AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26683


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26683.t1 MTR_4g124960 93.171 205 10 2 1 204 1 202 3.71e-129 362
MS.gene26683.t1 MTR_4g124960 93.143 175 9 1 1 175 1 172 2.02e-108 308
MS.gene26683.t1 MTR_2g042900 44.828 261 76 11 1 204 1 250 1.95e-49 161
MS.gene26683.t1 MTR_4g124950 64.286 126 40 1 70 190 1 126 8.55e-44 143
MS.gene26683.t1 MTR_2g042900 49.704 169 65 8 1 152 1 166 2.15e-34 122
MS.gene26683.t1 MTR_5g013530 36.478 159 71 5 76 204 5 163 2.35e-21 87.0
MS.gene26683.t1 MTR_5g013530 39.007 141 65 5 85 204 1 141 2.69e-21 86.3
MS.gene26683.t1 MTR_5g013520 35.385 130 56 3 98 204 9 133 1.25e-20 84.3
MS.gene26683.t1 MTR_5g013515 36.364 132 60 2 94 201 4 135 4.05e-20 82.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26683.t1 AT1G19180 36.328 256 106 10 1 203 1 252 1.10e-35 126
MS.gene26683.t1 AT1G19180 36.328 256 106 10 1 203 1 252 1.10e-35 126
MS.gene26683.t1 AT1G74950 35.745 235 84 10 7 180 1 229 2.09e-27 104
MS.gene26683.t1 AT1G74950 35.683 227 79 10 7 172 1 221 5.78e-24 95.1
MS.gene26683.t1 AT1G19180 39.098 133 52 5 99 203 55 186 1.16e-18 80.1
MS.gene26683.t1 AT1G17380 29.353 201 108 5 13 180 7 206 6.77e-14 68.9

Find 45 sgRNAs with CRISPR-Local

Find 89 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGACTTCATCGGACATTTC+TGG 0.184990 8.4:+9690642 MS.gene26683:CDS
ATTGTCAATTGTGCAGTTTC+TGG 0.207124 8.4:-9691265 None:intergenic
CCTTCTTCTCCTTGAGGTAT+TGG 0.218986 8.4:-9690734 None:intergenic
GGTTGTTGAGGGATCATATT+AGG 0.246891 8.4:-9691388 None:intergenic
CAACAACCTCCCTCACTAAT+TGG 0.267401 8.4:+9691403 MS.gene26683:CDS
AGCTTCACTTCGTCGATTCA+TGG 0.304214 8.4:+9691584 MS.gene26683:CDS
TCAGGAAAGGTTCTTTGATA+TGG 0.341074 8.4:-9692032 None:intergenic
TTTATTTACCATTTGTTTCA+GGG 0.363709 8.4:-9690794 None:intergenic
CGACTTTATCAGTTTGTTGC+CGG 0.376712 8.4:-9690670 None:intergenic
AGCTCCTCAACTTTCTCAGC+AGG 0.410410 8.4:-9691325 None:intergenic
TCCGCTCCATGGCTTGTGTT+AGG 0.414480 8.4:+9692080 MS.gene26683:CDS
TTACAGAGTTATTAATCCTA+TGG 0.427315 8.4:+9691234 MS.gene26683:intron
TCATGGAGAAGAGGAAAGAT+AGG 0.451183 8.4:+9691601 MS.gene26683:CDS
GTTTCTGGCTCTTTAACCAT+AGG 0.475200 8.4:-9691250 None:intergenic
CCAATACCTCAAGGAGAAGA+AGG 0.480824 8.4:+9690734 MS.gene26683:CDS
