AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene40432


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene40432.t1 MTR_6g081040 94.937 316 16 0 1 316 55 370 0.0 588
MS.gene40432.t1 MTR_6g081040 94.937 316 16 0 1 316 12 327 0.0 587
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene40432.t1 AT1G48405 33.333 237 134 2 1 237 21 233 8.97e-35 128
MS.gene40432.t1 AT3G17680 41.892 222 116 4 7 223 29 242 5.26e-31 119
MS.gene40432.t1 AT3G17680 41.892 222 116 4 7 223 61 274 1.06e-30 119
MS.gene40432.t1 AT3G17680 41.892 222 116 4 7 223 73 286 1.40e-30 118

Find 52 sgRNAs with CRISPR-Local

Find 62 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAATGTTGCCAATGATTA+AGG 0.116655 6.2:+76239052 MS.gene40432:CDS
TCCTTCCACTTAAACCTTCT+AGG 0.254299 6.2:-76239575 None:intergenic
CAAATGTTGCCAATGATTAA+GGG 0.371657 6.2:+76239053 MS.gene40432:CDS
AAAGTAGTTGAGGTCTCTTT+TGG 0.378216 6.2:-76238836 None:intergenic
TCTTCTCCAAACCATGTATC+TGG 0.388286 6.2:-76239427 None:intergenic
CAAGTTTCAACTTTGGAAGA+AGG 0.406416 6.2:+76238954 MS.gene40432:CDS
TCAAGGCCAGATACATGGTT+TGG 0.410594 6.2:+76239421 MS.gene40432:CDS
TTCAAATGGAGAAGCCTAGA+AGG 0.411732 6.2:+76239561 MS.gene40432:CDS
GAAGAGTTTGCTTGAGGTGT+TGG 0.416910 6.2:+76239205 MS.gene40432:CDS
AGGATGAAAATGTTGGCAAT+TGG 0.428892 6.2:+76238756 None:intergenic
CTCTTCACAAGTTTCAACTT+TGG 0.429231 6.2:+76238947 MS.gene40432:CDS
TGGTGGTGAAGGGTTAGCTT+TGG 0.430299 6.2:+76239529 MS.gene40432:CDS
AGGAAGAAGGAAATTCTTCT+AGG 0.441661 6.2:+76239594 MS.gene40432:CDS
GATCAAGAAGAAGTTATTAG+TGG 0.443016 6.2:+76238984 MS.gene40432:CDS
GAGTTATAGAGTTAATAGTT+TGG 0.443249 6.2:+76239268 MS.gene40432:CDS
GAAAGTATTGCGAGTCTTCG+AGG 0.458677 6.2:+76239168 MS.gene40432:CDS
GAGTCAAGTTGATTCGGATA+TGG 0.463764 6.2:+76239010 MS.gene40432:CDS
TGGTGTGAGTCAAGTTGATT+CGG 0.464121 6.2:+76239004 MS.gene40432:CDS
GGAAGAAAGGATGAAAATGT+TGG 0.467904 6.2:+76238749 None:intergenic
TTTGGAAGTTCATGTTCAAA+TGG 0.473753 6.2:+76239547 MS.gene40432:CDS
ATCGGCAACAAAGGGAAGAA+TGG 0.498887 6.2:+76239509 MS.gene40432:CDS
ACCATGGAACCCTTAATCAT+TGG 0.501015 6.2:-76239062 None:intergenic
GATCTTCAAGGCCAGATACA+TGG 0.502154 6.2:+76239416 MS.gene40432:CDS
AGAAGCCTAGAAGGTTTAAG+TGG 0.505030 6.2:+76239570 MS.gene40432:CDS
GGTTCATGAGGTTGGTGTCA+TGG 0.507161 6.2:+76239142 MS.gene40432:CDS
AGAAGAGAGAGTCAAGAAAA+CGG 0.507190 6.2:+76239479 MS.gene40432:CDS
AGGTTTAAGTGGAAGGAAGA+AGG 0.509088 6.2:+76239581 MS.gene40432:CDS
CTTCTGCATGATTTGTACAA+TGG 0.516625 6.2:+76238861 MS.gene40432:CDS
AGATACATGGTTTGGAGAAG+AGG 0.525980 6.2:+76239429 MS.gene40432:CDS
GCCTAGAAGGTTTAAGTGGA+AGG 0.532394 6.2:+76239574 MS.gene40432:CDS
ACAAGTGAAGAAGAAGAAGA+AGG 0.536387 6.2:+76238780 MS.gene40432:CDS
GCCAATGATTAAGGGTTCCA+TGG 0.537395 6.2:+76239061 MS.gene40432:CDS
AAAGGGAAGAATGGTGGTGA+AGG 0.547748 6.2:+76239518 MS.gene40432:CDS
AAGTGTTTGTATATATCGAT+CGG 0.552375 6.2:-76238898 None:intergenic
AACATGGACTTGCTGCTATG+TGG 0.560577 6.2:+76239665 MS.gene40432:CDS
GATCAAGATCAAGCGCAAGT+TGG 0.564528 6.2:-76239695 None:intergenic
CAAAGAGCTTGCGTCCGAGT+CGG 0.566207 6.2:+76239301 MS.gene40432:CDS
