AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene80957


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80957.t1 MTR_7g116750 92.308 117 9 0 1 117 1 117 8.99e-81 232
MS.gene80957.t1 MTR_5g030180 89.655 116 11 1 1 116 14 128 7.81e-75 218
MS.gene80957.t1 MTR_5g030180 89.655 116 11 1 1 116 1 115 1.04e-74 217
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene80957.t1 AT4G07950 43.103 116 55 4 1 116 1 105 2.17e-28 100
MS.gene80957.t1 AT1G01210 42.241 116 56 4 1 116 1 105 2.48e-27 97.4
MS.gene80957.t1 AT1G01210 42.241 116 56 4 1 116 1 105 2.48e-27 97.4
MS.gene80957.t1 AT1G01210 42.241 116 56 4 1 116 1 105 2.48e-27 97.4
MS.gene80957.t1 AT3G25940 29.839 124 63 5 3 117 11 119 9.15e-11 55.1

Find 38 sgRNAs with CRISPR-Local

Find 104 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTGAGGATGGCGACAATT+TGG 0.237510 7.3:+90596881 None:intergenic
ATTTCATCATGGGAGATAAT+AGG 0.283528 7.3:+90598059 None:intergenic
GTCCTGATTGGGCAAATATA+TGG 0.298301 7.3:+90598237 None:intergenic
CACTCGTAAAATATTGTTGC+AGG 0.321821 7.3:+90596821 None:intergenic
CTTGAGGATGGCGACAATTT+GGG 0.324696 7.3:+90596882 None:intergenic
GTCCATATATTTGCCCAATC+AGG 0.365575 7.3:-90598239 MS.gene80957:CDS
TTTCATCATGGGAGATAATA+GGG 0.399931 7.3:+90598060 None:intergenic
TAACATACCCCTGTCCTGAT+TGG 0.407408 7.3:+90598225 None:intergenic
AAAGTAGTACCGTCGGCTTT+TGG 0.414427 7.3:+90598023 None:intergenic
AACATACCCCTGTCCTGATT+GGG 0.444565 7.3:+90598226 None:intergenic
TTTATCCCTCCTTCCACTTG+TGG 0.445466 7.3:+90596780 None:intergenic
ATTCTTGTTGATTTCATCAT+GGG 0.448511 7.3:+90598049 None:intergenic
TATTCTTGTTGATTTCATCA+TGG 0.453333 7.3:+90598048 None:intergenic
GTGCCGTGACTCGTAGTATT+GGG 0.460519 7.3:+90598294 None:intergenic
AGAGAAGGCAAATGCTCGTC+AGG 0.467028 7.3:-90598094 MS.gene80957:CDS
TGTGCCGTGACTCGTAGTAT+TGG 0.489174 7.3:+90598293 None:intergenic
GGCAAATGCTCGTCAGGAAA+GGG 0.498231 7.3:-90598088 MS.gene80957:CDS
TATATTTGCCCAATCAGGAC+AGG 0.517313 7.3:-90598234 MS.gene80957:CDS
GTGAGGCAATAAAACCTTGT+GGG 0.529652 7.3:+90598264 None:intergenic
AGGCAAATGCTCGTCAGGAA+AGG 0.543690 7.3:-90598089 MS.gene80957:CDS
TCAGCATGCTCCCACACATA+GGG 0.562374 7.3:+90598328 None:intergenic
ATCAAAAGTGTGGCCACAAG+TGG 0.562650 7.3:-90596793 MS.gene80957:CDS
ATCAGCATGCTCCCACACAT+AGG 0.581470 7.3:+90598327 None:intergenic
