AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70204

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70204.t1 MTR_8g094080 95.699 93 4 0 37 129 1 93 9.32e-63 187
MS.gene70204.t1 MTR_8g094070 70.455 88 18 2 51 130 333 420 5.02e-33 122
MS.gene70204.t1 MTR_8g094070 70.455 88 18 2 51 130 333 420 5.51e-33 122
MS.gene70204.t1 MTR_1g069755 36.364 99 50 4 44 130 329 426 1.15e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70204.t1 AT5G63950 64.615 65 19 1 70 130 348 412 6.20e-21 87.8
MS.gene70204.t1 AT5G63950 64.615 65 19 1 70 130 348 412 6.56e-21 87.8
MS.gene70204.t1 AT2G18760 52.727 55 20 1 82 130 425 479 1.60e-12 63.9
MS.gene70204.t1 AT2G18760 52.727 55 20 1 82 130 366 420 1.66e-12 63.9
MS.gene70204.t1 AT2G18760 52.727 55 20 1 82 130 366 420 1.66e-12 63.9
MS.gene70204.t1 AT2G18760 52.727 55 20 1 82 130 366 420 1.66e-12 63.9
MS.gene70204.t1 AT2G18760 52.727 55 20 1 82 130 366 420 1.66e-12 63.9
MS.gene70204.t1 AT2G18760 52.727 55 20 1 82 130 366 420 1.66e-12 63.9
MS.gene70204.t1 AT2G18760 52.727 55 20 1 82 130 366 420 1.66e-12 63.9