AAGGGAAGAATGGTGGTGAA+GGG 0.583396 6.2:+76239519 MS.gene40432:CDS
TGCAGAAGTGAAAGTAGTTG+AGG 0.584459 6.2:-76238846 None:intergenic
ACATGGACTTGCTGCTATGT+GGG 0.588821 6.2:+76239666 MS.gene40432:CDS
AGGAAGATTGAAGATCTTCA+AGG 0.589114 6.2:+76239404 MS.gene40432:CDS
CTAAGTGTGTGCTGAAGATG+AGG 0.598254 6.2:+76239354 MS.gene40432:CDS
GTTACAGAAGAGTTTGCTTG+AGG 0.610285 6.2:+76239199 MS.gene40432:CDS
CACACACTTAGCTAACTCAC+CGG 0.626155 6.2:-76239342 None:intergenic
GTACTGTTGAATGAGAATGC+TGG 0.626374 6.2:+76239242 MS.gene40432:CDS
AATTGCATCAACATCAACCA+TGG 0.628092 6.2:-76239078 None:intergenic
TCTCTTTATGAAAACCGACT+CGG 0.628900 6.2:-76239315 None:intergenic
GGAACAAGGAGTATTATGAG+AGG 0.665037 6.2:+76239450 MS.gene40432:CDS
GGCAACAAAGGGAAGAATGG+TGG 0.678048 6.2:+76239512 MS.gene40432:CDS
TGGTTTGGAGAAGAGGAACA+AGG 0.704148 6.2:+76239436 MS.gene40432:CDS
GTGTGTGCTGAAGATGAGGG+AGG 0.735654 6.2:+76239358 MS.gene40432:CDS
TAAGTGTGTGCTGAAGATGA+GGG 0.745974 6.2:+76239355 MS.gene40432:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGTGTTTGTATATATCGAT+CGG - chr6.2:76238901-76238920 None:intergenic 25.0%
! GAGTTATAGAGTTAATAGTT+TGG + chr6.2:76239268-76239287 MS.gene40432:CDS 25.0%
!! ATAGAGTTTTTCTATTGCAT+AGG + chr6.2:76239384-76239403 MS.gene40432:CDS 25.0%
!!! GAATGTTATGTGTGATTTTT+TGG + chr6.2:76239121-76239140 MS.gene40432:CDS 25.0%
ACAAATGTTGCCAATGATTA+AGG + chr6.2:76239052-76239071 MS.gene40432:CDS 30.0%
CAAATGTTGCCAATGATTAA+GGG + chr6.2:76239053-76239072 MS.gene40432:CDS 30.0%
GATCAAGAAGAAGTTATTAG+TGG + chr6.2:76238984-76239003 MS.gene40432:CDS 30.0%
TTTGGAAGTTCATGTTCAAA+TGG + chr6.2:76239547-76239566 MS.gene40432:CDS 30.0%
! AAGAATTTTGCTGGGAAAAA+AGG + chr6.2:76239617-76239636 MS.gene40432:CDS 30.0%
! GTTTTCATAAAGAGAAAAGC+CGG + chr6.2:76239323-76239342 MS.gene40432:CDS 30.0%
!!! CAAGAAAACGGTAGTTTTAT+CGG + chr6.2:76239491-76239510 MS.gene40432:CDS 30.0%
AATTGCATCAACATCAACCA+TGG - chr6.2:76239081-76239100 None:intergenic 35.0%
ACAAGTGAAGAAGAAGAAGA+AGG + chr6.2:76238780-76238799 MS.gene40432:CDS 35.0%
AGAAGAGAGAGTCAAGAAAA+CGG + chr6.2:76239479-76239498 MS.gene40432:CDS 35.0%
AGGAAGAAGGAAATTCTTCT+AGG + chr6.2:76239594-76239613 MS.gene40432:CDS 35.0%
AGGAAGATTGAAGATCTTCA+AGG + chr6.2:76239404-76239423 MS.gene40432:CDS 35.0%
CTCTTCACAAGTTTCAACTT+TGG + chr6.2:76238947-76238966 MS.gene40432:CDS 35.0%
GGAAAAAAGGTCATAGTTTG+TGG + chr6.2:76239630-76239649 MS.gene40432:CDS 35.0%
GTGGAAAAAGTTGAAGAACA+TGG + chr6.2:76239649-76239668 MS.gene40432:CDS 35.0%
TCTCTTTATGAAAACCGACT+CGG - chr6.2:76239318-76239337 None:intergenic 35.0%
! AAAGTAGTTGAGGTCTCTTT+TGG - chr6.2:76238839-76238858 None:intergenic 35.0%
! CAAGTTTCAACTTTGGAAGA+AGG + chr6.2:76238954-76238973 MS.gene40432:CDS 35.0%
! CTTCTGCATGATTTGTACAA+TGG + chr6.2:76238861-76238880 MS.gene40432:CDS 35.0%
!! CTTCTAGGAAGAATTTTGCT+GGG + chr6.2:76239609-76239628 MS.gene40432:CDS 35.0%
!! TCTTCTAGGAAGAATTTTGC+TGG + chr6.2:76239608-76239627 MS.gene40432:CDS 35.0%
!!! GATTTTTTGGTTCATGAGGT+TGG + chr6.2:76239134-76239153 MS.gene40432:CDS 35.0%
!!! GTAGTTTTATCGGCAACAAA+GGG + chr6.2:76239501-76239520 MS.gene40432:CDS 35.0%
