AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066344


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066344.t1 MTR_4g120420 91.597 238 10 3 1 229 1 237 5.60e-159 439
MS.gene066344.t1 MTR_2g435540 65.138 218 69 1 19 229 24 241 2.33e-104 301
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066344.t1 AT4G16060 60.793 227 83 1 3 229 69 289 7.42e-103 300

Find 0 sgRNAs with CRISPR-Local

Find 131 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTACTTAATTTATGAAT+AGG - 32540:20315-20334 None:intergenic 10.0%
!!! AATATATTTTAAACAATATG+GGG + 32540:20778-20797 MS.gene066344:CDS 10.0%
!!! GAAATATATTTTAAACAATA+TGG + 32540:20776-20795 MS.gene066344:CDS 10.0%
!!! TATTTTGTAAAATTAACTAA+TGG + 32540:21432-21451 MS.gene066344:intron 10.0%
!! AAATGATGAAATGATTAATT+AGG - 32540:19549-19568 None:intergenic 15.0%
!! AATTCATTGATCAAATAATA+AGG - 32540:19739-19758 None:intergenic 15.0%
!! ATATGATTATTGTTCTTAAT+TGG + 32540:21191-21210 MS.gene066344:intron 15.0%
!! ATCAAAAACAGTAATTATAA+TGG - 32540:19846-19865 None:intergenic 15.0%
!! ATGTGTATATTATTTATGTT+TGG + 32540:20915-20934 MS.gene066344:intron 15.0%
!! GAATTAATTATAAGATATGA+TGG + 32540:20352-20371 MS.gene066344:intron 15.0%
!! TGAAATTTATTTATATGAAC+TGG + 32540:20503-20522 MS.gene066344:intron 15.0%
!! TGTGTATATTATTTATGTTT+GGG + 32540:20916-20935 MS.gene066344:intron 15.0%
!!! AATTTTACAAAATAACTGTT+CGG - 32540:21426-21445 None:intergenic 15.0%
!! AAATCCATAGAAGATATATT+AGG - 32540:21114-21133 None:intergenic 20.0%
!! AATACAATATCCATAAGATT+TGG + 32540:20801-20820 MS.gene066344:CDS 20.0%
!! AATCTGTCTTCATAATTAAT+TGG - 32540:20046-20065 None:intergenic 20.0%
!! AATTCCTAATATATCTTCTA+TGG + 32540:21107-21126 MS.gene066344:intron 20.0%
!! ATAGATAAAAAGAATTGATC+TGG - 32540:19979-19998 None:intergenic 20.0%
!! GTGTATATTATTTATGTTTG+GGG + 32540:20917-20936 MS.gene066344:intron 20.0%
!! TAAATAAATTTCACAAGAAC+TGG - 32540:20496-20515 None:intergenic 20.0%
!! TTCTTTAAATTTAGATGTTG+CGG + 32540:20444-20463 MS.gene066344:CDS 20.0%
!!! ATAAGATATGATGGTTTTTT+TGG + 32540:20361-20380 MS.gene066344:intron 20.0%
!!! TATTTGAAAAACAGATTTTG+AGG + 32540:20997-21016 MS.gene066344:intron 20.0%
!!! TTTTGATATTAAGAAATCAG+AGG + 32540:19859-19878 MS.gene066344:CDS 20.0%
! AAGAAAGAAAAAAACACAGA+AGG - 32540:20744-20763 None:intergenic 25.0%
! AATAATAAGGAGGAGATAAA+AGG - 32540:19726-19745 None:intergenic 25.0%
! ATTGATCTGGTATCTAAAAA+AGG - 32540:19966-19985 None:intergenic 25.0%
! GAATTAAAATAACATACTGC+TGG - 32540:20264-20283 None:intergenic 25.0%
! GATTAATTGCTTCAATGTTT+GGG + 32540:19764-19783 MS.gene066344:intron 25.0%
! TCATTGATCAAATAATAAGG+AGG - 32540:19736-19755 None:intergenic 25.0%
! TGATTAATTGCTTCAATGTT+TGG + 32540:19763-19782 MS.gene066344:intron 25.0%
