AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene022529

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022529.t1 MTR_8g005750 60.976 123 36 4 3 119 7 123 1.49e-37 128
MS.gene022529.t1 MTR_0002s1250 49.219 128 49 4 3 119 9 131 1.37e-29 107
MS.gene022529.t1 MTR_7g073430 37.008 127 70 3 3 119 16 142 4.96e-20 83.2
MS.gene022529.t1 MTR_7g073380 37.209 129 67 4 3 119 17 143 1.17e-19 82.4
MS.gene022529.t1 MTR_8g032510 46.617 133 52 8 3 119 10 139 6.35e-19 80.1
MS.gene022529.t1 MTR_2g075690 35.135 148 65 5 1 119 16 161 4.46e-18 78.2
MS.gene022529.t1 MTR_7g117200 33.846 130 68 3 4 120 15 139 2.47e-14 68.2
MS.gene022529.t1 MTR_5g067700 34.711 121 67 7 3 120 16 127 2.43e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 31 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATATACACACCTTGAGTATT+TGG 0.165030 8.4:+81192670 None:intergenic
TTCATTGGATCATATATATT+AGG 0.275420 8.4:+81192515 None:intergenic
GTTCAAAAGGGTGAGGGTAT+TGG 0.366925 8.4:+81193478 None:intergenic
GGGTATGAATGGAGAAAATA+TGG 0.368996 8.4:-81192713 MS.gene022529:CDS
ACCTTGAGTATTTGGAATTG+AGG 0.393271 8.4:+81192678 None:intergenic
GAGATCTCCTGAGATTTAGT+TGG 0.441487 8.4:+81193422 None:intergenic
TCAGAATGTCCAACAGATGA+TGG 0.456231 8.4:-81192734 MS.gene022529:CDS
AGATTTAGTTGGACTAATGA+AGG 0.473744 8.4:+81193433 None:intergenic
CGTGAGTTTGCAAACCAGCT+TGG 0.479698 8.4:-81193584 MS.gene022529:CDS
TTTGAACAAACATCACAAAA+CGG 0.482778 8.4:-81193462 MS.gene022529:CDS
CATTAGTCCAACTAAATCTC+AGG 0.483913 8.4:-81193429 MS.gene022529:CDS
TTTGTGATGTTTGTTCAAAA+GGG 0.523519 8.4:+81193466 None:intergenic
CATACTTCCACCACTGGTAG+AGG 0.539107 8.4:-81193395 MS.gene022529:CDS
CATTCATACCCATCATCTGT+TGG 0.541481 8.4:+81192725 None:intergenic
TTATTACAAGTTGTCCAAGC+TGG 0.545077 8.4:+81193570 None:intergenic
CAACAGATGATGGGTATGAA+TGG 0.546718 8.4:-81192724 MS.gene022529:CDS
GTAGAGGATCTTACAAAAGA+AGG 0.546964 8.4:-81193379 MS.gene022529:intron
TAGAAATGAGGCAATGGAGG+AGG 0.549808 8.4:-81193621 None:intergenic
TTTGTAAGATCCTCTACCAG+TGG 0.556118 8.4:+81193385 None:intergenic
GTTGACAAGAACAAGATGTT+GGG 0.558462 8.4:+81193520 None:intergenic
GATGAAGAATCATCATGAGT+TGG 0.563893 8.4:-81193543 MS.gene022529:CDS
TCCTCAATTCCAAATACTCA+AGG 0.566315 8.4:-81192679 MS.gene022529:intron
AACTACATCAACATGGGAGA+AGG 0.572317 8.4:-81192759 MS.gene022529:CDS