GGATGGCGACAATTTGGGCA+TGG 0.583454 7.3:+90596887 None:intergenic
TACAGGTTAAGATTAAGAGA+AGG 0.585633 7.3:-90598109 MS.gene80957:intron
TGTGGCCACAAGTGGAAGGA+GGG 0.590514 7.3:-90596785 MS.gene80957:CDS
TGTTATAACTAGCTTGAGGA+TGG 0.611096 7.3:+90596870 None:intergenic
GTGTGGCCACAAGTGGAAGG+AGG 0.613594 7.3:-90596786 MS.gene80957:CDS
AAAGTGTGGCCACAAGTGGA+AGG 0.625563 7.3:-90596789 MS.gene80957:CDS
ATATTTGCCCAATCAGGACA+GGG 0.626623 7.3:-90598233 MS.gene80957:CDS
TTACCCAATACTACGAGTCA+CGG 0.630549 7.3:-90598297 MS.gene80957:CDS
GGCAAATATATGGACAAGTG+AGG 0.649591 7.3:+90598247 None:intergenic
AAGAATAAACCAAAAGCCGA+CGG 0.660260 7.3:-90598032 MS.gene80957:intron
AGTGAGGCAATAAAACCTTG+TGG 0.661965 7.3:+90598263 None:intergenic
TGCATGTTATAACTAGCTTG+AGG 0.674563 7.3:+90596866 None:intergenic
GAGTGCATGAATCAAAAGTG+TGG 0.693654 7.3:-90596803 MS.gene80957:CDS
TATTTGCCCAATCAGGACAG+GGG 0.710769 7.3:-90598232 MS.gene80957:intron
ACGGCACATCTCATCCCACA+AGG 0.717130 7.3:-90598278 MS.gene80957:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACAGTATTACAAAAATT+AGG + chr7.3:90598074-90598093 None:intergenic 15.0%
!! AAACAGTATTACAAAAATTA+GGG + chr7.3:90598073-90598092 None:intergenic 15.0%
!!! ATTCCAACTTTTTAAAAAAA+CGG + chr7.3:90597999-90598018 None:intergenic 15.0%
!!! TGTCTTTTTTAAATGATTTA+CGG - chr7.3:90597870-90597889 MS.gene80957:intron 15.0%
!! AACAGTATTACAAAAATTAG+GGG + chr7.3:90598072-90598091 None:intergenic 20.0%
!! AATTAACATTGTTTATGGTT+CGG - chr7.3:90597776-90597795 MS.gene80957:intron 20.0%
!! TAAACTCAAAAGTTTCTATT+AGG + chr7.3:90597662-90597681 None:intergenic 20.0%
!! TTAAACCTTCAAAATACATT+AGG + chr7.3:90597411-90597430 None:intergenic 20.0%
!!! TAACTAATTGGTAATAGAAA+TGG + chr7.3:90596944-90596963 None:intergenic 20.0%
!!! TAATACTGTTTTGTTCTTTT+TGG - chr7.3:90598082-90598101 MS.gene80957:CDS 20.0%
!!! TGTAATACTGTTTTTGTTAA+CGG - chr7.3:90598112-90598131 MS.gene80957:intron 20.0%
! AAGAAAGAAAGATGAATTGA+AGG + chr7.3:90596971-90596990 None:intergenic 25.0%
! AGAGAAGGAAAAAATAGTAA+TGG + chr7.3:90598177-90598196 None:intergenic 25.0%
! ATGGAAATAACAAAGAAACA+AGG + chr7.3:90598158-90598177 None:intergenic 25.0%
! ATTGAAGGTAACTAACTAAT+TGG + chr7.3:90596956-90596975 None:intergenic 25.0%
! CATATCAAATTTCTGTGATT+TGG - chr7.3:90597511-90597530 MS.gene80957:intron 25.0%
