AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016229.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016229.01.T01 MTR_3g086040 96.930 228 6 1 1 228 1 227 1.08e-165 456
MsG0380016229.01.T01 MTR_3g086040 96.970 165 4 1 1 165 1 164 3.40e-118 335
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016229.01.T01 AT1G67700 70.085 234 60 5 1 228 1 230 1.76e-112 322
MsG0380016229.01.T01 AT1G67700 70.085 234 60 5 1 228 1 230 1.76e-112 322
MsG0380016229.01.T01 AT1G67700 70.085 234 60 5 1 228 1 230 2.73e-112 321
MsG0380016229.01.T01 AT1G67700 70.085 234 60 5 1 228 1 230 2.73e-112 321
MsG0380016229.01.T01 AT1G67700 69.658 234 60 6 1 228 1 229 1.04e-109 315

Find 0 sgRNAs with CRISPR-Local

Find 150 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
!! AAATATATGTATTGAAATAT+AGG - Chr3:80725560-80725579 None:intergenic 10.0%
!! AAATTAATGAAAAAAAAGTT+AGG - Chr3:80724411-80724430 None:intergenic 10.0%
!! AATTAATGAAAAAAAAGTTA+GGG - Chr3:80724410-80724429 None:intergenic 10.0%
!!! TTTAAATGTTCATAATTTTA+TGG + Chr3:80725060-80725079 MsG0380016229.01.T01:intron 10.0%
!! AAAAAAAAAAATATCGAGAA+TGG + Chr3:80724476-80724495 MsG0380016229.01.T01:intron 15.0%
!! AAAAAAAAAATATCGAGAAT+GGG + Chr3:80724477-80724496 MsG0380016229.01.T01:intron 15.0%
!! ATTAATGAAAAAAAAGTTAG+GGG - Chr3:80724409-80724428 None:intergenic 15.0%
!! ATTTATGAAATATGATAGAT+AGG + Chr3:80725912-80725931 MsG0380016229.01.T01:intron 15.0%
!! TAATAACTATACAGAAATAA+TGG + Chr3:80725839-80725858 MsG0380016229.01.T01:intron 15.0%
!! TATGAACATTTAAAAAATCA+TGG - Chr3:80725054-80725073 None:intergenic 15.0%
!! AAAAAAAAATATCGAGAATG+GGG + Chr3:80724478-80724497 MsG0380016229.01.T01:intron 20.0%
!! ACAAATAAAAGTTCAGTTTA+AGG - Chr3:80725716-80725735 None:intergenic 20.0%
!! ACTCTATTAAACTTTCAAAT+TGG + Chr3:80724885-80724904 MsG0380016229.01.T01:intron 20.0%
!! TCTTGGCAAATTTATTTATA+AGG + Chr3:80724333-80724352 MsG0380016229.01.T01:CDS 20.0%
!!! AATCTCTACAATTTTCAATT+AGG - Chr3:80726113-80726132 None:intergenic 20.0%
!!! ATCTCTACAATTTTCAATTA+GGG - Chr3:80726112-80726131 None:intergenic 20.0%
!!! ATGCTTTCTTTTTAGTTATA+AGG + Chr3:80726186-80726205 MsG0380016229.01.T01:intron 20.0%
!!! TTTACCTTCAAGATAATTTT+AGG + Chr3:80724750-80724769 MsG0380016229.01.T01:intron 20.0%
! AAAACTTAAACTCTAATGTC+CGG - Chr3:80724657-80724676 None:intergenic 25.0%