TCACAACATACTTCCACCAC+TGG 0.575996 8.4:-81193401 MS.gene022529:CDS
GTAAGATCCTCTACCAGTGG+TGG 0.578848 8.4:+81193388 None:intergenic
CAGAATGTCCAACAGATGAT+GGG 0.586212 8.4:-81192733 MS.gene022529:CDS
TGGAGGAGGAGCTAGTGAGA+GGG 0.597611 8.4:-81193607 MS.gene022529:CDS
GATGTTTGTTCAAAAGGGTG+AGG 0.598856 8.4:+81193471 None:intergenic
TGTTGACAAGAACAAGATGT+TGG 0.603924 8.4:+81193519 None:intergenic
ATGGAGGAGGAGCTAGTGAG+AGG 0.606187 8.4:-81193608 MS.gene022529:CDS
ATGTTTGTTCAAAAGGGTGA+GGG 0.642130 8.4:+81193472 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATATATATATATATAAT+TGG + chr8.4:81193136-81193155 None:intergenic 0.0%
!!! TATATATATATATATTTTTT+AGG - chr8.4:81193168-81193187 MS.gene022529:intron 0.0%
!!! GTAATTTTTTTACTTATAAT+AGG - chr8.4:81193062-81193081 MS.gene022529:intron 10.0%
!! CGAAATAATTAATAAATGAT+TGG + chr8.4:81193512-81193531 None:intergenic 15.0%
!!! AATTACTTTTTTTAGATTCA+TGG + chr8.4:81193048-81193067 None:intergenic 15.0%
!!! TGAGTTTTAATTAATTAACA+AGG + chr8.4:81193111-81193130 None:intergenic 15.0%
!! AAGAAAAGAATTAGTAAACA+TGG + chr8.4:81192799-81192818 None:intergenic 20.0%
!! CAAGAGAAGATATATTTATT+AGG + chr8.4:81193578-81193597 None:intergenic 20.0%
! GTTTATGCAAAAAGAGTTAA+TGG - chr8.4:81193312-81193331 MS.gene022529:intron 25.0%
! TTATAATCATGTTGTTCGTT+TGG - chr8.4:81193215-81193234 MS.gene022529:intron 25.0%
! TTGTCCTTTCATTTGTTTAA+AGG - chr8.4:81192835-81192854 MS.gene022529:intron 25.0%
! TTTGAACAAACATCACAAAA+CGG - chr8.4:81192662-81192681 MS.gene022529:intron 25.0%
! TTTGTGATGTTTGTTCAAAA+GGG + chr8.4:81192661-81192680 None:intergenic 25.0%
!! TTATTGTTTGATGCTCTTTT+TGG - chr8.4:81192943-81192962 MS.gene022529:intron 25.0%
!! TTTTGTGATGTTTGTTCAAA+AGG + chr8.4:81192662-81192681 None:intergenic 25.0%
!! TTTTTACTTATAATAGGGAC+CGG - chr8.4:81193068-81193087 MS.gene022529:intron 25.0%
AAACAGATCTATCTATGTAG+AGG + chr8.4:81193555-81193574 None:intergenic 30.0%
ACGTCCTTTAAACAAATGAA+AGG + chr8.4:81192842-81192861 None:intergenic 30.0%
AGATTTAGTTGGACTAATGA+AGG + chr8.4:81192694-81192713 None:intergenic 30.0%
ATATACACACCTTGAGTATT+TGG + chr8.4:81193457-81193476 None:intergenic 30.0%
CAGAAAAACTACATCAACAT+GGG - chr8.4:81193359-81193378 MS.gene022529:intron 30.0%
CAGTGAGCAATTTATGTATT+TGG - chr8.4:81193003-81193022 MS.gene022529:intron 30.0%
! TTTTACTTATAATAGGGACC+GGG - chr8.4:81193069-81193088 MS.gene022529:intron 30.0%