CAATCTACAGGGTCATCACC+TGG 0.484929 8.4:+9691014 MS.gene26683:intron
TTAGTGAGGGAGGTTGTTGA+GGG 0.495882 8.4:-9691399 None:intergenic
TTATTTACCATTTGTTTCAG+GGG 0.508177 8.4:-9690793 None:intergenic
GATACCAATGTCGACTTCAT+CGG 0.515126 8.4:+9690632 None:intergenic
ATTAGTGAGGGAGGTTGTTG+AGG 0.517348 8.4:-9691400 None:intergenic
GCATGCACCCCTGAAACAAA+TGG 0.517892 8.4:+9690786 MS.gene26683:CDS
GGAGAAGAAGGGTAGTTTCG+AGG 0.529544 8.4:+9690746 MS.gene26683:CDS
TAATGGACAAGTTATTGTGT+TGG 0.534161 8.4:+9691294 MS.gene26683:CDS
GAGAAGAAGGGTAGTTTCGA+GGG 0.534693 8.4:+9690747 MS.gene26683:CDS
CAGGGGTGCATGCGTTGTGA+AGG 0.536647 8.4:-9690776 None:intergenic
CCTGGTTCATCTTCTCACTC+TGG 0.547944 8.4:+9691032 MS.gene26683:CDS
CCAGAGTGAGAAGATGAACC+AGG 0.548191 8.4:-9691032 None:intergenic
AGCATGCTGACTCCGCTCCA+TGG 0.562298 8.4:+9692069 MS.gene26683:CDS
TGCATGCGTTGTGAAGGTTA+AGG 0.575616 8.4:-9690770 None:intergenic
AAATCAATTACCAATTAGTG+AGG 0.584879 8.4:-9691413 None:intergenic
GGTTCTTTGATATGGTGAGT+AGG 0.584950 8.4:-9692024 None:intergenic
TTCTGGAGCAGAGTCAGGAA+AGG 0.587295 8.4:-9692045 None:intergenic
GTTTGTGGGAAATAAATCCA+TGG 0.589977 8.4:-9691060 None:intergenic
TTAGCACCTAACACAAGCCA+TGG 0.596993 8.4:-9692086 None:intergenic
AACTACCCTTCTTCTCCTTG+AGG 0.603992 8.4:-9690740 None:intergenic
TTCTCACTCTGGAATAACCA+TGG 0.605298 8.4:+9691043 MS.gene26683:CDS
CAATTACCAATTAGTGAGGG+AGG 0.610131 8.4:-9691409 None:intergenic
CAATACCTCAAGGAGAAGAA+GGG 0.616382 8.4:+9690735 MS.gene26683:CDS
TTCGTCGATTCATGGAGAAG+AGG 0.618289 8.4:+9691592 MS.gene26683:CDS
ACCTAACACAAGCCATGGAG+CGG 0.623220 8.4:-9692081 None:intergenic
TCTATTGAGCCAATACCTCA+AGG 0.624878 8.4:+9690725 MS.gene26683:CDS
AATCAATTACCAATTAGTGA+GGG 0.634671 8.4:-9691412 None:intergenic
ATGTCCGATGAAGTCGACAT+TGG 0.636880 8.4:-9690636 None:intergenic
TTACAAGTTTGAGAAAACGT+AGG 0.650898 8.4:-9690702 None:intergenic
CAACAAACTGATAAAGTCGT+CGG 0.655555 8.4:+9690674 MS.gene26683:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTATTTTTAATTTAACTGA+TGG + chr8.4:9691522-9691541 MS.gene26683:intron 10.0%
!!! TCTCATAATAAATCTTTTTT+CGG + chr8.4:9691732-9691751 MS.gene26683:intron 15.0%
!! TTTATTTACCATTTGTTTCA+GGG - chr8.4:9690797-9690816 None:intergenic 20.0%
!!! ATAATAAATCTTTTTTCGGT+TGG + chr8.4:9691736-9691755 MS.gene26683:intron 20.0%
