGCGGA+TGG + chr1.4:67534840-67534859 MS.gene056075:intron 35.0%
! AGGTTGATCAAGTATACCAA+TGG + chr1.4:67535397-67535416 MS.gene056075:CDS 35.0%
! GCAATTTTACCTTCCTACAT+AGG - chr1.4:67535517-67535536 None:intergenic 35.0%
! GGGTCGAAAAAACCTATTTT+TGG + chr1.4:67534820-67534839 MS.gene056075:intron 35.0%
!! TTTGTAGGGTATCGATCTTA+AGG + chr1.4:67534446-67534465 MS.gene056075:intron 35.0%
AACCTCCACTATCTTTGTCA+AGG + chr1.4:67535377-67535396 MS.gene056075:CDS 40.0%
AGATTGACAAACCTTGCCAT+TGG - chr1.4:67535416-67535435 None:intergenic 40.0%
CAAGAGGTTGTTTATGAGCA+AGG + chr1.4:67535348-67535367 MS.gene056075:CDS 40.0%
GATCAAGTATACCAATGGCA+AGG + chr1.4:67535402-67535421 MS.gene056075:CDS 40.0%
TAATGAAGTTCCAGCCATCA+AGG + chr1.4:67535573-67535592 MS.gene056075:CDS 40.0%
TGGCTGGAACTTCATTAACA+CGG - chr1.4:67535570-67535589 None:intergenic 40.0%
! AACCTTGACAAAGATAGTGG+AGG - chr1.4:67535382-67535401 None:intergenic 40.0%
! ATTCGATCAGTTGGCTCTTA+GGG + chr1.4:67535663-67535682 MS.gene056075:CDS 40.0%
! CTATCTCAAGCTTTTGGTCA+AGG + chr1.4:67534521-67534540 MS.gene056075:CDS 40.0%
!! AGCTTTATCGGTTCCTTGTT+CGG + chr1.4:67535293-67535312 MS.gene056075:intron 40.0%
AGGCAAGGGCAAGAATAGAA+AGG + chr1.4:67535620-67535639 MS.gene056075:CDS 45.0%
AGGTAAAATTGCTGTCGTGG+TGG + chr1.4:67535525-67535544 MS.gene056075:CDS 45.0%
GGAAGGTAAAATTGCTGTCG+TGG + chr1.4:67535522-67535541 MS.gene056075:intron 45.0%
GGCAAGGGCAAGAATAGAAA+GGG + chr1.4:67535621-67535640 MS.gene056075:CDS 45.0%
GGTAAAATTGCTGTCGTGGT+GGG + chr1.4:67535526-67535545 MS.gene056075:CDS 45.0%
GTAAAATTGCTGTCGTGGTG+GGG + chr1.4:67535527-67535546 MS.gene056075:CDS 45.0%
TAAAATTGCTGTCGTGGTGG+GGG + chr1.4:67535528-67535547 MS.gene056075:CDS 45.0%
TATTCTTGCCCTTGCCTTCT+CGG - chr1.4:67535617-67535636 None:intergenic 45.0%
! ATACCGTGTTTTGTCCCAGA+GGG - chr1.4:67535690-67535709 None:intergenic 45.0%
! CATTCGATCAGTTGGCTCTT+AGG + chr1.4:67535662-67535681 MS.gene056075:CDS 45.0%
!! TAGGGTATCGATCTTAAGGC+AGG + chr1.4:67534450-67534469 MS.gene056075:intron 45.0%
!! AACAATAATAATAATAATTT+AGG - chr1.4:67534968-67534987 None:intergenic 5.0%
AGCACTCAGGTTTACCGAGA+AGG + chr1.4:67535600-67535619 MS.gene056075:CDS 50.0%
AGGGCAAGAATAGAAAGGGC+TGG + chr1.4:67535625-67535644 MS.gene056075:CDS 50.0%
CAGGTTTACCGAGAAGGCAA+GGG + chr1.4:67535606-67535625 MS.gene056075:CDS 50.0%
CCATCAAGGTTACAGCACTC+AGG + chr1.4:67535587-67535606 MS.gene056075:CDS 50.0%
GCAAGAATAGAAAGGGCTGG+TGG + chr1.4:67535628-67535647 MS.gene056075:CDS 50.0%
TCAGGTTTACCGAGAAGGCA+AGG + chr1.4:67535605-67535624 MS.gene056075:CDS 50.0%
! AGTGCTGTAACCTTGATGGC+TGG - chr1.4:67535586-67535605 None:intergenic 50.0%
! CATACCGTGTTTTGTCCCAG+AGG - chr1.4:67535691-67535710 None:intergenic 50.0%
! CCTGAGTGCTGTAACCTTGA+TGG - chr1.4:67535590-67535609 None:intergenic 50.0%
! TACCGTGTTTTGTCCCAGAG+GGG - chr1.4:67535689-67535708 None:intergenic 50.0%
!! GGTATCGATCTTAAGGCAGG+AGG + chr1.4:67534453-67534472 MS.gene056075:CDS 50.0%
CGGTTCCTTGTTCGGAGAAC+TGG + chr1.4:67535301-67535320 MS.gene056075:CDS 55.0%
TGCTGCCAGTTCTCCGAACA+AGG - chr1.4:67535309-67535328 None:intergenic 55.0%
! TTGGCTCTTAGGGCCCCTCT+GGG + chr1.4:67535673-67535692 MS.gene056075:CDS 60.0%
!! GGCCCCTCTGGGACAAAACA+CGG + chr1.4:67535684-67535703 MS.gene056075:CDS 60.0%
! GTTGGCTCTTAGGGCCCCTC+TGG + chr1.4:67535672-67535691 MS.gene056075:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 67534359 67535806 67534359 ID=MS.gene056075
chr1.4 mRNA 67534359 67535806 67534359 ID=MS.gene056075.t1;Parent=MS.gene056075
chr1.4 exon 67534359 67534361 67534359 ID=MS.gene056075.t1.exon1;Parent=MS.gene056075.t1
chr1.4 CDS 67534359 67534361 67534359 ID=cds.MS.gene056075.t1;Parent=MS.gene056075.t1
chr1.4 exon 67534453 67534542 67534453 ID=MS.gene056075.t1.exon2;Parent=MS.gene056075.t1
chr1.4 CDS 67534453 67534542 67534453 ID=cds.MS.gene056075.t1;Parent=MS.gene056075.t1
chr1.4 exon 67535295 67535423 67535295 ID=MS.gene056075.t1.exon3;Parent=MS.gene056075.t1
chr1.4 CDS 67535295 67535423 67535295 ID=cds.MS.gene056075.t1;Parent=MS.gene056075.t1
chr1.4 exon 67535523 67535705 67535523 ID=MS.gene056075.t1.exon4;Parent=MS.gene056075.t1
chr1.4 CDS 67535523 67535705 67535523 ID=cds.MS.gene056075.t1;Parent=MS.gene056075.t1
chr1.4 exon 67535795 67535806 67535795 ID=MS.gene056075.t1.exon5;Parent=MS.gene056075.t1
chr1.4 CDS 67535795 67535806 67535795 ID=cds.MS.gene056075.t1;Parent=MS.gene056075.t1
Gene Sequence