AAATGTACTAGGTTGTGGTT+TGG - chr8.4:81193267-81193286 MS.gene022529:intron 35.0%
AATGAAAGGACAAAGTGAGA+TGG + chr8.4:81192828-81192847 None:intergenic 35.0%
ATGTTTGTTCAAAAGGGTGA+GGG + chr8.4:81192655-81192674 None:intergenic 35.0%
CATGGAGCAATTCATGTATT+TGG + chr8.4:81193030-81193049 None:intergenic 35.0%
CATTAGTCCAACTAAATCTC+AGG - chr8.4:81192695-81192714 MS.gene022529:CDS 35.0%
GATGAAGAATCATCATGAGT+TGG - chr8.4:81192581-81192600 MS.gene022529:intron 35.0%
GCAGAAAAACTACATCAACA+TGG - chr8.4:81193358-81193377 MS.gene022529:intron 35.0%
GGGTATGAATGGAGAAAATA+TGG - chr8.4:81193411-81193430 MS.gene022529:CDS 35.0%
GTAGAGGATCTTACAAAAGA+AGG - chr8.4:81192745-81192764 MS.gene022529:CDS 35.0%
GTTGACAAGAACAAGATGTT+GGG + chr8.4:81192607-81192626 None:intergenic 35.0%
TCCTCAATTCCAAATACTCA+AGG - chr8.4:81193445-81193464 MS.gene022529:CDS 35.0%
TGTTGACAAGAACAAGATGT+TGG + chr8.4:81192608-81192627 None:intergenic 35.0%
TTATTACAAGTTGTCCAAGC+TGG + chr8.4:81192557-81192576 None:intergenic 35.0%
! ACCTTGAGTATTTGGAATTG+AGG + chr8.4:81193449-81193468 None:intergenic 35.0%
AACTACATCAACATGGGAGA+AGG - chr8.4:81193365-81193384 MS.gene022529:intron 40.0%
CAACCTAGTACATTTCAACG+AGG + chr8.4:81193262-81193281 None:intergenic 40.0%
CAGAATGTCCAACAGATGAT+GGG - chr8.4:81193391-81193410 MS.gene022529:CDS 40.0%
CATTCATACCCATCATCTGT+TGG + chr8.4:81193402-81193421 None:intergenic 40.0%
CGTTGAAATGTACTAGGTTG+TGG - chr8.4:81193262-81193281 MS.gene022529:intron 40.0%
CTTCCTCGTTGAAATGTACT+AGG - chr8.4:81193256-81193275 MS.gene022529:intron 40.0%
GAGATCTCCTGAGATTTAGT+TGG + chr8.4:81192705-81192724 None:intergenic 40.0%
GATGTTTGTTCAAAAGGGTG+AGG + chr8.4:81192656-81192675 None:intergenic 40.0%
GGAACTACTAGCTATTATCC+CGG + chr8.4:81193090-81193109 None:intergenic 40.0%
TCAGAATGTCCAACAGATGA+TGG - chr8.4:81193390-81193409 MS.gene022529:CDS 40.0%
TTTGTAAGATCCTCTACCAG+TGG + chr8.4:81192742-81192761 None:intergenic 40.0%
!! CAACAGATGATGGGTATGAA+TGG - chr8.4:81193400-81193419 MS.gene022529:CDS 40.0%
TCACAACATACTTCCACCAC+TGG - chr8.4:81192723-81192742 MS.gene022529:CDS 45.0%
! GTTCAAAAGGGTGAGGGTAT+TGG + chr8.4:81192649-81192668 None:intergenic 45.0%
!!! TAATTTTTTTACTTATAATA+GGG - chr8.4:81193063-81193082 MS.gene022529:intron 5.0%
CATACTTCCACCACTGGTAG+AGG - chr8.4:81192729-81192748 MS.gene022529:CDS 50.0%