!!! CAATTGACAATGTTTTATAA+TGG + chr8.4:9691277-9691296 MS.gene26683:CDS 20.0%
!!! TTTTATTTACCATTTGTTTC+AGG - chr8.4:9690798-9690817 None:intergenic 20.0%
!!! TTTTCTTTTTTCAATCTACA+GGG + chr8.4:9691003-9691022 MS.gene26683:intron 20.0%
!!! TTTTTCTTTTTTCAATCTAC+AGG + chr8.4:9691002-9691021 MS.gene26683:intron 20.0%
! AAATCAATTACCAATTAGTG+AGG - chr8.4:9691416-9691435 None:intergenic 25.0%
! AAATGAACTTGGTCTAAAAA+TGG + chr8.4:9690900-9690919 MS.gene26683:intron 25.0%
! AACCGAATAGAGAAAAATAA+GGG - chr8.4:9690959-9690978 None:intergenic 25.0%
! AATCAATTACCAATTAGTGA+GGG - chr8.4:9691415-9691434 None:intergenic 25.0%
! AATCCAAAATCCAAATTAGT+TGG - chr8.4:9691764-9691783 None:intergenic 25.0%
! AGAAAAAATCCATAGTTGTA+AGG - chr8.4:9691100-9691119 None:intergenic 25.0%
! CTTGATAAGTAAATAACAAG+AGG - chr8.4:9691928-9691947 None:intergenic 25.0%
! TAACCGAATAGAGAAAAATA+AGG - chr8.4:9690960-9690979 None:intergenic 25.0%
! TAGTCTTTGTTAAATGAACT+TGG + chr8.4:9690889-9690908 MS.gene26683:intron 25.0%
! TTACAGAGTTATTAATCCTA+TGG + chr8.4:9691234-9691253 MS.gene26683:intron 25.0%
! TTATTTACCATTTGTTTCAG+GGG - chr8.4:9690796-9690815 None:intergenic 25.0%
!! AATTCAGTTCCTATAGTTTT+GGG + chr8.4:9690834-9690853 MS.gene26683:intron 25.0%
!! CAAATACAGGAAATTGTTTT+TGG + chr8.4:9691474-9691493 MS.gene26683:intron 25.0%
!! TTGTGATTTGAAACAAATAC+AGG + chr8.4:9691461-9691480 MS.gene26683:intron 25.0%
!!! ATTTAATTTGTTTGAGAGAG+AGG - chr8.4:9691631-9691650 None:intergenic 25.0%
!!! TTCCCTTATTTTTCTCTATT+CGG + chr8.4:9690954-9690973 MS.gene26683:intron 25.0%
!!! TTGAACATTTTTTGAGCTTT+TGG + chr8.4:9691782-9691801 MS.gene26683:intron 25.0%
AATTGCAATGACTCAAACAA+TGG - chr8.4:9691182-9691201 None:intergenic 30.0%
ATTCTAAACCCCAAAACTAT+AGG - chr8.4:9690846-9690865 None:intergenic 30.0%
TTACAAGTTTGAGAAAACGT+AGG - chr8.4:9690705-9690724 None:intergenic 30.0%
TTCTCTATTCGGTTACAATT+GGG + chr8.4:9690965-9690984 MS.gene26683:intron 30.0%
TTTCTCTATTCGGTTACAAT+TGG + chr8.4:9690964-9690983 MS.gene26683:intron 30.0%
! CAATTCAGTTCCTATAGTTT+TGG + chr8.4:9690833-9690852 MS.gene26683:intron 30.0%
! GTACCAACTAATTTGGATTT+TGG + chr8.4:9691758-9691777 MS.gene26683:intron 30.0%
! TAATGGACAAGTTATTGTGT+TGG + chr8.4:9691294-9691313 MS.gene26683:CDS 30.0%
! TCCATAGTTGTAAGGTTTTT+CGG - chr8.4:9691092-9691111 None:intergenic 30.0%