!!! GTGTGATTTTTTGGTTCATG+AGG + chr6.2:76239130-76239149 MS.gene40432:CDS 35.0%
ACCATGGAACCCTTAATCAT+TGG - chr6.2:76239065-76239084 None:intergenic 40.0%
AGAAGCCTAGAAGGTTTAAG+TGG + chr6.2:76239570-76239589 MS.gene40432:CDS 40.0%
AGGTTTAAGTGGAAGGAAGA+AGG + chr6.2:76239581-76239600 MS.gene40432:CDS 40.0%
GTACTGTTGAATGAGAATGC+TGG + chr6.2:76239242-76239261 MS.gene40432:CDS 40.0%
TAAGTGTGTGCTGAAGATGA+GGG + chr6.2:76239355-76239374 MS.gene40432:CDS 40.0%
TCCTTCCACTTAAACCTTCT+AGG - chr6.2:76239578-76239597 None:intergenic 40.0%
TCTTCTCCAAACCATGTATC+TGG - chr6.2:76239430-76239449 None:intergenic 40.0%
TGCAGAAGTGAAAGTAGTTG+AGG - chr6.2:76238849-76238868 None:intergenic 40.0%
TTCAAATGGAGAAGCCTAGA+AGG + chr6.2:76239561-76239580 MS.gene40432:CDS 40.0%
! AGATACATGGTTTGGAGAAG+AGG + chr6.2:76239429-76239448 MS.gene40432:CDS 40.0%
! GTTACAGAAGAGTTTGCTTG+AGG + chr6.2:76239199-76239218 MS.gene40432:CDS 40.0%
!! GAGTCAAGTTGATTCGGATA+TGG + chr6.2:76239010-76239029 MS.gene40432:CDS 40.0%
!! GGAACAAGGAGTATTATGAG+AGG + chr6.2:76239450-76239469 MS.gene40432:CDS 40.0%
!! TGGTGTGAGTCAAGTTGATT+CGG + chr6.2:76239004-76239023 MS.gene40432:CDS 40.0%
!!! GGTAGTTTTATCGGCAACAA+AGG + chr6.2:76239500-76239519 MS.gene40432:CDS 40.0%
ATCGGCAACAAAGGGAAGAA+TGG + chr6.2:76239509-76239528 MS.gene40432:CDS 45.0%
CACACACTTAGCTAACTCAC+CGG - chr6.2:76239345-76239364 None:intergenic 45.0%
CTAAGTGTGTGCTGAAGATG+AGG + chr6.2:76239354-76239373 MS.gene40432:CDS 45.0%
GATCTTCAAGGCCAGATACA+TGG + chr6.2:76239416-76239435 MS.gene40432:CDS 45.0%
GCCAATGATTAAGGGTTCCA+TGG + chr6.2:76239061-76239080 MS.gene40432:CDS 45.0%
GCCTAGAAGGTTTAAGTGGA+AGG + chr6.2:76239574-76239593 MS.gene40432:CDS 45.0%
TCAAGGCCAGATACATGGTT+TGG + chr6.2:76239421-76239440 MS.gene40432:CDS 45.0%
! AAAGGGAAGAATGGTGGTGA+AGG + chr6.2:76239518-76239537 MS.gene40432:CDS 45.0%
! AAGGGAAGAATGGTGGTGAA+GGG + chr6.2:76239519-76239538 MS.gene40432:CDS 45.0%
! GAAGAGTTTGCTTGAGGTGT+TGG + chr6.2:76239205-76239224 MS.gene40432:CDS 45.0%
! TGGTTTGGAGAAGAGGAACA+AGG + chr6.2:76239436-76239455 MS.gene40432:CDS 45.0%
!! AACATGGACTTGCTGCTATG+TGG + chr6.2:76239665-76239684 MS.gene40432:CDS 45.0%
!! ACATGGACTTGCTGCTATGT+GGG + chr6.2:76239666-76239685 MS.gene40432:CDS 45.0%
!! GAAAGTATTGCGAGTCTTCG+AGG + chr6.2:76239168-76239187 MS.gene40432:CDS 45.0%
GGCAACAAAGGGAAGAATGG+TGG + chr6.2:76239512-76239531 MS.gene40432:CDS 50.0%
!! GGTTCATGAGGTTGGTGTCA+TGG + chr6.2:76239142-76239161 MS.gene40432:CDS 50.0%
!! TGGTGGTGAAGGGTTAGCTT+TGG + chr6.2:76239529-76239548 MS.gene40432:CDS 50.0%
CAAAGAGCTTGCGTCCGAGT+CGG + chr6.2:76239301-76239320 MS.gene40432:CDS 55.0%
GTGTGTGCTGAAGATGAGGG+AGG + chr6.2:76239358-76239377 MS.gene40432:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 76238759 76239709 76238759 ID=MS.gene40432
chr6.2 mRNA 76238759 76239709 76238759 ID=MS.gene40432.t1;Parent=MS.gene40432
chr6.2 exon 76238759 76239709 76238759 ID=MS.gene40432.t1.exon1;Parent=MS.gene40432.t1
chr6.2 CDS 76238759 76239709 76238759 ID=cds.MS.gene40432.t1;Parent=MS.gene40432.t1
Gene Sequence

