AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene071662


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071662.t1 MTR_1g104630 79.899 199 32 3 1 197 1 193 1.65e-109 311
MS.gene071662.t1 MTR_5g006130 70.833 216 37 3 1 197 1 209 1.18e-102 295
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene071662.t1 AT1G03130 75.145 173 30 2 38 197 32 204 2.77e-88 258
MS.gene071662.t1 AT4G02770 73.864 176 30 2 38 197 33 208 5.39e-87 255

Find 74 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTTGGGCTTTGCGTAAA+AGG 0.172350 1.2:+77718223 None:intergenic
CGACCCGGGTTCACTTTCTC+TGG 0.253150 1.2:+77717970 None:intergenic
AAGGGGTTGGTCAGAACTTT+AGG 0.293589 1.2:-77717945 MS.gene071662:CDS
ATTTCAAAGATTTGTTCTTT+TGG 0.302487 1.2:+77718171 None:intergenic
CCTTGCTAACTTGAGAAGAT+TGG 0.306141 1.2:+77718113 None:intergenic
GGTCAGAACTTTAGGTCTAT+TGG 0.344103 1.2:-77717937 MS.gene071662:CDS
AGCCTAAGACTGAGAGGGTT+TGG 0.354319 1.2:+77718372 None:intergenic
AGAGATACGGTCATTAGGTT+TGG 0.376453 1.2:+77718434 None:intergenic
CTCTTCACCCCTCCTCTCTC+TGG 0.385923 1.2:-77718459 MS.gene071662:CDS
AAAGAACAATGTTTGGCTCT+TGG 0.389124 1.2:-77718090 MS.gene071662:CDS
GGTACAGAGATACGGTCATT+AGG 0.394276 1.2:+77718429 None:intergenic
AGCAAGGAAAGAACAATGTT+TGG 0.394375 1.2:-77718097 MS.gene071662:CDS
CTTGCTAACTTGAGAAGATT+GGG 0.409133 1.2:+77718114 None:intergenic
TGGGAAACACTCTATAGAAT+TGG 0.417334 1.2:+77718034 None:intergenic
CCACTGAACTTAACCTCTAT+AGG 0.417689 1.2:+77717901 None:intergenic
GAGATACGGTCATTAGGTTT+GGG 0.426468 1.2:+77718435 None:intergenic
TCTGGGTACACACCATCCTT+AGG 0.434810 1.2:+77717988 None:intergenic
TGACCAACCCCTTGGCGACC+CGG 0.439253 1.2:+77717955 None:intergenic
TCTATAGAGTGTTTCCCAAT+GGG 0.441504 1.2:-77718029 MS.gene071662:CDS
AGAGAGAGGAGGGGTGAAGA+GGG 0.442080 1.2:+77718461 None:intergenic
ATCCAAACCCTCTCAGTCTT+AGG 0.461548 1.2:-77718374 MS.gene071662:CDS
AAGTATTGAACTTCCCCATT+GGG 0.462594 1.2:+77718015 None:intergenic
TACATAAAATTCCTCAACTT+GGG 0.465412 1.2:+77718209 None:intergenic
TAAGAATGTTAGTCCTATAG+AGG 0.473752 1.2:-77717914 MS.gene071662:CDS
GTTTGGGACCAGAGAGAGGA+GGG 0.477785 1.2:+77718451 None:intergenic
CAGAGAGAGGAGGGGTGAAG+AGG 0.479426 1.2:+77718460 None:intergenic
CAAATCTTTGAAATGCCTAC+TGG 0.482126 1.2:-77718162 MS.gene071662:CDS
ATGTTTGTGTCTTACTCAGG+TGG 0.482467 1.2:+77718279 None:intergenic
GACCCGGGTTCACTTTCTCT+GGG 0.486087 1.2:+77717971 None:intergenic
GAGAGGAGGGGTGAAGAGGG+AGG 0.499448 1.2:+77718464 None:intergenic
AAAGTGAACCCGGGTCGCCA+AGG 0.500800 1.2:-77717964 MS.gene071662:CDS
TTACATAAAATTCCTCAACT+TGG 0.508639 1.2:+77718208 None:intergenic
TCAGGTGGGGTGAAGCCAAT+TGG 0.510396 1.2:+77718294 None:intergenic