CGTGAGTTTGCAAACCAGCT+TGG - chr8.4:81192540-81192559 MS.gene022529:intron 50.0%
GTAAGATCCTCTACCAGTGG+TGG + chr8.4:81192739-81192758 None:intergenic 50.0%
ATGGAGGAGGAGCTAGTGAG+AGG - chr8.4:81192516-81192535 MS.gene022529:CDS 55.0%
TGGAGGAGGAGCTAGTGAGA+GGG - chr8.4:81192517-81192536 MS.gene022529:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 81192516 81193630 81192516 ID=MS.gene022529
chr8.4 mRNA 81192516 81193630 81192516 ID=MS.gene022529.t1;Parent=MS.gene022529
chr8.4 exon 81193380 81193630 81193380 ID=MS.gene022529.t1.exon1;Parent=MS.gene022529.t1
chr8.4 CDS 81193380 81193630 81193380 ID=cds.MS.gene022529.t1;Parent=MS.gene022529.t1
chr8.4 exon 81192680 81192784 81192680 ID=MS.gene022529.t1.exon2;Parent=MS.gene022529.t1
chr8.4 CDS 81192680 81192784 81192680 ID=cds.MS.gene022529.t1;Parent=MS.gene022529.t1
chr8.4 exon 81192516 81192543 81192516 ID=MS.gene022529.t1.exon3;Parent=MS.gene022529.t1
chr8.4 CDS 81192516 81192543 81192516 ID=cds.MS.gene022529.t1;Parent=MS.gene022529.t1
Gene Sequence

>MS.gene022529

ATGGAGGAGGAGCTAGTGAGAGGGCGTGAGTTTGCAAACCAGCTTGGACAACTTGTAATAACATTGATGAAGAATCATCATGAGTTGGCCCAACATCTTGTTCTTGTCAACAACATTATCAACTCATTTACCAATACCCTCACCCTTTTGAACAAACATCACAAAACGGATTCTTCCTTCATTAGTCCAACTAAATCTCAGGAGATCTCACAACATACTTCCACCACTGGTAGAGGATCTTACAAAAGAAGGTACATATACTAATTTTTTGTTGTATCTACCATGTTTACTAATTCTTTTCTTATCATTCCATCTCACTTTGTCCTTTCATTTGTTTAAAGGACGTCAAACATCATTACATATTTTTAGCTAGTATATATTTTATTTATTTATTTATTTATTTTTATAATAGTTTAAAATGAAATTATTATTGTTTGATGCTCTTTTTGGTCATTATTATAAGCAAAAAATTATTTTTTTTTAAATTCAGTGAGCAATTTATGTATTTGGACCAAATACATGAATTGCTCCATGAATCTAAAAAAAGTAATTTTTTTACTTATAATAGGGACCGGGATAATAGCTAGTAGTTCCTTGTTAATTAATTAAAACTCAAACCAATTATATATATATATATATATATATATATATATATATATATATATATTTTTTAGGTTGAATTAATTAAATTGATACTATTTATAATCATGTTGTTCGTTTGGAGTTTGAACTTTTTTTATCTTCCTCGTTGAAATGTACTAGGTTGTGGTTTGGAGTAGATTAGAATTGATTAAGAGTTTATGCAAAAAGAGTTAATGGACTTAATTTCTTGTAATTAATTTGCAGAAAAACTACATCAACATGGGAGAAGGTGTCAGAATGTCCAACAGATGATGGGTATGAATGGAGAAAATATGGTCAAAAAACAATCCTCAATTCCAAATACTCAAGGTGTGTATATGTATATGTCTCACTCAATTATAATTATTTAGTCCAATCATTTATTAATTATTTCGAAATTAAACATTATATAATTCCTCTACATAGATAGATCTGTTTCCTAATAAATATATCTTCTCTTGATCAGAGCTAGCCTAATATATATGATCCAATGA
Protein sequence

>MS.gene022529.t1

MEEELVRGREFANQLGQLVITLMKNHHELAQHLVLVNNIINSFTNTLTLLNKHHKTDSSFISPTKSQEISQHTSTTGRGSYKRRKTTSTWEKVSECPTDDGYEWRKYGQKTILNSKYSRASLIYMIQ