AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018329.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018329.01.T01 MTR_4g010000 89.947 189 19 0 1 189 1 189 6.45e-117 333
MsG0480018329.01.T01 MTR_4g010000 89.947 189 19 0 1 189 1 189 2.22e-115 333
MsG0480018329.01.T01 MTR_8g010120 46.377 69 34 2 113 181 73 138 2.96e-15 72.8
MsG0480018329.01.T01 MTR_8g010120 46.377 69 34 2 113 181 113 178 3.34e-15 73.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018329.01.T01 AT1G52510 69.822 169 48 2 14 181 12 178 4.13e-80 243
MsG0480018329.01.T01 AT1G52510 94.118 34 2 0 148 181 1 34 1.54e-18 80.5
MsG0480018329.01.T01 AT4G12830 35.465 172 91 6 27 181 17 185 6.95e-17 77.8

Find 40 sgRNAs with CRISPR-Local

Find 112 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAAAACAGTTGGCAGATTC+AGG 0.191898 4:-3416993 MsG0480018329.01.T01:intron
AAATCATCATTCAACCCTTT+TGG 0.239268 4:-3418861 MsG0480018329.01.T01:CDS
ATCATCTTGATCATTGCTTT+TGG 0.295202 4:+3418884 None:intergenic
AGATGGTTTGTGAGGGAAAC+TGG 0.336712 4:-3417312 MsG0480018329.01.T01:intron
GCGCCTGACTGGATAGGATT+TGG 0.341818 4:-3416957 MsG0480018329.01.T01:CDS
CACAAACCATCTCAACTTCC+CGG 0.388212 4:+3417323 None:intergenic
GACAAGCCACAGCCAGGATA+TGG 0.394920 4:-3416927 MsG0480018329.01.T01:CDS
TGAATGGCACTACGGCTTGA+TGG 0.396499 4:+3418822 None:intergenic
TTCACTGCTTTGCGCCTGAC+TGG 0.406887 4:-3416968 MsG0480018329.01.T01:CDS
TACGGATCATATGTAAAATC+CGG 0.408411 4:-3417342 MsG0480018329.01.T01:CDS
CCTGCTGAAGCTGGCAATGT+TGG 0.436380 4:-3418786 MsG0480018329.01.T01:CDS
GAAATAGCAAGGTTTAGTGT+TGG 0.443464 4:+3419014 None:intergenic
CAAGACAAGGGCAAGGAATA+CGG 0.457995 4:-3417360 MsG0480018329.01.T01:CDS
TAAAACAGTTGGCAGATTCA+GGG 0.477518 4:-3416992 MsG0480018329.01.T01:intron
TTATCAGTAACAAATCCAAA+AGG 0.481278 4:+3418846 None:intergenic
CCAACATTGCCAGCTTCAGC+AGG 0.482936 4:+3418786 None:intergenic
TCTGAAAATCCTGCTGAAGC+TGG 0.491648 4:-3418795 MsG0480018329.01.T01:CDS
TGCTTTGCGCCTGACTGGAT+AGG 0.508011 4:-3416963 MsG0480018329.01.T01:CDS
GGAACAATTGTATTCCTTCA+CGG 0.510150 4:-3417174 MsG0480018329.01.T01:CDS
TTCAGTGACAAGCCACAGCC+AGG 0.513906 4:-3416933 MsG0480018329.01.T01:CDS
CTACCGAGTTGTTATGTCTG+AGG 0.530251 4:-3417130 MsG0480018329.01.T01:intron
AAACCAAATCCTATCCAGTC+AGG 0.531111 4:+3416954 None:intergenic
TAGTAGTTGAAGAAATAGCA+AGG 0.535867 4:+3419003 None:intergenic