!! ATGCATTTTCTGATACAAAT+TGG + 32540:20550-20569 MS.gene066344:intron 25.0%
!!! AAACATTTTTCTGAAGATTG+GGG + 32540:21140-21159 MS.gene066344:intron 25.0%
!!! AAGTAAATTGATTTTCTTGC+TGG + 32540:20326-20345 MS.gene066344:intron 25.0%
!!! ACAAACATTTTTCTGAAGAT+TGG + 32540:21138-21157 MS.gene066344:intron 25.0%
!!! CAAACATTTTTCTGAAGATT+GGG + 32540:21139-21158 MS.gene066344:intron 25.0%
!!! TTTTTGGTTTGATGATATTG+TGG + 32540:20377-20396 MS.gene066344:intron 25.0%
AATTGTTCTGACAACTAACT+AGG - 32540:20691-20710 None:intergenic 30.0%
ATTGACAGAGAAATGTTACA+AGG + 32540:21059-21078 MS.gene066344:intron 30.0%
CACAATCACAATTATCTACA+TGG + 32540:19910-19929 MS.gene066344:intron 30.0%
CTGGTGTAGTAATAATTAGT+TGG - 32540:20477-20496 None:intergenic 30.0%
GAATCCTTAAAAACACGTTA+CGG + 32540:21607-21626 MS.gene066344:CDS 30.0%
TATGCCATGATTGAAAAAGA+AGG - 32540:19667-19686 None:intergenic 30.0%
TGAAGCTTACAATAACTTCT+TGG + 32540:21498-21517 MS.gene066344:CDS 30.0%
TTGACAGAGAAATGTTACAA+GGG + 32540:21060-21079 MS.gene066344:intron 30.0%
! CTCATTGTCTTTTCATGATT+TGG + 32540:21220-21239 MS.gene066344:intron 30.0%
! TGTTGTTTAGTCCTTAATTC+AGG + 32540:21284-21303 MS.gene066344:intron 30.0%
! TTGGTTAGTTAGTTAGTTAC+CGG - 32540:19504-19523 None:intergenic 30.0%
!! AACATTTTTCTGAAGATTGG+GGG + 32540:21141-21160 MS.gene066344:intron 30.0%
!! TAACGTGTTTTTAAGGATTC+AGG - 32540:21607-21626 None:intergenic 30.0%
!!! GTTTTTTTCTTTCTTGCAGA+GGG + 32540:20749-20768 MS.gene066344:intron 30.0%
!!! TGTTTTTTTCTTTCTTGCAG+AGG + 32540:20748-20767 MS.gene066344:intron 30.0%
AAAATAACATACTGCTGGAC+TGG - 32540:20259-20278 None:intergenic 35.0%
AGTCCTTAATTCAGGAAAGA+GGG + 32540:21292-21311 MS.gene066344:intron 35.0%
ATAAGGAGGAGATAAAAGGA+AGG - 32540:19722-19741 None:intergenic 35.0%
ATAATGGTTTCACCTTGACA+AGG - 32540:19830-19849 None:intergenic 35.0%
CACAACTTTATGAGTCAGTT+AGG + 32540:21340-21359 MS.gene066344:intron 35.0%
CTGATACAAATTGGCATGAA+GGG + 32540:20559-20578 MS.gene066344:intron 35.0%
CTTTCTCCTGATGTAAAAGA+CGG - 32540:21370-21389 None:intergenic 35.0%
TAGTCCTTAATTCAGGAAAG+AGG + 32540:21291-21310 MS.gene066344:intron 35.0%
TCTGATACAAATTGGCATGA+AGG + 32540:20558-20577 MS.gene066344:intron 35.0%
TGATACAAATTGGCATGAAG+GGG + 32540:20560-20579 MS.gene066344:intron 35.0%
TTTATACTGTCTGTCTCTGT+AGG + 32540:20200-20219 MS.gene066344:intron 35.0%
! CGCAAGTACTTTGAGAAAAT+GGG + 32540:21556-21575 MS.gene066344:CDS 35.0%
! TCGCAAGTACTTTGAGAAAA+TGG + 32540:21555-21574 MS.gene066344:CDS 35.0%
! TTTTCCCTGAATCACTAGAT+GGG + 32540:20223-20242 MS.gene066344:CDS 35.0%
!! AAAGAATAAGACGAGTTGGT+TGG - 32540:19523-19542 None:intergenic 35.0%
AATGAGTTATTGCAGTGTCC+TGG + 32540:21456-21475 MS.gene066344:intron 40.0%
ATGTGCATCTTACAGTGATG+AGG + 32540:20419-20438 MS.gene066344:CDS 40.0%
CAACCCTCTTTCCTGAATTA+AGG - 32540:21298-21317 None:intergenic 40.0%