! CTTTAGTCAATAAGATAAGA+GGG + chr7.3:90597287-90597306 None:intergenic 25.0%
! TAGGAGGAAAACAAAAAAAA+GGG + chr7.3:90598210-90598229 None:intergenic 25.0%
! TCTTTAGTCAATAAGATAAG+AGG + chr7.3:90597288-90597307 None:intergenic 25.0%
! TTTAGTCAATAAGATAAGAG+GGG + chr7.3:90597286-90597305 None:intergenic 25.0%
!! AACTGATTGTACTAGTTTAT+TGG - chr7.3:90597225-90597244 MS.gene80957:intron 25.0%
!!! ATTCTTGTTGATTTCATCAT+GGG + chr7.3:90597074-90597093 None:intergenic 25.0%
!!! ATTTCTGTGATTTGGTTTTA+AGG - chr7.3:90597519-90597538 MS.gene80957:intron 25.0%
!!! CATCATGTTTTTTACTTTAC+AGG - chr7.3:90596994-90597013 MS.gene80957:intron 25.0%
!!! TATTCTTGTTGATTTCATCA+TGG + chr7.3:90597075-90597094 None:intergenic 25.0%
!!! TGTCCGTTTTTTTAAAAAGT+TGG - chr7.3:90597993-90598012 MS.gene80957:intron 25.0%
!!! TTATGGTTTTCTTATTTGAG+CGG - chr7.3:90597924-90597943 MS.gene80957:intron 25.0%
AGGAGGAAAACAAAAAAAAG+GGG + chr7.3:90598209-90598228 None:intergenic 30.0%
ATCTAATGCAAAGGGATATA+TGG - chr7.3:90597329-90597348 MS.gene80957:intron 30.0%
ATTTCATCATGGGAGATAAT+AGG + chr7.3:90597064-90597083 None:intergenic 30.0%
CGACGAATTAACATTGTTTA+TGG - chr7.3:90597771-90597790 MS.gene80957:intron 30.0%
CTAGGAGGAAAACAAAAAAA+AGG + chr7.3:90598211-90598230 None:intergenic 30.0%
TACAGGTTAAGATTAAGAGA+AGG - chr7.3:90597011-90597030 MS.gene80957:intron 30.0%
TATCAGACAGCTTATATACA+TGG + chr7.3:90597476-90597495 None:intergenic 30.0%
TCGCGAATTAACATTGTTTA+TGG - chr7.3:90597907-90597926 MS.gene80957:intron 30.0%
TCTAATGCAAAGGGATATAT+GGG - chr7.3:90597330-90597349 MS.gene80957:intron 30.0%
TGAATGTGATCTAATGCAAA+GGG - chr7.3:90597321-90597340 MS.gene80957:intron 30.0%
TTACATGATTACTGTTTGAG+CGG - chr7.3:90597740-90597759 MS.gene80957:intron 30.0%
TTGAATGTGATCTAATGCAA+AGG - chr7.3:90597320-90597339 MS.gene80957:intron 30.0%
TTTCATCATGGGAGATAATA+GGG + chr7.3:90597063-90597082 None:intergenic 30.0%
! AAGTATTGCTCACTTAGATT+TGG + chr7.3:90597450-90597469 None:intergenic 30.0%
! CATGTAAGAGAAAAGCATAA+TGG + chr7.3:90597727-90597746 None:intergenic 30.0%
! TTATGAGCTTTTGTGAAGTA+GGG - chr7.3:90597566-90597585 MS.gene80957:intron 30.0%
! TTTATGAGCTTTTGTGAAGT+AGG - chr7.3:90597565-90597584 MS.gene80957:intron 30.0%
!! GGTAACCTAATGTATTTTGA+AGG - chr7.3:90597403-90597422 MS.gene80957:intron 30.0%
!!! TATTTTTTCTAGCACTGTTG+AGG - chr7.3:90597382-90597401 MS.gene80957:intron 30.0%