! AAAGTTAAGCACTAATATAG+TGG - Chr3:80724811-80724830 None:intergenic 25.0%
! ACACAAATAATCATCAACAA+CGG - Chr3:80724572-80724591 None:intergenic 25.0%
! ATAGACAACGGATAAAATTT+CGG + Chr3:80725234-80725253 MsG0380016229.01.T01:intron 25.0%
! ATATTAGTGCTTAACTTTGT+AGG + Chr3:80724813-80724832 MsG0380016229.01.T01:intron 25.0%
! TATTAGTGCTTAACTTTGTA+GGG + Chr3:80724814-80724833 MsG0380016229.01.T01:intron 25.0%
! TATTTAAAGACAATACTCCA+AGG + Chr3:80726009-80726028 MsG0380016229.01.T01:intron 25.0%
!! AAGATCAAATTGATAGTAAG+TGG - Chr3:80724953-80724972 None:intergenic 25.0%
!! GATAAAGTGAAAGACTTTTT+CGG + Chr3:80726322-80726341 MsG0380016229.01.T01:CDS 25.0%
!! TTTTTCTTGGTTATGTATGT+TGG + Chr3:80725386-80725405 MsG0380016229.01.T01:intron 25.0%
!!! CTATTTAAAGACTTGCTAAT+AGG + Chr3:80726032-80726051 MsG0380016229.01.T01:intron 25.0%
!!! GGTTCTTTTTCATAATATTG+AGG + Chr3:80726207-80726226 MsG0380016229.01.T01:intron 25.0%
!!! TAGGGATATTTTTGTTATGA+TGG - Chr3:80726094-80726113 None:intergenic 25.0%
!!! TTTTGTTATGATGGTTGTTT+AGG - Chr3:80726085-80726104 None:intergenic 25.0%
!!! TTTTTCAGATTATGAATTGC+AGG + Chr3:80725630-80725649 MsG0380016229.01.T01:intron 25.0%
AAAAGTTACATGAACAACCA+GGG - Chr3:80725814-80725833 None:intergenic 30.0%
AAGGTAAAGTCATTCATGTT+TGG - Chr3:80724738-80724757 None:intergenic 30.0%
AGAAATTAGAGTCTCCATAA+TGG - Chr3:80725342-80725361 None:intergenic 30.0%
ATACCAAGCAGTTAAATACA+TGG - Chr3:80724912-80724931 None:intergenic 30.0%
CAAGTTAGAATCAATTCTAG+AGG - Chr3:80724631-80724650 None:intergenic 30.0%
CACAAATAATCATCAACAAC+GGG - Chr3:80724571-80724590 None:intergenic 30.0%
GAACTACGTGTATGAAAATA+CGG + Chr3:80725174-80725193 MsG0380016229.01.T01:intron 30.0%
GACTAAATTCATAATAAGCG+CGG - Chr3:80724985-80725004 None:intergenic 30.0%
GTATGGCTAATGTTTATCTT+TGG + Chr3:80724245-80724264 MsG0380016229.01.T01:CDS 30.0%
TATCCTCTTAGTATTGTTTC+TGG + Chr3:80724268-80724287 MsG0380016229.01.T01:CDS 30.0%
TCAATTCAAATAGGATGAGA+AGG + Chr3:80725449-80725468 MsG0380016229.01.T01:intron 30.0%
TCACATTGATGTTAGTCAAA+TGG - Chr3:80725134-80725153 None:intergenic 30.0%
TCACTGAATTCATCTTCAAT+TGG - Chr3:80725588-80725607 None:intergenic 30.0%
TCTCTTGCCATAATTATAGT+TGG - Chr3:80725207-80725226 None:intergenic 30.0%
TGTGTGACCAACTATAATTA+TGG + Chr3:80725197-80725216 MsG0380016229.01.T01:intron 30.0%
TTAAACCTTATACCGCATTA+GGG + Chr3:80725755-80725774 MsG0380016229.01.T01:intron 30.0%