TATCAGTAACAAATCCAAAA+GGG 0.554155 4:+3418847 None:intergenic
CAGACAATTGAATGGCACTA+CGG 0.555154 4:+3418814 None:intergenic
ATTGTGTTGGCGCTCCGTGA+AGG 0.556030 4:+3417160 None:intergenic
ACGGATCATATGTAAAATCC+GGG 0.557018 4:-3417341 MsG0480018329.01.T01:CDS
TAAAATCCGGGAAGTTGAGA+TGG 0.557129 4:-3417329 MsG0480018329.01.T01:CDS
TTGAAACCATATCCTGGCTG+TGG 0.575075 4:+3416921 None:intergenic
GTGTAATTGAAACCATATCC+TGG 0.576415 4:+3416915 None:intergenic
CGGTAGCTAAAAGATTGTGT+TGG 0.581014 4:+3417147 None:intergenic
TTCCTAGAAAATACAAGACA+AGG 0.589706 4:-3417373 MsG0480018329.01.T01:intron
TCAAGCACAAGTTCAAGCAG+AGG 0.601190 4:-3418954 MsG0480018329.01.T01:CDS
GGAAGTTGAGATGGTTTGTG+AGG 0.602667 4:-3417320 MsG0480018329.01.T01:CDS
GAAGTTGAGATGGTTTGTGA+GGG 0.604921 4:-3417319 MsG0480018329.01.T01:CDS
GGATATGGTTTCAATTACAC+AGG 0.610720 4:-3416912 MsG0480018329.01.T01:CDS
GAAAATACAAGACAAGGGCA+AGG 0.626660 4:-3417367 MsG0480018329.01.T01:CDS
GGGTCAGCAAAGAGTAGACG+AGG 0.650329 4:-3417195 MsG0480018329.01.T01:CDS
TCCTAGAAAATACAAGACAA+GGG 0.660631 4:-3417372 MsG0480018329.01.T01:intron
TAACCTCAGACATAACAACT+CGG 0.719245 4:+3417127 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAATTTTATAAGTTTGATTT+TGG - Chr4:3417686-3417705 MsG0480018329.01.T01:intron 10.0%
!! TGTATTGAACAATTAATTTA+AGG + Chr4:3417466-3417485 None:intergenic 15.0%
!!! TGAAATAAAACTTTGTTATT+AGG + Chr4:3418823-3418842 None:intergenic 15.0%
!!! TTTTAGTTAGAATTAGTTTT+GGG - Chr4:3417879-3417898 MsG0480018329.01.T01:intron 15.0%
!! CAAATTCAAACTATAATCAT+AGG + Chr4:3418082-3418101 None:intergenic 20.0%
!! CTATGATTATAGTTTGAATT+TGG - Chr4:3418080-3418099 MsG0480018329.01.T01:intron 20.0%
!! TGAAATATAAGATAAGAATG+AGG + Chr4:3417198-3417217 None:intergenic 20.0%
!! TGATCAGAAATATTTATGTT+TGG + Chr4:3417931-3417950 None:intergenic 20.0%
!! TTTGATGAACATATGTTAAA+GGG + Chr4:3418679-3418698 None:intergenic 20.0%
!!! AATCAGATAAAAAGTTGATT+TGG + Chr4:3418462-3418481 None:intergenic 20.0%
!!! ATCAACTTTTTATCTGATTT+TGG - Chr4:3418463-3418482 MsG0480018329.01.T01:intron 20.0%
!!! CTTTTAGTTAGAATTAGTTT+TGG - Chr4:3417878-3417897 MsG0480018329.01.T01:intron 20.0%
!!! TGAATTGATTTTGAAATGTT+TGG - Chr4:3417350-3417369 MsG0480018329.01.T01:CDS 20.0%
!!! TTTAGTCTTCAAACAAATTT+TGG - Chr4:3418146-3418165 MsG0480018329.01.T01:intron 20.0%
!!! TTTCTAGTTAAAATCAATTC+CGG + Chr4:3417404-3417423 None:intergenic 20.0%