>MS.gene056075

ATGGTTTGTCTTCTCTTAAACAATCTTGTTATCATTCTGTTATGTATTTGAAGCGAAGCTCCATTGTTTCTTACGTTTGAATTGAACTTTGTAGGGTATCGATCTTAAGGCAGGAGGTAAGAACAAAAAAACAAAAAGAACAGCACCAAAATCCAATGATATCTATCTCAAGCTTTTGGTCAAGGTCAGTTTTATGTTTCTTTAGATCTGAATGAATTTTAACATTGTTGTGTTGACCCTGTAGCTTTATGTTATTTCTTGATCTGTCATTGACAAACAATTTTAGGCTTGTAACAATGAGAAAGTTCCCAATGATTTTTTTTTTGACTATGCTAATGCTGATAATTGATGATTAATAAGTTTAATTTATAATGCTGAGGGAATTAGTGAACTCTTTAATTCTGTTTTGTTATCAATGTTGAAGCTTACTACTTCCTCTATGTTGAAATGTAAGCAAAAATGGGTCGAAAAAACCTATTTTTGGTTATATTTCATTGCGGATGGATCACTTCATCTCAGAAGAATCTGTTTTCAAAATATTATTATGGGTGTGTTTGTTTAGGATTTAAAAAAAATCATTTTTGACCCTAAAATGAGTTAGCTTTTCCTAAATTATTATTATTATTGTTGTTTTAAAAAACAAGGAGGTAAATCATAAAAACATTAAAAATTATAAATCATGAACAAGTTAATAGAAGTGATTTTTATGGGCAGTAAAAAACAGAAATTGTTCAGATTTTTTTTTTTTTAAATCTCTAAAAATTAATCTCTTGATATTTTATCACACAATCCATTTTTTTATAAAGCTAAAACAAACGCACCCTCATTTTTCTCATATATCTACATGCATATTCATTTGAGATTTATGTCTTTTTTTTTTGTAATATCTTTTGAATATTTACATTGAATTGTTTTGATTGGATTTTACATGATCAGCTTTATCGGTTCCTTGTTCGGAGAACTGGCAGCAATTTCAATGCTGTTATACTCAAGAGGTTGTTTATGAGCAAGGTTAACAAACCTCCACTATCTTTGTCAAGGTTGATCAAGTATACCAATGGCAAGGTTTGTCAATCTATGCAATCTTCATTTTCATAGTATTTTTTTTTGTAAATCAGTTTACTATAGTTATAATGGTTACCATTTTGAAATTTACCTATGTAGGAAGGTAAAATTGCTGTCGTGGTGGGGGCTATAACTGATGATGTCCGTGTTAATGAAGTTCCAGCCATCAAGGTTACAGCACTCAGGTTTACCGAGAAGGCAAGGGCAAGAATAGAAAGGGCTGGTGGTGAATGCTTAACATTCGATCAGTTGGCTCTTAGGGCCCCTCTGGGACAAAACACGGTATGTGTCATTCTCGCATTAAGCTTTTGTCAGCTTCTGAGTAATTGACTCTATCAGTTGCTGCATTTTTTGTGAAATGATTGAATTAGTTCTGCTCCTGA

Protein sequence

>MS.gene056075.t1

MGIDLKAGGKNKKTKRTAPKSNDIYLKLLVKLYRFLVRRTGSNFNAVILKRLFMSKVNKPPLSLSRLIKYTNGKEGKIAVVVGAITDDVRVNEVPAIKVTALRFTEKARARIERAGGECLTFDQLALRAPLGQNTFCS