GAAGCAACAGAGGCACCAAT+TGG 0.510520 1.2:-77718309 MS.gene071662:CDS
AACCCGGGTCGCCAAGGGGT+TGG 0.516971 1.2:-77717958 MS.gene071662:CDS
GACCAACCCCTTGGCGACCC+GGG 0.524362 1.2:+77717956 None:intergenic
AATGTGGGTGATTGTTTCCA+TGG 0.524862 1.2:+77718408 None:intergenic
TTCTATAGAGTGTTTCCCAA+TGG 0.534519 1.2:-77718030 MS.gene071662:CDS
CAAGTATTGAACTTCCCCAT+TGG 0.539423 1.2:+77718014 None:intergenic
TGTTTGTGTCTTACTCAGGT+GGG 0.540009 1.2:+77718280 None:intergenic
TGGATTGGTGAAGGACAATG+TGG 0.545639 1.2:+77718392 None:intergenic
TGGCTCTTGGAACTACATTG+AGG 0.549525 1.2:-77718077 MS.gene071662:CDS
AAGTGAACCCGGGTCGCCAA+GGG 0.549528 1.2:-77717963 MS.gene071662:CDS
GTTTCCATGGTACAGAGATA+CGG 0.551001 1.2:+77718421 None:intergenic
GGTTTGGGACCAGAGAGAGG+AGG 0.559759 1.2:+77718450 None:intergenic
ATTGGGACCTTCCCTCATGA+TGG 0.564788 1.2:+77718131 None:intergenic
GTACCCAGAGAAAGTGAACC+CGG 0.564935 1.2:-77717974 MS.gene071662:CDS
GAGAGGGTTTGGATTGGTGA+AGG 0.565450 1.2:+77718383 None:intergenic
CAAAACAACAACTGTTACTG+AGG 0.567600 1.2:-77718331 MS.gene071662:CDS
TAAAGTTCTGACCAACCCCT+TGG 0.570035 1.2:+77717947 None:intergenic
AGTTCAATACTTGCATCCTA+AGG 0.578655 1.2:-77718004 MS.gene071662:CDS
GTTTGTGTCTTACTCAGGTG+GGG 0.582440 1.2:+77718281 None:intergenic
CCAATCTTCTCAAGTTAGCA+AGG 0.583877 1.2:-77718113 MS.gene071662:CDS
CAATACTTGCATCCTAAGGA+TGG 0.585635 1.2:-77718000 MS.gene071662:CDS
AAGACTGAGAGGGTTTGGAT+TGG 0.585730 1.2:+77718377 None:intergenic
CTGGTGGTGCAGCCATCATG+AGG 0.591206 1.2:-77718143 MS.gene071662:CDS
GAGGGAGGTTTGAGTTGCCG+TGG 0.592804 1.2:+77718479 None:intergenic
CCTATAGAGGTTAAGTTCAG+TGG 0.595489 1.2:-77717901 MS.gene071662:CDS
AAACCACCTCACAATGGCCA+CGG 0.601200 1.2:-77718496 None:intergenic
TTAGGTTTGGGACCAGAGAG+AGG 0.606251 1.2:+77718447 None:intergenic
TTTGGGACCAGAGAGAGGAG+GGG 0.614499 1.2:+77718452 None:intergenic
GGTGCAGCCATCATGAGGGA+AGG 0.635464 1.2:-77718138 MS.gene071662:CDS
TTGTGAGCCTAAGACTGAGA+GGG 0.636675 1.2:+77718367 None:intergenic
ATGATGGCTGCACCACCAGT+AGG 0.647307 1.2:+77718147 None:intergenic
TTTACGCAAAGCCCAAGTTG+AGG 0.649694 1.2:-77718220 MS.gene071662:CDS
CTATAGAGTGTTTCCCAATG+GGG 0.656977 1.2:-77718028 MS.gene071662:CDS
AGTGAACCCGGGTCGCCAAG+GGG 0.658596 1.2:-77717962 MS.gene071662:CDS
ATCTTTGAAATGCCTACTGG+TGG 0.664160 1.2:-77718159 MS.gene071662:CDS
TGTTACTGAGGAAGCAACAG+AGG 0.671184 1.2:-77718319 MS.gene071662:CDS
TGGTGGTGCAGCCATCATGA+GGG 0.675901 1.2:-77718142 MS.gene071662:CDS
ATTGTGAGCCTAAGACTGAG+AGG 0.683773 1.2:+77718366 None:intergenic
TACCCAGAGAAAGTGAACCC+GGG 0.686978 1.2:-77717973 MS.gene071662:CDS
ATGACCGTATCTCTGTACCA+TGG 0.695290 1.2:-77718425 MS.gene071662:CDS