!!! TTTTGATGAACATATGTTAA+AGG + Chr4:3418680-3418699 None:intergenic 20.0%
! CAGTTTATGTTTGAATCATA+TGG - Chr4:3417773-3417792 MsG0480018329.01.T01:intron 25.0%
! GGAAGACTTAAAAAGAATAA+CGG - Chr4:3418110-3418129 MsG0480018329.01.T01:intron 25.0%
! TATCAGTAACAAATCCAAAA+GGG + Chr4:3417078-3417097 None:intergenic 25.0%
! TCCATGTGTTATAAAATACT+TGG + Chr4:3418008-3418027 None:intergenic 25.0%
! TTATCAGTAACAAATCCAAA+AGG + Chr4:3417079-3417098 None:intergenic 25.0%
! TTGATGAACATATGTTAAAG+GGG + Chr4:3418678-3418697 None:intergenic 25.0%
!! AAGGCTAAAAATTGATTCTA+AGG + Chr4:3417447-3417466 None:intergenic 25.0%
!! ACCAAGTATTTTATAACACA+TGG - Chr4:3418004-3418023 MsG0480018329.01.T01:intron 25.0%
!! AGGCTAAAAATTGATTCTAA+GGG + Chr4:3417446-3417465 None:intergenic 25.0%
!! GATGATGTTTTTCATTTAGT+TGG - Chr4:3418497-3418516 MsG0480018329.01.T01:intron 25.0%
!! TAGTTTGAATTTGGTCATTT+TGG - Chr4:3418089-3418108 MsG0480018329.01.T01:intron 25.0%
!!! AGTAGAATTGATTTTGTTTC+CGG - Chr4:3417382-3417401 MsG0480018329.01.T01:intron 25.0%
!!! TCATTTTCATTAGCTGTTTT+TGG - Chr4:3418389-3418408 MsG0480018329.01.T01:intron 25.0%
!!! TTTGCATTCAACTCATTTTT+AGG - Chr4:3417512-3417531 MsG0480018329.01.T01:intron 25.0%
AAGGTGAAGTAATTTATGTC+TGG - Chr4:3417723-3417742 MsG0480018329.01.T01:intron 30.0%
AGACTCAAAAGAAAAACCTA+AGG + Chr4:3417235-3417254 None:intergenic 30.0%
ATGATGATTTAGTGCATGTT+TGG - Chr4:3417299-3417318 MsG0480018329.01.T01:intron 30.0%
ATGGCTGTGTACTTAAAATT+TGG - Chr4:3417609-3417628 MsG0480018329.01.T01:intron 30.0%
GCTAATGAAAATGAACTATC+AGG + Chr4:3418383-3418402 None:intergenic 30.0%
GGAAACAAAATCAATTCTAC+TGG + Chr4:3417383-3417402 None:intergenic 30.0%
GTATGCTGTGAAAACAAAAT+GGG - Chr4:3418240-3418259 MsG0480018329.01.T01:intron 30.0%
TAAAGGCTATGTTTGGATTA+TGG + Chr4:3418863-3418882 None:intergenic 30.0%
TACGGATCATATGTAAAATC+CGG - Chr4:3418580-3418599 MsG0480018329.01.T01:intron 30.0%
TAGTAGTTGAAGAAATAGCA+AGG + Chr4:3416922-3416941 None:intergenic 30.0%
TCCTAGAAAATACAAGACAA+GGG - Chr4:3418550-3418569 MsG0480018329.01.T01:intron 30.0%
TGGCTGTGTACTTAAAATTT+GGG - Chr4:3417610-3417629 MsG0480018329.01.T01:intron 30.0%
TGTATGCTGTGAAAACAAAA+TGG - Chr4:3418239-3418258 MsG0480018329.01.T01:intron 30.0%
TTCCTAGAAAATACAAGACA+AGG - Chr4:3418549-3418568 MsG0480018329.01.T01:intron 30.0%
TTTCTCTCTCTTAAAACAGT+TGG - Chr4:3418919-3418938 MsG0480018329.01.T01:CDS 30.0%