!! ATTCAGTTCCTATAGTTTTG+GGG + chr8.4:9690835-9690854 MS.gene26683:intron 30.0%
!!! AGGAAATTGTTTTTGGTATC+AGG + chr8.4:9691481-9691500 MS.gene26683:intron 30.0%
!!! CTATGGATTTTTTCTTTCCA+AGG + chr8.4:9691105-9691124 MS.gene26683:CDS 30.0%
!!! GGAAATTGTTTTTGGTATCA+GGG + chr8.4:9691482-9691501 MS.gene26683:intron 30.0%
ACCGAAAAACCTTACAACTA+TGG + chr8.4:9691088-9691107 MS.gene26683:CDS 35.0%
ATGCATGCATAGCATAAATC+TGG + chr8.4:9691807-9691826 MS.gene26683:intron 35.0%
ATTGTCAATTGTGCAGTTTC+TGG - chr8.4:9691268-9691287 None:intergenic 35.0%
ATTTCCAGTCACACAAAGAA+AGG - chr8.4:9691833-9691852 None:intergenic 35.0%
CAACAAACTGATAAAGTCGT+CGG + chr8.4:9690674-9690693 MS.gene26683:CDS 35.0%
GTTTGTGGGAAATAAATCCA+TGG - chr8.4:9691063-9691082 None:intergenic 35.0%
TCAGGAAAGGTTCTTTGATA+TGG - chr8.4:9692035-9692054 None:intergenic 35.0%
! AAAAGCACAAAAACTCACCT+TGG - chr8.4:9691125-9691144 None:intergenic 35.0%
!! AGTGAAGCTTTTCTAGCAAT+TGG - chr8.4:9691573-9691592 None:intergenic 35.0%
AGGCAAAGCAATTTGCACAA+TGG - chr8.4:9691908-9691927 None:intergenic 40.0%
CAATACCTCAAGGAGAAGAA+GGG + chr8.4:9690735-9690754 MS.gene26683:CDS 40.0%
CAATTACCAATTAGTGAGGG+AGG - chr8.4:9691412-9691431 None:intergenic 40.0%
GGTTCTTTGATATGGTGAGT+AGG - chr8.4:9692027-9692046 None:intergenic 40.0%
GGTTGTTGAGGGATCATATT+AGG - chr8.4:9691391-9691410 None:intergenic 40.0%
TCATGGAGAAGAGGAAAGAT+AGG + chr8.4:9691601-9691620 MS.gene26683:CDS 40.0%
TCTATTGAGCCAATACCTCA+AGG + chr8.4:9690725-9690744 MS.gene26683:CDS 40.0%
! TCGGTTGGTACCAACTAATT+TGG + chr8.4:9691751-9691770 MS.gene26683:intron 40.0%
! TTTTCCTGCTGAGAAAGTTG+AGG + chr8.4:9691321-9691340 MS.gene26683:CDS 40.0%
!! CGACTTTATCAGTTTGTTGC+CGG - chr8.4:9690673-9690692 None:intergenic 40.0%
!! GTTTCTGGCTCTTTAACCAT+AGG - chr8.4:9691253-9691272 None:intergenic 40.0%
!! TTCTCACTCTGGAATAACCA+TGG + chr8.4:9691043-9691062 MS.gene26683:CDS 40.0%
!!! TCGGACATTTCTGGTTTTTC+CGG + chr8.4:9690651-9690670 MS.gene26683:CDS 40.0%
!!! TTTTTCGGTGTCACGTTTGT+GGG - chr8.4:9691077-9691096 None:intergenic 40.0%
AACTACCCTTCTTCTCCTTG+AGG - chr8.4:9690743-9690762 None:intergenic 45.0%
ATTAGTGAGGGAGGTTGTTG+AGG - chr8.4:9691403-9691422 None:intergenic 45.0%
CAACAACCTCCCTCACTAAT+TGG + chr8.4:9691403-9691422 MS.gene26683:CDS 45.0%
CCAATACCTCAAGGAGAAGA+AGG + chr8.4:9690734-9690753 MS.gene26683:CDS 45.0%