AAGAATAAACCAAAAGCCGA+CGG - chr7.3:90597088-90597107 MS.gene80957:intron 35.0%
AAGTAGGGAATTAGAAGTTG+TGG - chr7.3:90597581-90597600 MS.gene80957:intron 35.0%
CACTCGTAAAATATTGTTGC+AGG + chr7.3:90598302-90598321 None:intergenic 35.0%
CTAATGCAAAGGGATATATG+GGG - chr7.3:90597331-90597350 MS.gene80957:intron 35.0%
GGAGGAAAACAAAAAAAAGG+GGG + chr7.3:90598208-90598227 None:intergenic 35.0%
GGTGATAGTTATTAGTCATG+TGG + chr7.3:90598051-90598070 None:intergenic 35.0%
! TCATTGTGGACTTGTTTACT+TGG - chr7.3:90597163-90597182 MS.gene80957:intron 35.0%
! TGAGTTTGCTTGTTTCAGTT+TGG - chr7.3:90597620-90597639 MS.gene80957:intron 35.0%
! TGCATGTTATAACTAGCTTG+AGG + chr7.3:90598257-90598276 None:intergenic 35.0%
! TGTACTAGTTTATTGGACGT+TGG - chr7.3:90597232-90597251 MS.gene80957:intron 35.0%
! TGTTATAACTAGCTTGAGGA+TGG + chr7.3:90598253-90598272 None:intergenic 35.0%
!!! CTGTGATTTGGTTTTAAGGA+CGG - chr7.3:90597523-90597542 MS.gene80957:intron 35.0%
!!! GTTCAACCACTGTTTTGTTT+TGG - chr7.3:90597946-90597965 MS.gene80957:intron 35.0%
AGCAAGACAAACTTGGTACA+AGG + chr7.3:90597689-90597708 None:intergenic 40.0%
AGTCCACAATGAGCTAAAGA+AGG + chr7.3:90597155-90597174 None:intergenic 40.0%
AGTGAGGCAATAAAACCTTG+TGG + chr7.3:90596860-90596879 None:intergenic 40.0%
ATATTTGCCCAATCAGGACA+GGG - chr7.3:90596887-90596906 MS.gene80957:CDS 40.0%
CTCGAACCAAAACAAAACAG+TGG + chr7.3:90597955-90597974 None:intergenic 40.0%
GAGTGCATGAATCAAAAGTG+TGG - chr7.3:90598317-90598336 MS.gene80957:CDS 40.0%
GATGAACAGCAAGACAAACT+TGG + chr7.3:90597696-90597715 None:intergenic 40.0%
GGCAAATATATGGACAAGTG+AGG + chr7.3:90596876-90596895 None:intergenic 40.0%
GTCCATATATTTGCCCAATC+AGG - chr7.3:90596881-90596900 MS.gene80957:CDS 40.0%
GTCCTGATTGGGCAAATATA+TGG + chr7.3:90596886-90596905 None:intergenic 40.0%
GTGAGGCAATAAAACCTTGT+GGG + chr7.3:90596859-90596878 None:intergenic 40.0%
TATATTTGCCCAATCAGGAC+AGG - chr7.3:90596886-90596905 MS.gene80957:CDS 40.0%
TGTGAGAAAAGTAGTACCGT+CGG + chr7.3:90597107-90597126 None:intergenic 40.0%
TTACCCAATACTACGAGTCA+CGG - chr7.3:90596823-90596842 MS.gene80957:CDS 40.0%
! CATCCTTCTTTAGCTCATTG+TGG - chr7.3:90597149-90597168 MS.gene80957:intron 40.0%
! TGGGGCTTTAGTTTAGTGTA+AGG - chr7.3:90597349-90597368 MS.gene80957:intron 40.0%
AACATACCCCTGTCCTGATT+GGG + chr7.3:90596897-90596916 None:intergenic 45.0%