! AAATCATCATTCAACCCTTT+TGG - Chr4:3417061-3417080 MsG0480018329.01.T01:intron 30.0%
! AGGATTTTCAGACAATTGAA+TGG + Chr4:3417119-3417138 None:intergenic 30.0%
! ATCATCTTGATCATTGCTTT+TGG + Chr4:3417041-3417060 None:intergenic 30.0%
! TTTTCACAGCATACATTTTG+AGG + Chr4:3418234-3418253 None:intergenic 30.0%
! TTTTTCCTTTCCTTTTTGCA+GGG - Chr4:3418707-3418726 MsG0480018329.01.T01:intron 30.0%
!! GCTAATATTTCTAGCTTCTA+CGG + Chr4:3417859-3417878 None:intergenic 30.0%
!! TTTGGTTGAAAGTTTGTTGA+AGG - Chr4:3417704-3417723 MsG0480018329.01.T01:intron 30.0%
!!! AAAAGCGCTTTTTGTTCAAA+AGG - Chr4:3417638-3417657 MsG0480018329.01.T01:intron 30.0%
!!! CAATGCTTTTAACTTTCCTT+AGG - Chr4:3417216-3417235 MsG0480018329.01.T01:intron 30.0%
!!! TTTTTTCCTTTCCTTTTTGC+AGG - Chr4:3418706-3418725 MsG0480018329.01.T01:intron 30.0%
AACTAGTTGTGTAAGCAACA+TGG - Chr4:3417590-3417609 MsG0480018329.01.T01:intron 35.0%
ACGGATCATATGTAAAATCC+GGG - Chr4:3418581-3418600 MsG0480018329.01.T01:intron 35.0%
AGGTCACTGATCAAACAAAA+AGG + Chr4:3418214-3418233 None:intergenic 35.0%
AGTTAAGTGTGTGTTTGGTT+TGG + Chr4:3417574-3417593 None:intergenic 35.0%
ATCTCTCAGAATCTCATGTT+TGG + Chr4:3417968-3417987 None:intergenic 35.0%
CAACTAGTTAAGTGTGTGTT+TGG + Chr4:3417579-3417598 None:intergenic 35.0%
CTAATCGTGATACGAGTTAA+AGG + Chr4:3418880-3418899 None:intergenic 35.0%
GAAATAGCAAGGTTTAGTGT+TGG + Chr4:3416911-3416930 None:intergenic 35.0%
GGAACAATTGTATTCCTTCA+CGG - Chr4:3418748-3418767 MsG0480018329.01.T01:intron 35.0%
GGATATGGTTTCAATTACAC+AGG - Chr4:3419010-3419029 MsG0480018329.01.T01:CDS 35.0%
GTGTAATTGAAACCATATCC+TGG + Chr4:3419010-3419029 None:intergenic 35.0%
TAAAACAGTTGGCAGATTCA+GGG - Chr4:3418930-3418949 MsG0480018329.01.T01:CDS 35.0%
TAACCTCAGACATAACAACT+CGG + Chr4:3418798-3418817 None:intergenic 35.0%
TACGAGTTAAAGGCTATGTT+TGG + Chr4:3418870-3418889 None:intergenic 35.0%
TCAGAATCTCATGTTTGGAT+TGG + Chr4:3417963-3417982 None:intergenic 35.0%
TTAAAACAGTTGGCAGATTC+AGG - Chr4:3418929-3418948 MsG0480018329.01.T01:CDS 35.0%
!!! AAATTTTGGCTTAGCCATCT+AGG - Chr4:3418160-3418179 MsG0480018329.01.T01:intron 35.0%
!!! GTTAGAATTAGTTTTGGGAC+TGG - Chr4:3417884-3417903 MsG0480018329.01.T01:intron 35.0%
AAACCAAATCCTATCCAGTC+AGG + Chr4:3418971-3418990 None:intergenic 40.0%
AAGGCCTATGGAAGAATAAG+AGG - Chr4:3418187-3418206 MsG0480018329.01.T01:intron 40.0%