CCTTCTTCTCCTTGAGGTAT+TGG - chr8.4:9690737-9690756 None:intergenic 45.0%
GAGAAGAAGGGTAGTTTCGA+GGG + chr8.4:9690747-9690766 MS.gene26683:CDS 45.0%
TCGACTTCATCGGACATTTC+TGG + chr8.4:9690642-9690661 MS.gene26683:CDS 45.0%
TGCATGCGTTGTGAAGGTTA+AGG - chr8.4:9690773-9690792 None:intergenic 45.0%
TTAGCACCTAACACAAGCCA+TGG - chr8.4:9692089-9692108 None:intergenic 45.0%
TTAGTGAGGGAGGTTGTTGA+GGG - chr8.4:9691402-9691421 None:intergenic 45.0%
!! AGCTTCACTTCGTCGATTCA+TGG + chr8.4:9691584-9691603 MS.gene26683:CDS 45.0%
!! TTCGTCGATTCATGGAGAAG+AGG + chr8.4:9691592-9691611 MS.gene26683:CDS 45.0%
!!! GTTTTTCGGTGTCACGTTTG+TGG - chr8.4:9691078-9691097 None:intergenic 45.0%
!! AATAACAATATTATTAAATT+AGG - chr8.4:9691976-9691995 None:intergenic 5.0%
ACCTAACACAAGCCATGGAG+CGG - chr8.4:9692084-9692103 None:intergenic 50.0%
AGCTCCTCAACTTTCTCAGC+AGG - chr8.4:9691328-9691347 None:intergenic 50.0%
CAATCTACAGGGTCATCACC+TGG + chr8.4:9691014-9691033 MS.gene26683:intron 50.0%
CCAGAGTGAGAAGATGAACC+AGG - chr8.4:9691035-9691054 None:intergenic 50.0%
CCTGGTTCATCTTCTCACTC+TGG + chr8.4:9691032-9691051 MS.gene26683:CDS 50.0%
GCATGCACCCCTGAAACAAA+TGG + chr8.4:9690786-9690805 MS.gene26683:CDS 50.0%
GGAGAAGAAGGGTAGTTTCG+AGG + chr8.4:9690746-9690765 MS.gene26683:CDS 50.0%
! CTGGCCTTTCTTTGTGTGAC+TGG + chr8.4:9691826-9691845 MS.gene26683:intron 50.0%
!! TTCTGGAGCAGAGTCAGGAA+AGG - chr8.4:9692048-9692067 None:intergenic 50.0%
!!! TGCTTTTCTGGAGCAGAGTC+AGG - chr8.4:9692053-9692072 None:intergenic 50.0%
! GCGGAGTCAGCATGCTTTTC+TGG - chr8.4:9692065-9692084 None:intergenic 55.0%
! TCCGCTCCATGGCTTGTGTT+AGG + chr8.4:9692080-9692099 MS.gene26683:CDS 55.0%
! CAGGGGTGCATGCGTTGTGA+AGG - chr8.4:9690779-9690798 None:intergenic 60.0%
!! AGCATGCTGACTCCGCTCCA+TGG + chr8.4:9692069-9692088 MS.gene26683:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 9690639 9692118 9690639 ID=MS.gene26683
chr8.4 mRNA 9690639 9692118 9690639 ID=MS.gene26683.t1;Parent=MS.gene26683
chr8.4 exon 9690639 9690807 9690639 ID=MS.gene26683.t1.exon1;Parent=MS.gene26683.t1
chr8.4 CDS 9690639 9690807 9690639 ID=cds.MS.gene26683.t1;Parent=MS.gene26683.t1
chr8.4 exon 9691024 9691126 9691024 ID=MS.gene26683.t1.exon2;Parent=MS.gene26683.t1
chr8.4 CDS 9691024 9691126 9691024 ID=cds.MS.gene26683.t1;Parent=MS.gene26683.t1