CGTATCATCTGATGATCTCT+TGG + 32540:19412-19431 MS.gene066344:CDS 40.0%
GAAAAAGAAGGCTCCTACAA+CGG - 32540:19655-19674 None:intergenic 40.0%
GCTGAAAGAATAAGACGAGT+TGG - 32540:19527-19546 None:intergenic 40.0%
GTTCGGAAGTTAATTAGGTG+AGG - 32540:19600-19619 None:intergenic 40.0%
TACTATCGAAGTCGTATTGC+AGG + 32540:21254-21273 MS.gene066344:intron 40.0%
TAGTTAGTTAGTTACCGGAG+AGG - 32540:19499-19518 None:intergenic 40.0%
TATTGTGGTCTCTTCAATGC+AGG + 32540:20392-20411 MS.gene066344:intron 40.0%
TCCTTAAAAACACGTTACGG+AGG + 32540:21610-21629 MS.gene066344:CDS 40.0%
TTTCCCTGAATCACTAGATG+GGG + 32540:20224-20243 MS.gene066344:CDS 40.0%
TTTCTTTCTTGCAGAGGGAA+GGG + 32540:20754-20773 MS.gene066344:intron 40.0%
TTTGGGCTTATTCTCTTTGC+AGG + 32540:19781-19800 MS.gene066344:intron 40.0%
! ACCAGTGTCGAAGATAAACA+CGG - 32540:20847-20866 None:intergenic 40.0%
! CGCTCTCTTTTGATAAATGC+TGG - 32540:20069-20088 None:intergenic 40.0%
! GTTTTCCCTGAATCACTAGA+TGG + 32540:20222-20241 MS.gene066344:CDS 40.0%
! TGTTTTGCGATCAGCAATGA+AGG - 32540:21530-21549 None:intergenic 40.0%
! TTTTCTTTCTTGCAGAGGGA+AGG + 32540:20753-20772 MS.gene066344:intron 40.0%
!! ACCTCCGTAACGTGTTTTTA+AGG - 32540:21614-21633 None:intergenic 40.0%
!! CGTGTTTTTAAGGATTCAGG+AGG - 32540:21604-21623 None:intergenic 40.0%
!!! GGAGCCTTCTTTTTCAATCA+TGG + 32540:19660-19679 MS.gene066344:CDS 40.0%
ACAACTAACTAGGAGCAGCA+TGG - 32540:20681-20700 None:intergenic 45.0%
ACACAGAAGGCAGAGCTATA+AGG - 32540:20731-20750 None:intergenic 45.0%
ATGTAACCGTCTACGTCACT+AGG - 32540:19452-19471 None:intergenic 45.0%
ATTGGCATGAAGGGGATTGT+TGG + 32540:20568-20587 MS.gene066344:intron 45.0%
CAACTAACTAGGAGCAGCAT+GGG - 32540:20680-20699 None:intergenic 45.0%
CATAGCCAACCTCAAAACTC+AGG + 32540:19683-19702 MS.gene066344:CDS 45.0%
CGTCATTGCGCCAAATCTTA+TGG - 32540:20814-20833 None:intergenic 45.0%
CTCTTGCAGCAGATATGTGT+AGG - 32540:20154-20173 None:intergenic 45.0%
GAAAATGGGCACAAGCATCA+TGG + 32540:21570-21589 MS.gene066344:CDS 45.0%
TAATTAACTTCCGAACCGCC+AGG + 32540:19604-19623 MS.gene066344:CDS 45.0%
TACATCTCCATCTGCGGTTA+CGG + 32540:19467-19486 MS.gene066344:intron 45.0%
TGCGATCAGCAATGAAGGTA+TGG - 32540:21525-21544 None:intergenic 45.0%
TGTCGAAGATAAACACGGCA+TGG - 32540:20842-20861 None:intergenic 45.0%
TTCTCTTTGCAGGAAGTTGC+TGG + 32540:19791-19810 MS.gene066344:intron 45.0%
! GAGACATCACCTGAGTTTTG+AGG - 32540:19695-19714 None:intergenic 45.0%
! GGTCTTCCGTCTTTTACATC+AGG + 32540:21361-21380 MS.gene066344:intron 45.0%
! TGGCGGTTCGGAAGTTAATT+AGG - 32540:19605-19624 None:intergenic 45.0%
!! CATACTGCTGGACTGGTATA+TGG - 32540:20252-20271 None:intergenic 45.0%
!!! CATCACCTGAGTTTTGAGGT+TGG - 32540:19691-19710 None:intergenic 45.0%
!! AATAATTATCAAATTATATT+TGG - 32540:20179-20198 None:intergenic 5.0%