ACTGAACAGAAAACAGATCG+TGG + Chr4:3418347-3418366 None:intergenic 40.0%
AGGTCCTCTTATTCTTCCAT+AGG + Chr4:3418194-3418213 None:intergenic 40.0%
CAGACAATTGAATGGCACTA+CGG + Chr4:3417111-3417130 None:intergenic 40.0%
CGGTAGCTAAAAGATTGTGT+TGG + Chr4:3418778-3418797 None:intergenic 40.0%
GAAAATACAAGACAAGGGCA+AGG - Chr4:3418555-3418574 MsG0480018329.01.T01:intron 40.0%
TAAAATCCGGGAAGTTGAGA+TGG - Chr4:3418593-3418612 MsG0480018329.01.T01:intron 40.0%
! GAAGTTGAGATGGTTTGTGA+GGG - Chr4:3418603-3418622 MsG0480018329.01.T01:intron 40.0%
! GCCCTTGTCTTGTATTTTCT+AGG + Chr4:3418554-3418573 None:intergenic 40.0%
! TCAACTCATTTTGCCTACTC+CGG + Chr4:3417333-3417352 None:intergenic 40.0%
! TGCATGTTTGGTTCAACTTC+CGG - Chr4:3417311-3417330 MsG0480018329.01.T01:intron 40.0%
!! TTCTAGCTTCTACGGTAAGA+TGG + Chr4:3417851-3417870 None:intergenic 40.0%
AGAGACTAGAGCCATTACGA+CGG + Chr4:3418274-3418293 None:intergenic 45.0%
CAAGACAAGGGCAAGGAATA+CGG - Chr4:3418562-3418581 MsG0480018329.01.T01:intron 45.0%
CACAAACCATCTCAACTTCC+CGG + Chr4:3418602-3418621 None:intergenic 45.0%
CATAGGCCTTAGTTCCTAGA+TGG + Chr4:3418177-3418196 None:intergenic 45.0%
CATCTAGGAACTAAGGCCTA+TGG - Chr4:3418175-3418194 MsG0480018329.01.T01:intron 45.0%
CTACCGAGTTGTTATGTCTG+AGG - Chr4:3418792-3418811 MsG0480018329.01.T01:CDS 45.0%
GCTTAGCCATCTAGGAACTA+AGG - Chr4:3418168-3418187 MsG0480018329.01.T01:intron 45.0%
TCAAGCACAAGTTCAAGCAG+AGG - Chr4:3416968-3416987 MsG0480018329.01.T01:CDS 45.0%
TCTGAAAATCCTGCTGAAGC+TGG - Chr4:3417127-3417146 MsG0480018329.01.T01:intron 45.0%
TCTTTGCTGACCCTGCAAAA+AGG + Chr4:3418720-3418739 None:intergenic 45.0%
TTGAAACCATATCCTGGCTG+TGG + Chr4:3419004-3419023 None:intergenic 45.0%
! AGATGGTTTGTGAGGGAAAC+TGG - Chr4:3418610-3418629 MsG0480018329.01.T01:intron 45.0%
! GGAAGTTGAGATGGTTTGTG+AGG - Chr4:3418602-3418621 MsG0480018329.01.T01:intron 45.0%
! TTTGGTTCAACTTCCGGAGT+AGG - Chr4:3417317-3417336 MsG0480018329.01.T01:CDS 45.0%
GCTGACCCTGCAAAAAGGAA+AGG + Chr4:3418715-3418734 None:intergenic 50.0%
TGAATGGCACTACGGCTTGA+TGG + Chr4:3417103-3417122 None:intergenic 50.0%
CCAACATTGCCAGCTTCAGC+AGG + Chr4:3417139-3417158 None:intergenic 55.0%
CCTGCTGAAGCTGGCAATGT+TGG - Chr4:3417136-3417155 MsG0480018329.01.T01:CDS 55.0%
GACAAGCCACAGCCAGGATA+TGG - Chr4:3418995-3419014 MsG0480018329.01.T01:CDS 55.0%
GCGCCTGACTGGATAGGATT+TGG - Chr4:3418965-3418984 MsG0480018329.01.T01:CDS 55.0%