chr8.4 exon 9691240 9691424 9691240 ID=MS.gene26683.t1.exon3;Parent=MS.gene26683.t1
chr8.4 CDS 9691240 9691424 9691240 ID=cds.MS.gene26683.t1;Parent=MS.gene26683.t1
chr8.4 exon 9691565 9691622 9691565 ID=MS.gene26683.t1.exon4;Parent=MS.gene26683.t1
chr8.4 CDS 9691565 9691622 9691565 ID=cds.MS.gene26683.t1;Parent=MS.gene26683.t1
chr8.4 exon 9692016 9692118 9692016 ID=MS.gene26683.t1.exon5;Parent=MS.gene26683.t1
chr8.4 CDS 9692016 9692118 9692016 ID=cds.MS.gene26683.t1;Parent=MS.gene26683.t1
Gene Sequence

>MS.gene26683

ATGTCGACTTCATCGGACATTTCTGGTTTTTCCGGCAACAAACTGATAAAGTCGTCGGAGAAACCTACGTTTTCTCAAACTTGTAATCTATTGAGCCAATACCTCAAGGAGAAGAAGGGTAGTTTCGAGGGCCTTAACCTTCACAACGCATGCACCCCTGAAACAAATGGTAAATAAAAATATAAAATTATTTTCAATTCAGTTCCTATAGTTTTGGGGTTTAGAATGTTGAATCAAACTAAGTCTCAAATAGTCTTTGTTAAATGAACTTGGTCTAAAAATGGTAAAACAGAGTATAATGTCATTTCAGATATTTTCCCTTATTTTTCTCTATTCGGTTACAATTGGGTTATTTAAGTTTTCTTTTTCTTTTTTCAATCTACAGGGTCATCACCTGGTTCATCTTCTCACTCTGGAATAACCATGGATTTATTTCCCACAAACGTGACACCGAAAAACCTTACAACTATGGATTTTTTCTTTCCAAGGTGAGTTTTTGTGCTTTTTTAATTCATTCAAGTCGTCAATTAATTTTTTGTACCATTGTTTGAGTCATTGCAATTAATTTGATAATGATTTACACACAATCTTGTTTTTACAGAGTTATTAATCCTATGGTTAAAGAGCCAGAAACTGCACAATTGACAATGTTTTATAATGGACAAGTTATTGTGTTGGATGATTTTCCTGCTGAGAAAGTTGAGGAGCTGAAATCATTTGCTAGAACTCAGACTCAGCATTCAGATGTTCCTAATATGATCCCTCAACAACCTCCCTCACTAATTGGTAATTGATTTTGAATTTGATTGATCACTGTTGTGATTGTGATTTGAAACAAATACAGGAAATTGTTTTTGGTATCAGGGATGAATTTTTTATTTTATTTATTTTTAATTTAACTGATGGTAAATTGAATTTCATTGCAGATATGCCAATTGCTAGAAAAGCTTCACTTCGTCGATTCATGGAGAAGAGGAAAGATAGGTATGCCTCTCTCTCAAACAAATTAAATTCAAGTTTTTATTCAAATAGATTCACAACAAAAAATTCTTCTGCATGTCTATGTCTATTCTTGATTGAAATGTTCAAACAATCTCATAATAAATCTTTTTTCGGTTGGTACCAACTAATTTGGATTTTGGATTGAACATTTTTTGAGCTTTTGGTGATGCATGCATAGCATAAATCTGGCCTTTCTTTGTGTGACTGGAAATTTTAGCATCATGTTATTTTCATAGTATTAAAAATCTTAATCTAGATTCTAGTCCATTGTGCAAATTGCTTTGCCTCTTGTTATTTACTTATCAAGTATTTGTTGAGTGATGTTGTTTAAGCCTAATTTAATAATATTGTTATTTTCTTATGTTGTGTTTGTAGAGTTTCTGCCTACTCACCATATCAAAGAACCTTTCCTGACTCTGCTCCAGAAAAGCATGCTGACTCCGCTCCATGGCTTGTGTTAGGTGCTAAATCAATGTAA

Protein sequence

>MS.gene26683.t1

MSTSSDISGFSGNKLIKSSEKPTFSQTCNLLSQYLKEKKGSFEGLNLHNACTPETNGSSPGSSSHSGITMDLFPTNVTPKNLTTMDFFFPRVINPMVKEPETAQLTMFYNGQVIVLDDFPAEKVEELKSFARTQTQHSDVPNMIPQQPPSLIDMPIARKASLRRFMEKRKDRVSAYSPYQRTFPDSAPEKHADSAPWLVLGAKSM