GGATTGGTGAAGGACAATGT+GGG 0.717553 1.2:+77718393 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTCAAAGATTTGTTCTTT+TGG + chr1.2:77718194-77718213 None:intergenic 20.0%
! TACATAAAATTCCTCAACTT+GGG + chr1.2:77718156-77718175 None:intergenic 25.0%
! TTACATAAAATTCCTCAACT+TGG + chr1.2:77718157-77718176 None:intergenic 25.0%
!! AGGAATTTTATGTAATCACA+TGG - chr1.2:77718162-77718181 MS.gene071662:CDS 25.0%
!! GGAATTTTATGTAATCACAT+GGG - chr1.2:77718163-77718182 MS.gene071662:CDS 25.0%
TAAGAATGTTAGTCCTATAG+AGG - chr1.2:77718448-77718467 MS.gene071662:CDS 30.0%
AGCAAGGAAAGAACAATGTT+TGG - chr1.2:77718265-77718284 MS.gene071662:intron 35.0%
AGTTCAATACTTGCATCCTA+AGG - chr1.2:77718358-77718377 MS.gene071662:CDS 35.0%
CAAAACAACAACTGTTACTG+AGG - chr1.2:77718031-77718050 MS.gene071662:CDS 35.0%
CTTGCTAACTTGAGAAGATT+GGG + chr1.2:77718251-77718270 None:intergenic 35.0%
TGGGAAACACTCTATAGAAT+TGG + chr1.2:77718331-77718350 None:intergenic 35.0%
! TCTATAGAGTGTTTCCCAAT+GGG - chr1.2:77718333-77718352 MS.gene071662:CDS 35.0%
! TTCTATAGAGTGTTTCCCAA+TGG - chr1.2:77718332-77718351 MS.gene071662:CDS 35.0%
!! AAAGAACAATGTTTGGCTCT+TGG - chr1.2:77718272-77718291 MS.gene071662:intron 35.0%
!! AAGTATTGAACTTCCCCATT+GGG + chr1.2:77718350-77718369 None:intergenic 35.0%
!! CAAATCTTTGAAATGCCTAC+TGG - chr1.2:77718200-77718219 MS.gene071662:CDS 35.0%
AATGTGGGTGATTGTTTCCA+TGG + chr1.2:77717957-77717976 None:intergenic 40.0%
AGAGATACGGTCATTAGGTT+TGG + chr1.2:77717931-77717950 None:intergenic 40.0%
AGTACTGCCACTGAAAATTG+GGG + chr1.2:77718114-77718133 None:intergenic 40.0%
ATGTTTGTGTCTTACTCAGG+TGG + chr1.2:77718086-77718105 None:intergenic 40.0%
CAATACTTGCATCCTAAGGA+TGG - chr1.2:77718362-77718381 MS.gene071662:CDS 40.0%
CAGTACTGCCACTGAAAATT+GGG + chr1.2:77718115-77718134 None:intergenic 40.0%
CCAATCTTCTCAAGTTAGCA+AGG - chr1.2:77718249-77718268 MS.gene071662:intron 40.0%
CCACTGAACTTAACCTCTAT+AGG + chr1.2:77718464-77718483 None:intergenic 40.0%
CCTATAGAGGTTAAGTTCAG+TGG - chr1.2:77718461-77718480 MS.gene071662:CDS 40.0%
CCTTGCTAACTTGAGAAGAT+TGG + chr1.2:77718252-77718271 None:intergenic 40.0%
GAGATACGGTCATTAGGTTT+GGG + chr1.2:77717930-77717949 None:intergenic 40.0%
GGAATGTTTGTGTCTTACTC+AGG + chr1.2:77718089-77718108 None:intergenic 40.0%
GGTCAGAACTTTAGGTCTAT+TGG - chr1.2:77718425-77718444 MS.gene071662:CDS 40.0%
GTTTCCATGGTACAGAGATA+CGG + chr1.2:77717944-77717963 None:intergenic 40.0%
TGTTTGTGTCTTACTCAGGT+GGG + chr1.2:77718085-77718104 None:intergenic 40.0%
! CTATAGAGTGTTTCCCAATG+GGG - chr1.2:77718334-77718353 MS.gene071662:CDS 40.0%
!! ATCTTTGAAATGCCTACTGG+TGG - chr1.2:77718203-77718222 MS.gene071662:CDS 40.0%