TTAGGGGAAAAAATCTTACT+CGG - Chr3:80724393-80724412 None:intergenic 30.0%
TTTAAACCTTATACCGCATT+AGG + Chr3:80725754-80725773 MsG0380016229.01.T01:intron 30.0%
TTTCTATTCCATTCAATTCC+CGG - Chr3:80725883-80725902 None:intergenic 30.0%
! AATAATGGAAACTGTCTGTT+AGG + Chr3:80725854-80725873 MsG0380016229.01.T01:intron 30.0%
! AATTGATTCTAACTTGAAGC+CGG + Chr3:80724635-80724654 MsG0380016229.01.T01:intron 30.0%
! ACCTTCAAGATAATTTTAGG+CGG + Chr3:80724753-80724772 MsG0380016229.01.T01:intron 30.0%
! AGAGACTTTTTGATAGACAA+CGG + Chr3:80725222-80725241 MsG0380016229.01.T01:intron 30.0%
! GCTGCTAAAGATAATTTTCT+TGG + Chr3:80724316-80724335 MsG0380016229.01.T01:CDS 30.0%
! TGAGCTCTTTTTAACCATTA+TGG + Chr3:80725325-80725344 MsG0380016229.01.T01:intron 30.0%
! TTTGAGATATTCACAATCTC+AGG - Chr3:80724855-80724874 None:intergenic 30.0%
!! AGAGTATTGTCTATTGTGAA+GGG - Chr3:80725964-80725983 None:intergenic 30.0%
!! TAGAGTATTGTCTATTGTGA+AGG - Chr3:80725965-80725984 None:intergenic 30.0%
!!! ATGATGAGCATGTTTTTTCT+TGG + Chr3:80725373-80725392 MsG0380016229.01.T01:intron 30.0%
!!! GCTACAGTTTTTAGTTTATC+TGG - Chr3:80726301-80726320 None:intergenic 30.0%
!!! GTTTTTAGTTTATCTGGTGT+AGG - Chr3:80726295-80726314 None:intergenic 30.0%
AAATTCGTCCCTGACTTTAT+AGG - Chr3:80725100-80725119 None:intergenic 35.0%
AATTCGTCCCTGACTTTATA+GGG - Chr3:80725099-80725118 None:intergenic 35.0%
ACTTTATAGGGCTCTCAAAT+AGG - Chr3:80725087-80725106 None:intergenic 35.0%
AGCAAGTCTTTAAATAGCCT+TGG - Chr3:80726029-80726048 None:intergenic 35.0%
CTGCTTGCTTCAATTCAAAT+AGG + Chr3:80725440-80725459 MsG0380016229.01.T01:intron 35.0%
GAAAAGTTACATGAACAACC+AGG - Chr3:80725815-80725834 None:intergenic 35.0%
GAACATATATGTCCCTAATG+CGG - Chr3:80725770-80725789 None:intergenic 35.0%
GATTATGAATTGCAGGAGAA+TGG + Chr3:80725637-80725656 MsG0380016229.01.T01:intron 35.0%
GTTGAAGCAAAGGGTAAAAA+AGG + Chr3:80724133-80724152 MsG0380016229.01.T01:CDS 35.0%
TATCACCTCAATAACATCAC+TGG - Chr3:80725686-80725705 None:intergenic 35.0%
TCCGCCTAAAATTATCTTGA+AGG - Chr3:80724757-80724776 None:intergenic 35.0%
TGGTACCACTGCTAAAATTA+TGG + Chr3:80724291-80724310 MsG0380016229.01.T01:CDS 35.0%
TGTTATGATGGTTGTTTAGG+TGG - Chr3:80726082-80726101 None:intergenic 35.0%
TTACCCAAAATTGAAGACGA+CGG + Chr3:80724196-80724215 MsG0380016229.01.T01:CDS 35.0%
TTCTACCAGTGATGTTATTG+AGG + Chr3:80725678-80725697 MsG0380016229.01.T01:CDS 35.0%