!!! AAATATATTTTAAACAATAT+GGG + 32540:20777-20796 MS.gene066344:CDS 5.0%
AACCAGTTAACCTGGCGGTT+CGG - 32540:19617-19636 None:intergenic 50.0%
ACGGCGAAAACCAGTTAACC+TGG - 32540:19625-19644 None:intergenic 50.0%
ATCTGATGATCTCTTGGCGC+TGG + 32540:19418-19437 MS.gene066344:CDS 50.0%
CTCCTACAACGGAGAAGAGA+CGG - 32540:19644-19663 None:intergenic 50.0%
CTTGACAAGGCTCAACAGAG+AGG - 32540:19817-19836 None:intergenic 50.0%
GACGGTTACATCTCCATCTG+CGG + 32540:19461-19480 MS.gene066344:CDS 50.0%
GCACCCCATCTAGTGATTCA+GGG - 32540:20230-20249 None:intergenic 50.0%
GCCGTGTTTATCTTCGACAC+TGG + 32540:20843-20862 MS.gene066344:CDS 50.0%
GCGAAAACCAGTTAACCTGG+CGG - 32540:19622-19641 None:intergenic 50.0%
GTCCTGGCAGCAAAAAGCTT+AGG + 32540:21472-21491 MS.gene066344:CDS 50.0%
! CTCTCTGTTGAGCCTTGTCA+AGG + 32540:19815-19834 MS.gene066344:CDS 50.0%
AACCGTCTACGTCACTAGGC+AGG - 32540:19448-19467 None:intergenic 55.0%
ACCGTCTACGTCACTAGGCA+GGG - 32540:19447-19466 None:intergenic 55.0%
GAGAGAACCGTAACCGCAGA+TGG - 32540:19477-19496 None:intergenic 55.0%
GGCACCCCATCTAGTGATTC+AGG - 32540:20231-20250 None:intergenic 55.0%
GGTTACGGTTCTCTCCTCTC+CGG + 32540:19482-19501 MS.gene066344:intron 55.0%
TCCCTGCCTAGTGACGTAGA+CGG + 32540:19443-19462 MS.gene066344:CDS 55.0%
TTCCGAACCGCCAGGTTAAC+TGG + 32540:19612-19631 MS.gene066344:CDS 55.0%
! CGCCTAAGCTTTTTGCTGCC+AGG - 32540:21477-21496 None:intergenic 55.0%
CGCCGTCTCTTCTCCGTTGT+AGG + 32540:19639-19658 MS.gene066344:CDS 60.0%
GTCTACGTCACTAGGCAGGG+AGG - 32540:19444-19463 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
32540 gene 19407 21636 19407 ID=MS.gene066344
32540 mRNA 19407 21636 19407 ID=MS.gene066344.t1;Parent=MS.gene066344
32540 exon 19407 19482 19407 ID=MS.gene066344.t1.exon1;Parent=MS.gene066344.t1
32540 CDS 19407 19482 19407 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
32540 exon 19574 19704 19574 ID=MS.gene066344.t1.exon2;Parent=MS.gene066344.t1
32540 CDS 19574 19704 19574 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
32540 exon 19803 19880 19803 ID=MS.gene066344.t1.exon3;Parent=MS.gene066344.t1
32540 CDS 19803 19880 19803 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
32540 exon 20063 20107 20063 ID=MS.gene066344.t1.exon4;Parent=MS.gene066344.t1
32540 CDS 20063 20107 20063 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
32540 exon 20222 20266 20222 ID=MS.gene066344.t1.exon5;Parent=MS.gene066344.t1
32540 CDS 20222 20266 20222 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
32540 exon 20414 20465 20414 ID=MS.gene066344.t1.exon6;Parent=MS.gene066344.t1
32540 CDS 20414 20465 20414 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
32540 exon 20768 20864 20768 ID=MS.gene066344.t1.exon7;Parent=MS.gene066344.t1