>MS.gene40432

ATGAAAATGTTGGCAATTGGAACAAGTGAAGAAGAAGAAGAAGGTGACACTTTTGCTGAAAGAGCAGAAACTTATTACCAAAAGAGACCTCAACTACTTTCACTTCTGCATGATTTGTACAATGGCTATGTCACTTTATCCGATCGATATATACAAACACTTGCAAAGCATAAGCATCATAGTAGACACTCTTCACAAGTTTCAACTTTGGAAGAAGGATTTTCTGATCAAGAAGAAGTTATTAGTGGTGTGAGTCAAGTTGATTCGGATATGGAAAGTTCAATCTCTTATCAACAAATGTTGCCAATGATTAAGGGTTCCATGGTTGATGTTGATGCAATTGTAGCTGAGCTTGTGATGAAGAATGTTATGTGTGATTTTTTGGTTCATGAGGTTGGTGTCATGGAGAGAAAGTATTGCGAGTCTTCGAGGAAAAGTGAGTTACAGAAGAGTTTGCTTGAGGTGTTGGAATCTGAGAGACTTGTACTGTTGAATGAGAATGCTGGTTTGAGTTATAGAGTTAATAGTTTGGTTGAAGAGAACAAAGAGCTTGCGTCCGAGTCGGTTTTCATAAAGAGAAAAGCCGGTGAGTTAGCTAAGTGTGTGCTGAAGATGAGGGAGGATCATAGAGTTTTTCTATTGCATAGGAAGATTGAAGATCTTCAAGGCCAGATACATGGTTTGGAGAAGAGGAACAAGGAGTATTATGAGAGGCTTTTGAGAAGAGAGAGTCAAGAAAACGGTAGTTTTATCGGCAACAAAGGGAAGAATGGTGGTGAAGGGTTAGCTTTGGAAGTTCATGTTCAAATGGAGAAGCCTAGAAGGTTTAAGTGGAAGGAAGAAGGAAATTCTTCTAGGAAGAATTTTGCTGGGAAAAAAGGTCATAGTTTGTGGAAAAAGTTGAAGAACATGGACTTGCTGCTATGTGGGACAAATCCAACTTGCGCTTGA

Protein sequence

>MS.gene40432.t1

MKMLAIGTSEEEEEGDTFAERAETYYQKRPQLLSLLHDLYNGYVTLSDRYIQTLAKHKHHSRHSSQVSTLEEGFSDQEEVISGVSQVDSDMESSISYQQMLPMIKGSMVDVDAIVAELVMKNVMCDFLVHEVGVMERKYCESSRKSELQKSLLEVLESERLVLLNENAGLSYRVNSLVEENKELASESVFIKRKAGELAKCVLKMREDHRVFLLHRKIEDLQGQIHGLEKRNKEYYERLLRRESQENGSFIGNKGKNGGEGLALEVHVQMEKPRRFKWKEEGNSSRKNFAGKKGHSLWKKLKNMDLLLCGTNPTCA