AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26034


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26034.t1 MTR_7g451200 93.651 63 4 0 1 63 20 82 1.37e-36 119
MS.gene26034.t1 MTR_1173s0010 87.143 70 9 0 1 70 20 89 2.21e-36 118
MS.gene26034.t1 MTR_3g434960 84.286 70 11 0 1 70 20 89 3.46e-35 115
MS.gene26034.t1 MTR_3g434890 84.286 70 11 0 1 70 20 89 5.14e-35 115
MS.gene26034.t1 MTR_7g451210 85.714 63 9 0 1 63 20 82 6.07e-32 107
MS.gene26034.t1 MTR_3g435000 72.973 74 19 1 1 74 24 96 7.22e-32 107
MS.gene26034.t1 MTR_3g434920 82.258 62 11 0 9 70 2 63 2.67e-29 100
MS.gene26034.t1 MTR_6g049260 70.968 62 18 0 1 62 20 81 2.09e-26 93.6
MS.gene26034.t1 MTR_1g099800 70.000 50 15 0 1 50 20 69 3.00e-19 75.9
MS.gene26034.t1 MTR_1g099810 70.000 50 15 0 1 50 1 50 5.31e-19 75.1
MS.gene26034.t1 MTR_1g099810 70.000 50 15 0 1 50 20 69 8.64e-19 75.1
MS.gene26034.t1 MTR_6g049320 70.588 51 15 0 1 51 20 70 1.76e-18 73.6
MS.gene26034.t1 MTR_6g049320 70.588 51 15 0 1 51 50 100 2.22e-18 74.3
MS.gene26034.t1 MTR_6g049280 68.627 51 16 0 1 51 20 70 3.20e-18 73.2
MS.gene26034.t1 MTR_6g049280 68.627 51 16 0 1 51 50 100 5.03e-18 73.2
MS.gene26034.t1 MTR_6g051680 64.000 50 18 0 1 50 20 69 3.28e-17 70.1
MS.gene26034.t1 MTR_6g051690 64.000 50 18 0 1 50 20 69 8.56e-17 69.7
MS.gene26034.t1 MTR_8g098915 56.604 53 23 0 1 53 1 53 2.54e-15 65.1
MS.gene26034.t1 MTR_1g099815 66.000 50 16 1 1 50 20 68 3.28e-15 65.5
MS.gene26034.t1 MTR_1g102240 66.000 50 16 1 1 50 20 68 3.73e-15 65.5
MS.gene26034.t1 MTR_8g098915 56.604 53 23 0 1 53 20 72 4.77e-15 65.1
MS.gene26034.t1 MTR_1g099640 61.224 49 19 0 1 49 20 68 2.67e-14 63.2
MS.gene26034.t1 MTR_8g028615 53.191 47 22 0 3 49 22 68 3.99e-12 58.2
MS.gene26034.t1 MTR_7g079110 51.020 49 24 0 1 49 20 68 5.83e-12 58.2
MS.gene26034.t1 MTR_0795s0020 61.538 52 14 1 1 52 20 65 7.36e-12 57.0
MS.gene26034.t1 MTR_1g099810 69.697 33 10 0 18 50 2 34 3.91e-11 54.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26034.t1 AT1G01490 52.941 51 23 1 1 50 47 97 2.35e-11 57.0
MS.gene26034.t1 AT1G01490 52.941 51 23 1 1 50 20 70 2.86e-11 56.2
MS.gene26034.t1 AT1G01490 52.941 51 23 1 1 50 20 70 2.86e-11 56.2