32540 CDS 20768 20864 20768 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
32540 exon 21471 21636 21471 ID=MS.gene066344.t1.exon8;Parent=MS.gene066344.t1
32540 CDS 21471 21636 21471 ID=cds.MS.gene066344.t1;Parent=MS.gene066344.t1
Gene Sequence

>MS.gene066344

ATGGGCGTATCATCTGATGATCTCTTGGCGCTGGCCTCCCTGCCTAGTGACGTAGACGGTTACATCTCCATCTGCGGTTACGGTTCTCTCCTCTCCGGTAACTAACTAACTAACCAACCAACTCGTCTTATTCTTTCAGCCTAATTAATCATTTCATCATTTGACAGAGAAAAGTGCAAGAAGCACGTTTCCTCACCTAATTAACTTCCGAACCGCCAGGTTAACTGGTTTTCGCCGTCTCTTCTCCGTTGTAGGAGCCTTCTTTTTCAATCATGGCATAGCCAACCTCAAAACTCAGGTGATGTCTCTTTTCCTTCCTTTTATCTCCTCCTTATTATTTGATCAATGAATTTGATTGATTAATTGCTTCAATGTTTGGGCTTATTCTCTTTGCAGGAAGTTGCTGGCCTCTCTGTTGAGCCTTGTCAAGGTGAAACCATTATAATTACTGTTTTTGATATTAAGAAATCAGAGGTATCGTTTTTTTGTTCTTAAAATATCTTCACAATCACAATTATCTACATGGTAAAATATGATCATCGAATGCATGTGTAAACCTTTTTTAGATACCAGATCAATTCTTTTTATCTATTTATTTATATAAAAAGAATAATAACTCTTGTTTTTTTTATGTATCCAATTAATTATGAAGACAGATTCCAGCATTTATCAAAAGAGAGCGCGAATATCGCTTTTTATCTGTGAGTTGTCTTTCTTTTTATGAGCAAAAATATGAAATCTAATCCTACACATATCTGCTGCAAGAGTTCCAAATATAATTTGATAATTATTATTTATACTGTCTGTCTCTGTAGGTTTTCCCTGAATCACTAGATGGGGTGCCATATACCAGTCCAGCAGTATGTTATTTTAATTCAAATGTTACATTTGTAGCTATATATTTTCCTATTCATAAATTAAGTAAATTGATTTTCTTGCTGGTTTGAATTAATTATAAGATATGATGGTTTTTTTGGTTTGATGATATTGTGGTCTCTTCAATGCAGGTCATATGTGCATCTTACAGTGATGAGGAATTCTTTAAATTTAGATGTTGCGGTAACGTTCCAACTAATTATTACTACACCAGTTCTTGTGAAATTTATTTATATGAACTGGTGATTAACTTTATTAAATAACAAAATGCATTTTCTGATACAAATTGGCATGAAGGGGATTGTTGGCTCTTTTCTGAGTATTGAATTTGACACAAGTGAATATATAAGCACAAAAATTTGCAAGCATACTTATGATAACATGCATTATATTTCCCATGCTGCTCCTAGTTAGTTGTCAGAACAATTTATAAACTATAATAATACCTTATAGCTCTGCCTTCTGTGTTTTTTTCTTTCTTGCAGAGGGAAGGGAAATATATTTTAAACAATATGGGGAATACAATATCCATAAGATTTGGCGCAATGACGTGTTACCATGCCGTGTTTATCTTCGACACTGGTCAGTAATCTTCTAAATTTCAATTAATATTACAAAAGTAATTGCTTCTGATGTGTATATTATTTATGTTTGGGGCATCTTAATATATGTTTAATTTTTCGAACAAGTGTCTAAAAGTGTGTTAATAAGCTATATTTGAAAAACAGATTTTGAGGTATAAATTACTATTATTTATAAAAAGTAAGTAAAAATATATTGACAGAGAAATGTTACAAGGGATTTGAGCTTCTGATGATCAAACTAATTCCTAATATATCTTCTATGGATTTGCACACAAACATTTTTCTGAAGATTGGGGGAGATCATTTAATTGTAATCAACTTTGAATATGATTATTGTTCTTAATTGGTATCTACTCATTGTCTTTTCATGATTTGGCTTTGTCATCGTACTATCGAAGTCGTATTGCAGGACTTGAATGTTGTTTAGTCCTTAATTCAGGAAAGAGGGTTGAATATCTCAGTTATCTAGCACACACAACTTTATGAGTCAGTTAGGTCTTCCGTCTTTTACATCAGGAGAAAGATTTCAATGAAACTAGCTTATGACTGCAATAATCCGAACAGTTATTTTGTAAAATTAACTAATGGTAATGAGTTATTGCAGTGTCCTGGCAGCAAAAAGCTTAGGCGATGAAGCTTACAATAACTTCTTGGACCATACCTTCATTGCTGATCGCAAAACAACAATTCGCAAGTACTTTGAGAAAATGGGCACAAGCATCATGGATGAAGAACCTCCTGAATCCTTAAAAACACGTTACGGAGGTTGA

Protein sequence

>MS.gene066344.t1

MGVSSDDLLALASLPSDVDGYISICEKSARSTFPHLINFRTARLTGFRRLFSVVGAFFFNHGIANLKTQEVAGLSVEPCQGETIIITVFDIKKSEIPAFIKREREYRFLSVFPESLDGVPYTSPAVICASYSDEEFFKFRCCEGREIYFKQYGEYNIHKIWRNDVLPCRVYLRHCVLAAKSLGDEAYNNFLDHTFIADRKTTIRKYFEKMGTSIMDEEPPESLKTRYGG