TTCTATTCCATTCAATTCCC+GGG - Chr3:80725882-80725901 None:intergenic 35.0%
! ATTACCGTCGTCTTCAATTT+TGG - Chr3:80724203-80724222 None:intergenic 35.0%
! GAGTATTGTCTATTGTGAAG+GGG - Chr3:80725963-80725982 None:intergenic 35.0%
! TGTATGTTGGTTATGCATGT+TGG + Chr3:80725399-80725418 MsG0380016229.01.T01:intron 35.0%
! TTACCGTCGTCTTCAATTTT+GGG - Chr3:80724202-80724221 None:intergenic 35.0%
!! AGCAACCATAATTTTAGCAG+TGG - Chr3:80724299-80724318 None:intergenic 35.0%
!! TAACGATGTTATTTCCCCAA+AGG - Chr3:80726362-80726381 None:intergenic 35.0%
!! TAGGTGGTTAGTTTGTTATG+TGG - Chr3:80726066-80726085 None:intergenic 35.0%
!! TCGTCTTCAATTTTGGGTAA+AGG - Chr3:80724196-80724215 None:intergenic 35.0%
!! TCTTCAATTTTGGGTAAAGG+AGG - Chr3:80724193-80724212 None:intergenic 35.0%
!!! AGACTTTTTCGGAGATGTAA+AGG + Chr3:80726333-80726352 MsG0380016229.01.T01:CDS 35.0%
AAAGTCAGGGACGAATTTGA+TGG + Chr3:80725102-80725121 MsG0380016229.01.T01:intron 40.0%
AAGCAGTGAGTAACAAAGAC+AGG - Chr3:80725426-80725445 None:intergenic 40.0%
AATCATCAACAACGGGCATT+TGG - Chr3:80724564-80724583 None:intergenic 40.0%
ACAACACCGTGTACTAAAGT+CGG + Chr3:80725494-80725513 MsG0380016229.01.T01:CDS 40.0%
AGATGTAAAGGAGTCCTTTG+GGG + Chr3:80726345-80726364 MsG0380016229.01.T01:CDS 40.0%
AGTACAACATAGAAGAACCC+TGG + Chr3:80725794-80725813 MsG0380016229.01.T01:intron 40.0%
AGTGGTATGATTCTCGCTTA+GGG - Chr3:80724538-80724557 None:intergenic 40.0%
ATTCGTCGTCTTCATTCGTA+TGG + Chr3:80724228-80724247 MsG0380016229.01.T01:CDS 40.0%
CCACCAGAAACAATACTAAG+AGG - Chr3:80724274-80724293 None:intergenic 40.0%
CGAATGAAGACGACGAATTT+AGG - Chr3:80724226-80724245 None:intergenic 40.0%
GAGATGTAAAGGAGTCCTTT+GGG + Chr3:80726344-80726363 MsG0380016229.01.T01:CDS 40.0%
GGTCCATGTATTTAACTGCT+TGG + Chr3:80724906-80724925 MsG0380016229.01.T01:intron 40.0%
GTCTTGGTTGTTGAAGCAAA+GGG + Chr3:80724124-80724143 MsG0380016229.01.T01:CDS 40.0%
TAGTGGTATGATTCTCGCTT+AGG - Chr3:80724539-80724558 None:intergenic 40.0%
TATGTCCCTAATGCGGTATA+AGG - Chr3:80725763-80725782 None:intergenic 40.0%
TCGGCTACTGAATTCAGATA+TGG + Chr3:80725513-80725532 MsG0380016229.01.T01:CDS 40.0%
TGAATCTTCCTCTGACTCAT+CGG - Chr3:80726395-80726414 None:intergenic 40.0%
TTGAGAGCCCTATAAAGTCA+GGG + Chr3:80725089-80725108 MsG0380016229.01.T01:intron 40.0%
TTTGAGAGCCCTATAAAGTC+AGG + Chr3:80725088-80725107 MsG0380016229.01.T01:intron 40.0%