Find 12 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTTGCGCACTGCCTTTAC+TGG 0.171682 7.3:-54272668 None:intergenic
GATAAGAAATTGACATTATC+GGG 0.324245 7.3:+54272635 MS.gene26034:CDS
AAGACAGCATCTAGCCTTCC+AGG 0.337922 7.3:+54272023 MS.gene26034:CDS
AGTGATGTCTTTGCATGATT+TGG 0.351298 7.3:-54272971 None:intergenic
AGATAAGAAATTGACATTAT+CGG 0.386881 7.3:+54272634 MS.gene26034:CDS
ACCTAGAATTGGATTCTGCT+TGG 0.465285 7.3:+54272941 MS.gene26034:intron
ACCTCTAAAAGATGAGAAGA+AGG 0.498625 7.3:+54272727 MS.gene26034:CDS
CAAACTGAAATAGTATCGAT+TGG 0.553477 7.3:+54272704 MS.gene26034:CDS
ATTCAATATATATACCTGGA+AGG 0.607776 7.3:-54272037 None:intergenic
ATAAGAAATTGACATTATCG+GGG 0.634485 7.3:+54272636 MS.gene26034:CDS
ATGTCTTTGCATGATTTGGA+AGG 0.637280 7.3:-54272967 None:intergenic
TAAGAAATTGACATTATCGG+GGG 0.672768 7.3:+54272637 MS.gene26034:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAGTAAAAATAAAATTCA+AGG - chr7.3:54272917-54272936 None:intergenic 10.0%
!! TAAATTACAATAATTTGATA+AGG + chr7.3:54272361-54272380 MS.gene26034:intron 10.0%
!! AAAATTAAAATCAATCATGA+TGG - chr7.3:54272322-54272341 None:intergenic 15.0%
!!! AATTTTGAAAATATTGTTGT+GGG - chr7.3:54272823-54272842 None:intergenic 15.0%
!!! TAATTTTGAAAATATTGTTG+TGG - chr7.3:54272824-54272843 None:intergenic 15.0%
!! AGATAAGAAATTGACATTAT+CGG + chr7.3:54272634-54272653 MS.gene26034:CDS 20.0%
!! TGAAATTCAATATATATACC+TGG - chr7.3:54272044-54272063 None:intergenic 20.0%
!! TTACATGATTAAGTTATAGA+TGG + chr7.3:54272103-54272122 MS.gene26034:intron 20.0%
!!! ATTTTGAAAATATTGTTGTG+GGG - chr7.3:54272822-54272841 None:intergenic 20.0%
!!! TAACTAATGCTGAAATTTTT+TGG - chr7.3:54272135-54272154 None:intergenic 20.0%
!!! TTGTCTTTTTATTTACACAA+AGG - chr7.3:54272540-54272559 None:intergenic 20.0%
!!! TTTTTTCTTTCTATTTTGCA+GGG + chr7.3:54272585-54272604 MS.gene26034:intron 20.0%
!!! TTTTTTTCTTTCTATTTTGC+AGG + chr7.3:54272584-54272603 MS.gene26034:intron 20.0%
! AAGTTAGATTGTGTTAGAAA+TGG - chr7.3:54272388-54272407 None:intergenic 25.0%
! AATGAATCATTTGTGTTAGA+TGG - chr7.3:54272564-54272583 None:intergenic 25.0%
! ACATTTGATATGTTTAGTTG+CGG - chr7.3:54272266-54272285 None:intergenic 25.0%
! ATAAGAAATTGACATTATCG+GGG + chr7.3:54272636-54272655 MS.gene26034:CDS 25.0%
! ATTCAATATATATACCTGGA+AGG - chr7.3:54272040-54272059 None:intergenic 25.0%
! CATCTGATAATAAAATGGAT+AGG - chr7.3:54272798-54272817 None:intergenic 25.0%
! GATAAGAAATTGACATTATC+GGG + chr7.3:54272635-54272654 MS.gene26034:CDS 25.0%
! GTGAAGATGATAAAAGATTA+CGG - chr7.3:54272291-54272310 None:intergenic 25.0%
! TACTTTATATGACCTAGAAT+TGG + chr7.3:54272930-54272949 MS.gene26034:intron 25.0%
! TTGGCTTACAATTAGAAAAT+CGG + chr7.3:54272162-54272181 MS.gene26034:intron 25.0%
!! ATTTTCTAATTGTAAGCCAA+CGG - chr7.3:54272162-54272181 None:intergenic 25.0%
!! TTTTTCTTTCTATTTTGCAG+GGG + chr7.3:54272586-54272605 MS.gene26034:intron 25.0%
!!! TAGGTTTCAAAGTATTGAAT+TGG - chr7.3:54272779-54272798 None:intergenic 25.0%
!!! TTAACTACCATTAGGTTTTT+TGG + chr7.3:54272191-54272210 MS.gene26034:intron 25.0%
GAAATGACCAAAAAACCTAA+TGG - chr7.3:54272201-54272220 None:intergenic 30.0%
TAAGAAATTGACATTATCGG+GGG + chr7.3:54272637-54272656 MS.gene26034:CDS 30.0%
!! CAAACTGAAATAGTATCGAT+TGG + chr7.3:54272704-54272723 MS.gene26034:CDS 30.0%
AGTGATGTCTTTGCATGATT+TGG - chr7.3:54272974-54272993 None:intergenic 35.0%
CAGCATTAGTTAATTACCGT+TGG + chr7.3:54272143-54272162 MS.gene26034:intron 35.0%
GCTTACAATTAGAAAATCGG+CGG + chr7.3:54272165-54272184 MS.gene26034:intron 35.0%
GGGGTCATCTGATAATAAAA+TGG - chr7.3:54272803-54272822 None:intergenic 35.0%
! ACCTCTAAAAGATGAGAAGA+AGG + chr7.3:54272727-54272746 MS.gene26034:CDS 35.0%
! ATGTCTTTGCATGATTTGGA+AGG - chr7.3:54272970-54272989 None:intergenic 35.0%
! TCCTTCTTCTCATCTTTTAG+AGG - chr7.3:54272731-54272750 None:intergenic 35.0%
!!! GTTTTTTGGTCATTTCCATG+TGG + chr7.3:54272205-54272224 MS.gene26034:intron 35.0%
ACCTAGAATTGGATTCTGCT+TGG + chr7.3:54272941-54272960 MS.gene26034:intron 40.0%
AGTACCACTGCTATGTAATG+TGG + chr7.3:54272075-54272094 MS.gene26034:intron 40.0%
GGCGGTATTTAACTACCATT+AGG + chr7.3:54272183-54272202 MS.gene26034:intron 40.0%
TTAGCCACATTACATAGCAG+TGG - chr7.3:54272082-54272101 None:intergenic 40.0%
!! CATTGATTCCTAAAGCCACA+TGG - chr7.3:54272223-54272242 None:intergenic 40.0%
GCCAAGCAGAATCCAATTCT+AGG - chr7.3:54272945-54272964 None:intergenic 45.0%
GGGGGATATTGATCCAGTAA+AGG + chr7.3:54272655-54272674 MS.gene26034:CDS 45.0%
GGTCATTTCCATGTGGCTTT+AGG + chr7.3:54272212-54272231 MS.gene26034:intron 45.0%
!! AAAAAAAAAAAACTTAAATA+AGG + chr7.3:54272413-54272432 MS.gene26034:intron 5.0%
! AAGACAGCATCTAGCCTTCC+AGG + chr7.3:54272023-54272042 MS.gene26034:CDS 50.0%
AGCTTGCGCACTGCCTTTAC+TGG - chr7.3:54272671-54272690 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 54272020 54273003 54272020 ID=MS.gene26034
chr7.3 mRNA 54272020 54273003 54272020 ID=MS.gene26034.t1;Parent=MS.gene26034
chr7.3 exon 54272020 54272044 54272020 ID=MS.gene26034.t1.exon1;Parent=MS.gene26034.t1
chr7.3 CDS 54272020 54272044 54272020 ID=cds.MS.gene26034.t1;Parent=MS.gene26034.t1
chr7.3 exon 54272606 54272769 54272606 ID=MS.gene26034.t1.exon2;Parent=MS.gene26034.t1
chr7.3 CDS 54272606 54272769 54272606 ID=cds.MS.gene26034.t1;Parent=MS.gene26034.t1
chr7.3 exon 54272947 54273003 54272947 ID=MS.gene26034.t1.exon3;Parent=MS.gene26034.t1
chr7.3 CDS 54272947 54273003 54272947 ID=cds.MS.gene26034.t1;Parent=MS.gene26034.t1
Gene Sequence