!! CAAGTATTGAACTTCCCCAT+TGG + chr1.2:77718351-77718370 None:intergenic 40.0%
AAGACTGAGAGGGTTTGGAT+TGG + chr1.2:77717988-77718007 None:intergenic 45.0%
ATCCAAACCCTCTCAGTCTT+AGG - chr1.2:77717988-77718007 MS.gene071662:CDS 45.0%
ATGACCGTATCTCTGTACCA+TGG - chr1.2:77717937-77717956 MS.gene071662:CDS 45.0%
ATTGTGAGCCTAAGACTGAG+AGG + chr1.2:77717999-77718018 None:intergenic 45.0%
CAACTTGGGCTTTGCGTAAA+AGG + chr1.2:77718142-77718161 None:intergenic 45.0%
CCAGTACTGCCACTGAAAAT+TGG + chr1.2:77718116-77718135 None:intergenic 45.0%
GGTACAGAGATACGGTCATT+AGG + chr1.2:77717936-77717955 None:intergenic 45.0%
GTTTGTGTCTTACTCAGGTG+GGG + chr1.2:77718084-77718103 None:intergenic 45.0%
TGGCTCTTGGAACTACATTG+AGG - chr1.2:77718285-77718304 MS.gene071662:intron 45.0%
TGTTACTGAGGAAGCAACAG+AGG - chr1.2:77718043-77718062 MS.gene071662:CDS 45.0%
TTGTGAGCCTAAGACTGAGA+GGG + chr1.2:77717998-77718017 None:intergenic 45.0%
TTTACGCAAAGCCCAAGTTG+AGG - chr1.2:77718142-77718161 MS.gene071662:CDS 45.0%
! ATTCCCTCCCCAATTTTCAG+TGG - chr1.2:77718104-77718123 MS.gene071662:CDS 45.0%
! CCAATTTTCAGTGGCAGTAC+TGG - chr1.2:77718113-77718132 MS.gene071662:CDS 45.0%
! GGATTGGTGAAGGACAATGT+GGG + chr1.2:77717972-77717991 None:intergenic 45.0%
! TAAAGTTCTGACCAACCCCT+TGG + chr1.2:77718418-77718437 None:intergenic 45.0%
!! AAGGGGTTGGTCAGAACTTT+AGG - chr1.2:77718417-77718436 MS.gene071662:CDS 45.0%
!! ATTTTCAGTGGCAGTACTGG+AGG - chr1.2:77718116-77718135 MS.gene071662:CDS 45.0%
!! TGGATTGGTGAAGGACAATG+TGG + chr1.2:77717973-77717992 None:intergenic 45.0%
ACTGCCACTGAAAATTGGGG+AGG + chr1.2:77718111-77718130 None:intergenic 50.0%
AGCCTAAGACTGAGAGGGTT+TGG + chr1.2:77717993-77718012 None:intergenic 50.0%
ATTGGGACCTTCCCTCATGA+TGG + chr1.2:77718234-77718253 None:intergenic 50.0%
CTGCCACTGAAAATTGGGGA+GGG + chr1.2:77718110-77718129 None:intergenic 50.0%
GTACCCAGAGAAAGTGAACC+CGG - chr1.2:77718388-77718407 MS.gene071662:CDS 50.0%
TACCCAGAGAAAGTGAACCC+GGG - chr1.2:77718389-77718408 MS.gene071662:CDS 50.0%
TCTGGGTACACACCATCCTT+AGG + chr1.2:77718377-77718396 None:intergenic 50.0%
! TTAGGTTTGGGACCAGAGAG+AGG + chr1.2:77717918-77717937 None:intergenic 50.0%
!! GAAGCAACAGAGGCACCAAT+TGG - chr1.2:77718053-77718072 MS.gene071662:CDS 50.0%
!! GAGAGGGTTTGGATTGGTGA+AGG + chr1.2:77717982-77718001 None:intergenic 50.0%
AGAGAGAGGAGGGGTGAAGA+GGG + chr1.2:77717904-77717923 None:intergenic 55.0%
ATGATGGCTGCACCACCAGT+AGG + chr1.2:77718218-77718237 None:intergenic 55.0%
GACCCGGGTTCACTTTCTCT+GGG + chr1.2:77718394-77718413 None:intergenic 55.0%
TCAGGTGGGGTGAAGCCAAT+TGG + chr1.2:77718071-77718090 None:intergenic 55.0%
! GTTTGGGACCAGAGAGAGGA+GGG + chr1.2:77717914-77717933 None:intergenic 55.0%