Find 31 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAATCCTTCCCTCTGATA+TGG 0.321992 4.1:-8226731 None:intergenic
GCTCTGGTCATTACATTGTC+AGG 0.381421 4.1:+8226757 MS.gene70204:CDS
TTGAAAATCCCGTTTCTGTT+TGG 0.398505 4.1:+8226353 MS.gene70204:CDS
CTCGCAGATGACATGGGATT+GGG 0.428089 4.1:+8226794 MS.gene70204:CDS
GTTGTTTACCAAACAGAAAC+GGG 0.429375 4.1:-8226361 None:intergenic
CCTCGCAGATGACATGGGAT+TGG 0.456122 4.1:+8226793 MS.gene70204:CDS
TGAGTATGAATCAAATGATT+CGG 0.462163 4.1:+8226616 MS.gene70204:CDS
TGTTGTTTACCAAACAGAAA+CGG 0.465733 4.1:-8226362 None:intergenic
GGGAAGGATTGAAGTGGCTC+TGG 0.490862 4.1:+8226741 MS.gene70204:CDS
CACAAAGTCCACGTATAAGT+TGG 0.495204 4.1:+8226682 MS.gene70204:CDS
TGAATCAAATGATTCGGATC+TGG 0.499129 4.1:+8226622 MS.gene70204:CDS
TAGTACCATGTGAGAAATGT+TGG 0.508145 4.1:-8226424 None:intergenic
TGGAATCCTCGCAGATGACA+TGG 0.518517 4.1:+8226787 MS.gene70204:CDS
AAATGATTCGGATCTGGTGT+TGG 0.534372 4.1:+8226628 MS.gene70204:CDS
TCATTACATTGTCAGGGTAA+AGG 0.534572 4.1:+8226764 MS.gene70204:CDS
AAATGTTGATTCCATATCAG+AGG 0.584917 4.1:+8226720 MS.gene70204:CDS
TTGATTCCATATCAGAGGGA+AGG 0.586105 4.1:+8226725 MS.gene70204:CDS
AAAGTCCACGTATAAGTTGG+AGG 0.590302 4.1:+8226685 MS.gene70204:CDS
CTCTGGTCATTACATTGTCA+GGG 0.600790 4.1:+8226758 MS.gene70204:CDS
AGAGGATGAAATGAAGACGA+AGG 0.606720 4.1:+8226541 MS.gene70204:intron
TTACATTGTCAGGGTAAAGG+TGG 0.606790 4.1:+8226767 MS.gene70204:CDS
AGACGAAGGTGAAGGTGCAA+TGG 0.606860 4.1:+8226555 MS.gene70204:CDS
AATGTTGATTCCATATCAGA+GGG 0.609093 4.1:+8226721 MS.gene70204:CDS
TACCATGTGAGAAATGTTGG+AGG 0.617818 4.1:-8226421 None:intergenic
TGAAATGAAGACGAAGGTGA+AGG 0.621551 4.1:+8226547 MS.gene70204:CDS
TTCCTCCAACATTTCTCACA+TGG 0.627590 4.1:+8226419 MS.gene70204:CDS
AAGTCCACGTATAAGTTGGA+GGG 0.637438 4.1:+8226686 MS.gene70204:CDS
GGAATCCTCGCAGATGACAT+GGG 0.648291 4.1:+8226788 MS.gene70204:CDS
ATCAGAGGGAAGGATTGAAG+TGG 0.660849 4.1:+8226735 MS.gene70204:CDS
CTCTTGACGAGCAGTATCGA+CGG 0.668548 4.1:-8226580 None:intergenic
CCAATCCCATGTCATCTGCG+AGG 0.678179 4.1:-8226793 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTGTTCAAGAAATGATTAA+TGG - chr4.1:8226514-8226533 None:intergenic 20.0%
! TAATACAAATGATGAGAGTA+AGG - chr4.1:8226478-8226497 None:intergenic 25.0%
! TGAGTATGAATCAAATGATT+CGG + chr4.1:8226616-8226635 MS.gene70204:CDS 25.0%
!! TCTTGAACAATAACTTTTAG+AGG + chr4.1:8226523-8226542 MS.gene70204:intron 25.0%
! TGTTGTTTACCAAACAGAAA+CGG - chr4.1:8226365-8226384 None:intergenic 30.0%
!! AAATGTTGATTCCATATCAG+AGG + chr4.1:8226720-8226739 MS.gene70204:CDS 30.0%
!! AATGTTGATTCCATATCAGA+GGG + chr4.1:8226721-8226740 MS.gene70204:CDS 30.0%
AAAAACAATGCAGGTACGTA+AGG + chr4.1:8226817-8226836 MS.gene70204:CDS 35.0%
GTTGTTTACCAAACAGAAAC+GGG - chr4.1:8226364-8226383 None:intergenic 35.0%
TAGTACCATGTGAGAAATGT+TGG - chr4.1:8226427-8226446 None:intergenic 35.0%
TCATTACATTGTCAGGGTAA+AGG + chr4.1:8226764-8226783 MS.gene70204:CDS 35.0%
TTGAAAATCCCGTTTCTGTT+TGG + chr4.1:8226353-8226372 MS.gene70204:CDS 35.0%
! TGAATCAAATGATTCGGATC+TGG + chr4.1:8226622-8226641 MS.gene70204:CDS 35.0%
AGAGGATGAAATGAAGACGA+AGG + chr4.1:8226541-8226560 MS.gene70204:intron 40.0%
CACAAAGTCCACGTATAAGT+TGG + chr4.1:8226682-8226701 MS.gene70204:CDS 40.0%
CTCTGGTCATTACATTGTCA+GGG + chr4.1:8226758-8226777 MS.gene70204:CDS 40.0%
TACCATGTGAGAAATGTTGG+AGG - chr4.1:8226424-8226443 None:intergenic 40.0%
TGAAATGAAGACGAAGGTGA+AGG + chr4.1:8226547-8226566 MS.gene70204:CDS 40.0%
TGAGAGTAAGGAAAGAGAAG+AGG - chr4.1:8226466-8226485 None:intergenic 40.0%
TTACATTGTCAGGGTAAAGG+TGG + chr4.1:8226767-8226786 MS.gene70204:CDS 40.0%
TTCAATCCTTCCCTCTGATA+TGG - chr4.1:8226734-8226753 None:intergenic 40.0%
TTCCTCCAACATTTCTCACA+TGG + chr4.1:8226419-8226438 MS.gene70204:CDS 40.0%
TTGATTCCATATCAGAGGGA+AGG + chr4.1:8226725-8226744 MS.gene70204:CDS 40.0%
! AAAGTCCACGTATAAGTTGG+AGG + chr4.1:8226685-8226704 MS.gene70204:CDS 40.0%
! AAATGATTCGGATCTGGTGT+TGG + chr4.1:8226628-8226647 MS.gene70204:CDS 40.0%
! AAGTCCACGTATAAGTTGGA+GGG + chr4.1:8226686-8226705 MS.gene70204:CDS 40.0%
! TTTTCCCTCCAACTTATACG+TGG - chr4.1:8226693-8226712 None:intergenic 40.0%
ATCAGAGGGAAGGATTGAAG+TGG + chr4.1:8226735-8226754 MS.gene70204:CDS 45.0%
GCTCTGGTCATTACATTGTC+AGG + chr4.1:8226757-8226776 MS.gene70204:CDS 45.0%
GGGATTGGGAAAAACAATGC+AGG + chr4.1:8226808-8226827 MS.gene70204:CDS 45.0%
CTCGCAGATGACATGGGATT+GGG + chr4.1:8226794-8226813 MS.gene70204:CDS 50.0%
GGAATCCTCGCAGATGACAT+GGG + chr4.1:8226788-8226807 MS.gene70204:CDS 50.0%
TGGAATCCTCGCAGATGACA+TGG + chr4.1:8226787-8226806 MS.gene70204:CDS 50.0%
! AGACGAAGGTGAAGGTGCAA+TGG + chr4.1:8226555-8226574 MS.gene70204:CDS 50.0%
! CTCTTGACGAGCAGTATCGA+CGG - chr4.1:8226583-8226602 None:intergenic 50.0%
CCAATCCCATGTCATCTGCG+AGG - chr4.1:8226796-8226815 None:intergenic 55.0%
CCTCGCAGATGACATGGGAT+TGG + chr4.1:8226793-8226812 MS.gene70204:CDS 55.0%
GGGAAGGATTGAAGTGGCTC+TGG + chr4.1:8226741-8226760 MS.gene70204:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 8226341 8226853 8226341 ID=MS.gene70204
chr4.1 mRNA 8226341 8226853 8226341 ID=MS.gene70204.t1;Parent=MS.gene70204
chr4.1 exon 8226341 8226440 8226341 ID=MS.gene70204.t1.exon1;Parent=MS.gene70204.t1
chr4.1 CDS 8226341 8226440 8226341 ID=cds.MS.gene70204.t1;Parent=MS.gene70204.t1
chr4.1 exon 8226543 8226853 8226543 ID=MS.gene70204.t1.exon2;Parent=MS.gene70204.t1
chr4.1 CDS 8226543 8226853 8226543 ID=cds.MS.gene70204.t1;Parent=MS.gene70204.t1
Gene Sequence