>MS.gene26034

ATGAAGACAGCATCTAGCCTTCCAGGTATATATATTGAATTTCATATATCATATAAGTACCACTGCTATGTAATGTGGCTAAATTACATGATTAAGTTATAGATGGAAATGACCAAAAAATTTCAGCATTAGTTAATTACCGTTGGCTTACAATTAGAAAATCGGCGGTATTTAACTACCATTAGGTTTTTTGGTCATTTCCATGTGGCTTTAGGAATCAATGAATGTGAAAACAACAAATGTCCGCAACTAAACATATCAAATGTTGCCGTAATCTTTTATCATCTTCACTTACGATACCATCATGATTGATTTTAATTTTTGAAGACATAATATGACTCTAAATTACAATAATTTGATAAGGTCCATTTCTAACACAATCTAACTTTATTAAAAAAAAAAAAACTTAAATAAGGCAAAATTATTATTAATATCGATGATAGTCTAAGTTATTCTAAAACTATTTCAAATAGTATTTGAACTTTTTCATTCAAGAATGAAAACTAATTTAATTTGACCTTTGTGTAAATAAAAAGACAAACCATCTAACACAAATGATTCATTTTTTTTTCTTTCTATTTTGCAGGGGTTGAATCAGTATCAATAGACTCGAAAGATAAGAAATTGACATTATCGGGGGATATTGATCCAGTAAAGGCAGTGCGCAAGCTAAGAAAGTTGTGTCAAACTGAAATAGTATCGATTGGACCTCTAAAAGATGAGAAGAAGGATTCAACAAATACAAATGAAGTTATTCCAATTCAATACTTTGAAACCTATCCATTTTATTATCAGATGACCCCACAACAATATTTTCAAAATTACTACTATGTTTGATGTGCATAATAAGAAAAGAATCTTTTATTGAGTTTGATAAAATACATCTTGTATTTTCCTTGAATTTTATTTTTACTTTATATGACCTAGAATTGGATTCTGCTTGGCTTCCTTCCAAATCATGCAAAGACATCACTAAGAAATTGA

Protein sequence

>MS.gene26034.t1

MKTASSLPGVESVSIDSKDKKLTLSGDIDPVKAVRKLRKLCQTEIVSIGPLKDEKKDSTNTNENWILLGFLPNHAKTSLRN