! TGGTGGTGCAGCCATCATGA+GGG - chr1.2:77718220-77718239 MS.gene071662:CDS 55.0%
! TTTGGGACCAGAGAGAGGAG+GGG + chr1.2:77717913-77717932 None:intergenic 55.0%
AAAGTGAACCCGGGTCGCCA+AGG - chr1.2:77718398-77718417 MS.gene071662:CDS 60.0%
AAGTGAACCCGGGTCGCCAA+GGG - chr1.2:77718399-77718418 MS.gene071662:CDS 60.0%
CAGAGAGAGGAGGGGTGAAG+AGG + chr1.2:77717905-77717924 None:intergenic 60.0%
CGACCCGGGTTCACTTTCTC+TGG + chr1.2:77718395-77718414 None:intergenic 60.0%
CTCTTCACCCCTCCTCTCTC+TGG - chr1.2:77717903-77717922 MS.gene071662:CDS 60.0%
GGTGCAGCCATCATGAGGGA+AGG - chr1.2:77718224-77718243 MS.gene071662:CDS 60.0%
! CTGGTGGTGCAGCCATCATG+AGG - chr1.2:77718219-77718238 MS.gene071662:CDS 60.0%
! GGTTTGGGACCAGAGAGAGG+AGG + chr1.2:77717915-77717934 None:intergenic 60.0%
!! GAGGGAGGTTTGAGTTGCCG+TGG + chr1.2:77717886-77717905 None:intergenic 60.0%
AGTGAACCCGGGTCGCCAAG+GGG - chr1.2:77718400-77718419 MS.gene071662:CDS 65.0%
GAGAGGAGGGGTGAAGAGGG+AGG + chr1.2:77717901-77717920 None:intergenic 65.0%
TGACCAACCCCTTGGCGACC+CGG + chr1.2:77718410-77718429 None:intergenic 65.0%
AACCCGGGTCGCCAAGGGGT+TGG - chr1.2:77718404-77718423 MS.gene071662:CDS 70.0%
GACCAACCCCTTGGCGACCC+GGG + chr1.2:77718409-77718428 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 77717879 77718505 77717879 ID=MS.gene071662
chr1.2 mRNA 77717879 77718505 77717879 ID=MS.gene071662.t1;Parent=MS.gene071662
chr1.2 exon 77718294 77718505 77718294 ID=MS.gene071662.t1.exon1;Parent=MS.gene071662.t1
chr1.2 CDS 77718294 77718505 77718294 ID=cds.MS.gene071662.t1;Parent=MS.gene071662.t1
chr1.2 exon 77717879 77718260 77717879 ID=MS.gene071662.t1.exon2;Parent=MS.gene071662.t1
chr1.2 CDS 77717879 77718260 77717879 ID=cds.MS.gene071662.t1;Parent=MS.gene071662.t1
Gene Sequence

>MS.gene071662

ATGGCCACGGCAACTCAAACCTCCCTCTTCACCCCTCCTCTCTCTGGTCCCAAACCTAATGACCGTATCTCTGTACCATGGAAACAATCACCCACATTGTCCTTCACCAATCCAAACCCTCTCAGTCTTAGGCTCACAATTTCAAGAAACATCAAAACAACAACTGTTACTGAGGAAGCAACAGAGGCACCAATTGGCTTCACCCCACCTGAGTAAGACACAAACATTCCCTCCCCAATTTTCAGTGGCAGTACTGGAGGCCTTTTACGCAAAGCCCAAGTTGAGGAATTTTATGTAATCACATGGGATTCACCAAAAGAACAAATCTTTGAAATGCCTACTGGTGGTGCAGCCATCATGAGGGAAGGTCCCAATCTTCTCAAGTTAGCAAGGAAAGAACAATGTTTGGCTCTTGGAACTACATTGAGGTCAAAGTACAAGATCAAGTACCAATTCTATAGAGTGTTTCCCAATGGGGAAGTTCAATACTTGCATCCTAAGGATGGTGTGTACCCAGAGAAAGTGAACCCGGGTCGCCAAGGGGTTGGTCAGAACTTTAGGTCTATTGGTAAGAATGTTAGTCCTATAGAGGTTAAGTTCAGTGGCAAGCAAGTGCATGAATTGTGA

Protein sequence

>MS.gene071662.t1

MATATQTSLFTPPLSGPKPNDRISVPWKQSPTLSFTNPNPLSLRLTISRNIKTTTVTEEATEAPIGFTPPDGSTGGLLRKAQVEEFYVITWDSPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTTLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGQNFRSIGKNVSPIEVKFSGKQVHEL