AATTTGGGCATGGAACTAGG+AGG + chr7.3:90598226-90598245 None:intergenic 45.0%
CTTGAGGATGGCGACAATTT+GGG + chr7.3:90598241-90598260 None:intergenic 45.0%
GACAATTTGGGCATGGAACT+AGG + chr7.3:90598229-90598248 None:intergenic 45.0%
GGGAATTAGAAGTTGTGGTC+TGG - chr7.3:90597586-90597605 MS.gene80957:intron 45.0%
TAACATACCCCTGTCCTGAT+TGG + chr7.3:90596898-90596917 None:intergenic 45.0%
TATTTGCCCAATCAGGACAG+GGG - chr7.3:90596888-90596907 MS.gene80957:CDS 45.0%
! ATCAAAAGTGTGGCCACAAG+TGG - chr7.3:90598327-90598346 MS.gene80957:CDS 45.0%
! ATGGAGTTTTGCCCTATGTG+TGG - chr7.3:90596781-90596800 MS.gene80957:CDS 45.0%
! GTTCAACCACCGTTTTGTCT+AGG - chr7.3:90597810-90597829 MS.gene80957:intron 45.0%
! TGGAGTTTTGCCCTATGTGT+GGG - chr7.3:90596782-90596801 MS.gene80957:CDS 45.0%
!!! AAAGTAGTACCGTCGGCTTT+TGG + chr7.3:90597100-90597119 None:intergenic 45.0%
AAAGTGTGGCCACAAGTGGA+AGG - chr7.3:90598331-90598350 MS.gene80957:CDS 50.0%
AAGGGGGAATGAGTGAGAGA+AGG + chr7.3:90598192-90598211 None:intergenic 50.0%
AGAGAAGGCAAATGCTCGTC+AGG - chr7.3:90597026-90597045 MS.gene80957:intron 50.0%
AGGCAAATGCTCGTCAGGAA+AGG - chr7.3:90597031-90597050 MS.gene80957:intron 50.0%
ATCAGCATGCTCCCACACAT+AGG + chr7.3:90596796-90596815 None:intergenic 50.0%
CCGCTCGAACCTAGACAAAA+CGG + chr7.3:90597822-90597841 None:intergenic 50.0%
CTCGAACCTAGACAAAACGG+TGG + chr7.3:90597819-90597838 None:intergenic 50.0%
GCTTGAGGATGGCGACAATT+TGG + chr7.3:90598242-90598261 None:intergenic 50.0%
GGCAAATGCTCGTCAGGAAA+GGG - chr7.3:90597032-90597051 MS.gene80957:intron 50.0%
GTGCCGTGACTCGTAGTATT+GGG + chr7.3:90596829-90596848 None:intergenic 50.0%
TCAGCATGCTCCCACACATA+GGG + chr7.3:90596795-90596814 None:intergenic 50.0%
TGTGCCGTGACTCGTAGTAT+TGG + chr7.3:90596830-90596849 None:intergenic 50.0%
! CCGTTTTGTCTAGGTTCGAG+CGG - chr7.3:90597819-90597838 MS.gene80957:intron 50.0%
ACGGCACATCTCATCCCACA+AGG - chr7.3:90596842-90596861 MS.gene80957:CDS 55.0%
GGATGGCGACAATTTGGGCA+TGG + chr7.3:90598236-90598255 None:intergenic 55.0%
TGTGGCCACAAGTGGAAGGA+GGG - chr7.3:90598335-90598354 MS.gene80957:CDS 55.0%
GTGTGGCCACAAGTGGAAGG+AGG - chr7.3:90598334-90598353 MS.gene80957:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 90596781 90598361 90596781 ID=MS.gene80957
chr7.3 mRNA 90596781 90598361 90596781 ID=MS.gene80957.t1;Parent=MS.gene80957