! TTTGTAGGGTGCTCTCAAAT+AGG + Chr3:80724828-80724847 MsG0380016229.01.T01:intron 40.0%
!! CCTCTTAGTATTGTTTCTGG+TGG + Chr3:80724271-80724290 MsG0380016229.01.T01:CDS 40.0%
!! TCAATTTTGGGTAAAGGAGG+AGG - Chr3:80724190-80724209 None:intergenic 40.0%
AAACTGTCTGTTAGGAACCC+GGG + Chr3:80725862-80725881 MsG0380016229.01.T01:intron 45.0%
AGGTCCCGAGTTCAATTCAT+GGG - Chr3:80724509-80724528 None:intergenic 45.0%
AGTGCTTCACAGAGTCAACA+GGG - Chr3:80725007-80725026 None:intergenic 45.0%
ATGCCCCATGAATTGAACTC+GGG + Chr3:80724502-80724521 MsG0380016229.01.T01:intron 45.0%
ATTGTGAAGGGGAAAACCCT+TGG - Chr3:80725952-80725971 None:intergenic 45.0%
CACTATCAAGTTCAAGCTCC+AGG + Chr3:80724026-80724045 MsG0380016229.01.T01:CDS 45.0%
CATGCCCCATGAATTGAACT+CGG + Chr3:80724501-80724520 MsG0380016229.01.T01:intron 45.0%
CGTCTTGGTTGTTGAAGCAA+AGG + Chr3:80724123-80724142 MsG0380016229.01.T01:CDS 45.0%
CTGGAGCTTGAACTTGATAG+TGG - Chr3:80724028-80724047 None:intergenic 45.0%
GAAACTGTCTGTTAGGAACC+CGG + Chr3:80725861-80725880 MsG0380016229.01.T01:intron 45.0%
GGAGATGTAAAGGAGTCCTT+TGG + Chr3:80726343-80726362 MsG0380016229.01.T01:CDS 45.0%
TAGTGCTTCACAGAGTCAAC+AGG - Chr3:80725008-80725027 None:intergenic 45.0%
TCTGGGGAATTGTCTTGGAA+TGG - Chr3:80724074-80724093 None:intergenic 45.0%
TTAGGAACCCGGGAATTGAA+TGG + Chr3:80725872-80725891 MsG0380016229.01.T01:intron 45.0%
TTGCTTCAACAACCAAGACG+TGG - Chr3:80724123-80724142 None:intergenic 45.0%
! CAGTAGCCGACTTTAGTACA+CGG - Chr3:80725503-80725522 None:intergenic 45.0%
! TGATGTTGGCGTTGAGTTCT+GGG - Chr3:80724091-80724110 None:intergenic 45.0%
!! ATTTTGGGTAAAGGAGGAGG+AGG - Chr3:80724187-80724206 None:intergenic 45.0%
!! GAGCTTGAACTTGATAGTGG+TGG - Chr3:80724025-80724044 None:intergenic 45.0%
!! TGAGTTCTGGGGAATTGTCT+TGG - Chr3:80724079-80724098 None:intergenic 45.0%
ACAACGGGCATTTGGTCTAG+TGG - Chr3:80724556-80724575 None:intergenic 50.0%
AGGAGAGAATCTCCACTCCA+AGG + Chr3:80725932-80725951 MsG0380016229.01.T01:intron 50.0%
CTTCAACAACCAAGACGTGG+TGG - Chr3:80724120-80724139 None:intergenic 50.0%
GAGGTCCCGAGTTCAATTCA+TGG - Chr3:80724510-80724529 None:intergenic 50.0%
GGAGAGAATCTCCACTCCAA+GGG + Chr3:80725933-80725952 MsG0380016229.01.T01:intron 50.0%
GGTCCCGAGTTCAATTCATG+GGG - Chr3:80724508-80724527 None:intergenic 50.0%
TACTGCTACCGATGAGTCAG+AGG + Chr3:80726384-80726403 MsG0380016229.01.T01:CDS 50.0%