GGGCAATGCTACCGTCGTAA+TGG - Chr4:3418260-3418279 MsG0480018329.01.T01:intron 55.0%
GGGTCAGCAAAGAGTAGACG+AGG - Chr4:3418727-3418746 MsG0480018329.01.T01:intron 55.0%
TGCTTTGCGCCTGACTGGAT+AGG - Chr4:3418959-3418978 MsG0480018329.01.T01:CDS 55.0%
TTCACTGCTTTGCGCCTGAC+TGG - Chr4:3418954-3418973 MsG0480018329.01.T01:CDS 55.0%
TTCAGTGACAAGCCACAGCC+AGG - Chr4:3418989-3419008 MsG0480018329.01.T01:CDS 55.0%
! ATTGTGTTGGCGCTCCGTGA+AGG + Chr4:3418765-3418784 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 3416884 3419060 3416884 ID=MsG0480018329.01;Name=MsG0480018329.01
Chr4 mRNA 3416884 3419060 3416884 ID=MsG0480018329.01.T01;Parent=MsG0480018329.01;Name=MsG0480018329.01.T01;_AED=0.49;_eAED=0.50;_QI=0|0|0|1|1|1|4|0|190
Chr4 exon 3418773 3419060 3418773 ID=MsG0480018329.01.T01:exon:977;Parent=MsG0480018329.01.T01
Chr4 exon 3417313 3417388 3417313 ID=MsG0480018329.01.T01:exon:976;Parent=MsG0480018329.01.T01
Chr4 exon 3417131 3417216 3417131 ID=MsG0480018329.01.T01:exon:975;Parent=MsG0480018329.01.T01
Chr4 exon 3416884 3417006 3416884 ID=MsG0480018329.01.T01:exon:974;Parent=MsG0480018329.01.T01
Chr4 CDS 3418773 3419060 3418773 ID=MsG0480018329.01.T01:cds;Parent=MsG0480018329.01.T01
Chr4 CDS 3417313 3417388 3417313 ID=MsG0480018329.01.T01:cds;Parent=MsG0480018329.01.T01
Chr4 CDS 3417131 3417216 3417131 ID=MsG0480018329.01.T01:cds;Parent=MsG0480018329.01.T01
Chr4 CDS 3416884 3417006 3416884 ID=MsG0480018329.01.T01:cds;Parent=MsG0480018329.01.T01
Gene Sequence

>MsG0480018329.01.T01

ATGGTGTTTTCTACTATGTATTCTCCAACACTAAACCTTGCTATTTCTTCAACTACTACAAACAACTGTAGCAGAAGAAGAGCATCAAGCACAAGTTCAAGCAGAGGAGTGAATAGTATCATAATCAGAGCTAGTTCTTCAGAGAAAAATGAATCCAAAAGCAATGATCAAGATGATAAATCATCATTCAACCCTTTTGGATTTGTTACTGATAATCCATCAAGCCGTAGTGCCATTCAATTGTCTGAAAATCCTGCTGAAGCTGGCAATGTTGGACAAATGATAGATAAAATACAAGACAAGGGCAAGGAATACGGATCATATGTAAAATCCGGGAAGTTGAGATGGTTTGTGAGGGAAACTGGGTCAGCAAAGAGTAGACGAGGAACAATTGTATTCCTTCACGGAGCGCCAACACAATCTTTTAGCTACCGAGTTGTTATGTCTGAGTTGGCAGATTCAGGGTTTCACTGCTTTGCGCCTGACTGGATAGGATTTGGTTTCAGTGACAAGCCACAGCCAGGATATGGTTTCAATTACACAGGTGTTATCATGAATGATCTTATGTTATGA

Protein sequence

>MsG0480018329.01.T01

MVFSTMYSPTLNLAISSTTTNNCSRRRASSTSSSRGVNSIIIRASSSEKNESKSNDQDDKSSFNPFGFVTDNPSSRSAIQLSENPAEAGNVGQMIDKIQDKGKEYGSYVKSGKLRWFVRETGSAKSRRGTIVFLHGAPTQSFSYRVVMSELADSGFHCFAPDWIGFGFSDKPQPGYGFNYTGVIMNDLML*