chr7.3 exon 90598233 90598361 90598233 ID=MS.gene80957.t1.exon1;Parent=MS.gene80957.t1
chr7.3 CDS 90598233 90598361 90598233 ID=cds.MS.gene80957.t1;Parent=MS.gene80957.t1
chr7.3 exon 90598033 90598126 90598033 ID=MS.gene80957.t1.exon2;Parent=MS.gene80957.t1
chr7.3 CDS 90598033 90598126 90598033 ID=cds.MS.gene80957.t1;Parent=MS.gene80957.t1
chr7.3 exon 90596781 90596911 90596781 ID=MS.gene80957.t1.exon3;Parent=MS.gene80957.t1
chr7.3 CDS 90596781 90596911 90596781 ID=cds.MS.gene80957.t1;Parent=MS.gene80957.t1
Gene Sequence

>MS.gene80957

ATGGAGTTTTGCCCTATGTGTGGGAGCATGCTGATGCTTGAATTACCCAATACTACGAGTCACGGCACATCTCATCCCACAAGGTTTTATTGCCTCACTTGTCCATATATTTGCCCAATCAGGACAGGGGTATGTTATGTACTCGAGTCGAGTCTATTTTCCATTTCTATTACCAATTAGTTAGTTACCTTCAATTCATCTTTCTTTCTTTATCATCATGTTTTTTACTTTACAGGTTAAGATTAAGAGAAGGCAAATGCTCGTCAGGAAAGGGATTGACCCTATTATCTCCCATGATGAAATCAACAAGAATAAACCAAAAGCCGACGGTACTACTTTTCTCACAATTTATCGCAATTTTTGTTAATCATCCTTCTTTAGCTCATTGTGGACTTGTTTACTTGGATAATCAAATATTTGTGAAATGATTATATCAATTGTCTGAACTGATTGTACTAGTTTATTGGACGTTGGAGATGATACAATCTGTTTTTAGTGATTACCCCTCTTATCTTATTGACTAAAGACTTTCTCTTGAGTTGAATGTGATCTAATGCAAAGGGATATATGGGGCTTTAGTTTAGTGTAAGGCAAGCTTGTTTATTTTTTCTAGCACTGTTGAGGTAACCTAATGTATTTTGAAGGTTTAAATGTCAAAATGTGAAGCCAAATCTAAGTGAGCAATACTTTTGCCATGTATATAAGCTGTCTGATATAGCTTAATTTTTAACATATCAAATTTCTGTGATTTGGTTTTAAGGACGGTGTGCTCAAAGCTATAATATTTATGAGCTTTTGTGAAGTAGGGAATTAGAAGTTGTGGTCTGGTTTTGTTTGTGTGAGTTTGCTTGTTTCAGTTTGGATTATCAATATCAACTCCTAATAGAAACTTTTGAGTTTATTTTCCTTGTACCAAGTTTGTCTTGCTGTTCATCATGCGATTCCATTATGCTTTTCTCTTACATGATTACTGTTTGAGCGGTTGAATCACGACGAATTAACATTGTTTATGGTTCGGTTATCTGAGCAGTTCAACCACCGTTTTGTCTAGGTTCGAGCGGTTTAAAACAGTTAAATCAATGATTTAGATGTCTTTTTTAAATGATTTACGGTTTGAGCAGTTGAATCGCGAATTAACATTGTTTATGGTTTTCTTATTTGAGCGGTTCAACCACTGTTTTGTTTTGGTTCGAGCAGTTTAAAACTGCTTGATGTCCGTTTTTTTAAAAAGTTGGAATGATTTTGTCTTTGTATGTCTTCTTTCAGACCACATGACTAATAACTATCACCCCTAATTTTTGTAATACTGTTTTGTTCTTTTTGGTACAATTTGTAATACTGTTTTTGTTAACGGATATTGAGTAATTATGCAATCCTTGTTTCTTTGTTATTTCCATTACTATTTTTTCCTTCTCTCACTCATTCCCCCTTTTTTTTGTTTTCCTCCTAGTTCCATGCCCAAATTGTCGCCATCCTCAAGCTAGTTATAACATGCAACAGACTCGATCAGCTGATGAACCTGCAACAATATTTTACGAGTGCATGAATCAAAAGTGTGGCCACAAGTGGAAGGAGGGATAA

Protein sequence

>MS.gene80957.t1

MEFCPMCGSMLMLELPNTTSHGTSHPTRFYCLTCPYICPIRTGVKIKRRQMLVRKGIDPIISHDEINKNKPKADVPCPNCRHPQASYNMQQTRSADEPATIFYECMNQKCGHKWKEG