>MS.gene70204

ATGAGACTGAGTTTGAAAATCCCGTTTCTGTTTGGTAAACAACATTTGAAAGTGAAATCTATAACTCATTATCGCAGCTTCCTCCAACATTTCTCACATGGTACTATTACTATGCTATTGCTCCTCTTCTCTTTCCTTACTCTCATCATTTGTATTATTACATTATCATACCATTAATCATTTCTTGAACAATAACTTTTAGAGGATGAAATGAAGACGAAGGTGAAGGTGCAATGGCACCGTCGATACTGCTCGTCAAGAGATACTAAGAAGAATGAGTATGAATCAAATGATTCGGATCTGGTGTTGGATCACTTTAAAACTGAGAATGATGATTCTATCACAAAGTCCACGTATAAGTTGGAGGGAAAAATTGCAAAAATGTTGATTCCATATCAGAGGGAAGGATTGAAGTGGCTCTGGTCATTACATTGTCAGGGTAAAGGTGGAATCCTCGCAGATGACATGGGATTGGGAAAAACAATGCAGGTACGTAAGGAGAATATTATATGA
Protein sequence

>MS.gene70204.t1

MRLSLKIPFLFGKQHLKVKSITHYRSFLQHFSHEDEMKTKVKVQWHRRYCSSRDTKKNEYESNDSDLVLDHFKTENDDSITKSTYKLEGKIAKMLIPYQREGLKWLWSLHCQGKGGILADDMGLGKTMQVRKENII