TGGAGAAGAGTGAGTCGTTG+TGG - Chr3:80724054-80724073 None:intergenic 50.0%
TGGTGTAGGAAGCTGCAAGT+TGG - Chr3:80726281-80726300 None:intergenic 50.0%
! GATGTTGGCGTTGAGTTCTG+GGG - Chr3:80724090-80724109 None:intergenic 50.0%
! GTGATGTTGGCGTTGAGTTC+TGG - Chr3:80724092-80724111 None:intergenic 50.0%
ATTCTCGCTTAGGGTGCGAG+AGG - Chr3:80724529-80724548 None:intergenic 55.0%
CAACAACCAAGACGTGGTGG+TGG - Chr3:80724117-80724136 None:intergenic 55.0%
GAAGGGGAAAACCCTTGGAG+TGG - Chr3:80725947-80725966 None:intergenic 55.0%
GAGTGAGTCGTTGTGGAACC+TGG - Chr3:80724047-80724066 None:intergenic 55.0%
TCACCACCACCACCACGTCT+TGG + Chr3:80724108-80724127 MsG0380016229.01.T01:CDS 60.0%
!! CAACCAAGACGTGGTGGTGG+TGG - Chr3:80724114-80724133 None:intergenic 60.0%
!! CGTGGTGGTGGTGGTGATGT+TGG - Chr3:80724105-80724124 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 80723986 80726432 80723986 ID=MsG0380016229.01;
Chr3 mRNA 80723986 80726432 80723986 ID=MsG0380016229.01.T01;Parent=MsG0380016229.01
Chr3 CDS 80723986 80724393 80723986 ID=MsG0380016229.01.T01.cds;Parent=MsG0380016229.01.T01
Chr3 CDS 80725462 80725548 80725462 ID=MsG0380016229.01.T01.cds;Parent=MsG0380016229.01.T01
Chr3 CDS 80725652 80725699 80725652 ID=MsG0380016229.01.T01.cds;Parent=MsG0380016229.01.T01
Chr3 CDS 80726289 80726432 80726289 ID=MsG0380016229.01.T01.cds;Parent=MsG0380016229.01.T01
Gene Sequence

>MsG0380016229.01.T01

ATGGAAGTAGGAATGTCGTTGAACGCACTGATTCATCCACCACTATCAAGTTCAAGCTCCAGGTTCCACAACGACTCACTCTTCTCCATTCCAAGACAATTCCCCAGAACTCAACGCCAACATCACCACCACCACCACGTCTTGGTTGTTGAAGCAAAGGGTAAAAAAGGAATGATGTCTCGTCAATATCAACGTCAACCTCCTCCTCCTTTACCCAAAATTGAAGACGACGGTAATCCTAAATTCGTCGTCTTCATTCGTATGGCTAATGTTTATCTTTGGTATCCTCTTAGTATTGTTTCTGGTGGTACCACTGCTAAAATTATGGTTGCTGCTAAAGATAATTTTCTTGGCAAATTTATTTATAAGGATACTCTTGATCGAAATCTTGCTGCTGTTATCTACCGAGATGAGAAGGAGATACAGAAATCTGCATTCAAACAACACCGTGTACTAAAGTCGGCTACTGAATTCAGATATGGCTACAAACTTGTTGAGAATGGCAATGTAAAAGCTGCACTTTCTACCAGTGATGTTATTGAGCTTCCTACACCAGATAAACTAAAAACTGTAGCTGATAAAGTGAAAGACTTTTTCGGAGATGTAAAGGAGTCCTTTGGGGAAATAACATCGTTAGTTACTGCTACCGATGAGTCAGAGGAAGATTCAAAAGAAAAAACTAAGTGA

Protein sequence

>MsG0380016229.01.T01

MEVGMSLNALIHPPLSSSSSRFHNDSLFSIPRQFPRTQRQHHHHHHVLVVEAKGKKGMMSRQYQRQPPPPLPKIEDDGNPKFVVFIRMANVYLWYPLSIVSGGTTAKIMVAAKDNFLGKFIYKDTLDRNLAAVIYRDEKEIQKSAFKQHRVLKSATEFRYGYKLVENGNVKAALSTSDVIELPTPDKLKTVADKVKDFFGDVKESFGEITSLVTATDESEEDSKEKTK*