AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08894


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08894.t1 MTR_8g080020 94.569 313 13 2 1 310 1 312 0.0 594
MS.gene08894.t1 MTR_2g088950 40.574 244 125 6 75 304 103 340 5.93e-54 179
MS.gene08894.t1 MTR_2g437670 40.574 244 125 6 75 304 103 340 8.35e-54 179
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08894.t1 AT1G67660 65.934 273 81 3 49 309 33 305 4.97e-134 382
MS.gene08894.t1 AT1G67660 65.934 273 81 3 49 309 62 334 1.03e-133 383
MS.gene08894.t1 AT1G67660 65.934 273 81 3 49 309 83 355 1.33e-133 383
MS.gene08894.t1 AT1G13810 36.032 247 138 5 75 306 60 301 2.54e-47 161

Find 69 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATTACATGCCTCAAGTTC+AGG 0.257165 4.3:-16739094 MS.gene08894:CDS
TCAGGGTCAAATGGAGATTA+TGG 0.260537 4.3:-16739076 MS.gene08894:CDS
AGTTAAGTGTCCTTATAATA+AGG 0.269945 4.3:-16739157 MS.gene08894:CDS
TTGTTAGAAATCGTGAATAT+TGG 0.278665 4.3:-16738996 MS.gene08894:CDS
TTCAAAGAAATGCTATGAAT+TGG 0.293866 4.3:-16739329 MS.gene08894:CDS
TTAGTACTGCATTAGGGTTT+TGG 0.302003 4.3:-16739422 MS.gene08894:CDS
TGTTCTTGGTACCGGAATAT+TGG 0.306883 4.3:-16739181 MS.gene08894:CDS
TCAGGCTTACCCTTATTATA+AGG 0.309587 4.3:+16739147 None:intergenic
GCAAGGGAAGCTTTGTTGTT+GGG 0.320750 4.3:-16738922 MS.gene08894:CDS
AACAACAAAGCTTCCCTTGC+CGG 0.337209 4.3:+16738925 None:intergenic
ATGGGATTCTCAGAGAGTTT+TGG 0.342835 4.3:-16738963 MS.gene08894:CDS
TCAAAGAAATGCTATGAATT+GGG 0.356628 4.3:-16739328 MS.gene08894:CDS
AGCACATTTAGTACTGCATT+AGG 0.371913 4.3:-16739429 MS.gene08894:CDS
GCGTCGCCTGACGGTGTTCT+TGG 0.374201 4.3:-16739195 MS.gene08894:CDS
TGTTAGAAATCGTGAATATT+GGG 0.374315 4.3:-16738995 MS.gene08894:CDS
TTCCGCAACGTTCGGAAGAA+TGG 0.380577 4.3:-16739482 MS.gene08894:CDS
ACACTTAACTTCCAATATTC+CGG 0.387205 4.3:+16739170 None:intergenic
AATGGGTTGATTTGTATTGT+TGG 0.389762 4.3:-16739047 MS.gene08894:CDS
TTCCATGGCAAACCTGTCTC+AGG 0.395522 4.3:+16739129 None:intergenic
ATTCGAAACAGTCTTATGAT+TGG 0.396472 4.3:-16739224 MS.gene08894:CDS
GCACATTTAGTACTGCATTA+GGG 0.406562 4.3:-16739428 MS.gene08894:CDS
TTGGTGGGAAAACGTGATTC+CGG 0.412330 4.3:-16738944 MS.gene08894:CDS
CCTAGCAGAATTAAGCCATA+TGG 0.413449 4.3:-16739615 MS.gene08894:CDS
GCCTCAAGTTCAGGGTCAAA+TGG 0.417390 4.3:-16739085 MS.gene08894:CDS
GGCAAGGGAAGCTTTGTTGT+TGG 0.439360 4.3:-16738923 MS.gene08894:CDS
GTTGTTGGGGTCTAAAGATC+AGG 0.442016 4.3:-16738908 MS.gene08894:CDS
TTAATAATCAAAGAAGTTGT+TGG 0.449938 4.3:+16739549 None:intergenic
CGAAATATAGTACTTCCATT+TGG 0.450018 4.3:+16739021 None:intergenic
GGCTGATGTTCCGCAACGTT+CGG 0.452606 4.3:-16739490 MS.gene08894:CDS
TGGTGAGGTAGTAGTACATA+TGG 0.459125 4.3:+16739569 None:intergenic
GTTAAGTGTCCTTATAATAA+GGG 0.460463 4.3:-16739156 MS.gene08894:CDS
CAAGGGAAGCTTTGTTGTTG+GGG 0.465604 4.3:-16738921 MS.gene08894:CDS
TGGGAGGGAGGTGACTTCGA+TGG 0.467844 4.3:-16739259 MS.gene08894:CDS
GGGAGGGAGGTGACTTCGAT+GGG 0.473979 4.3:-16739258 MS.gene08894:CDS
TATTACATGCCTCAAGTTCA+GGG 0.475534 4.3:-16739093 MS.gene08894:CDS
AGCATTTGCTTCACCGGCAC+CGG 0.476435 4.3:-16739511 MS.gene08894:CDS
ATTTACAGCATTTGCTTCAC+CGG 0.476975 4.3:-16739517 MS.gene08894:CDS
GCCTCTACACATAAATTGAC+TGG 0.480024 4.3:-16738868 MS.gene08894:CDS
AATGGATATGAGAATTTCAT+CGG 0.483975 4.3:-16739691 MS.gene08894:CDS
GAACGTTGCGGAACATCAGC+CGG 0.496988 4.3:+16739492 None:intergenic
TGCGGAACATCAGCCGGTGC+CGG 0.504036 4.3:+16739498 None:intergenic
AAACAGTCTTATGATTGGCT+TGG 0.505920 4.3:-16739219 MS.gene08894:CDS
GTCAATTTATGTGTAGAGGC+AGG 0.506154 4.3:+16738871 None:intergenic
AATAAGGGTAAGCCTGAGAC+AGG 0.506865 4.3:-16739141 MS.gene08894:CDS
TTGTATTGTTGGACGCCAAA+TGG 0.508428 4.3:-16739036 MS.gene08894:CDS
TCCATTTGACCCTGAACTTG+AGG 0.510243 4.3:+16739084 None:intergenic
CTATTATGCAGAGAAATTGC+AGG 0.517198 4.3:-16738802 MS.gene08894:CDS
GAATATTGGGATATAATACA+TGG 0.523100 4.3:-16738982 MS.gene08894:CDS
CCATATGGCTTAATTCTGCT+AGG 0.530559 4.3:+16739615 None:intergenic
TGGCTTGGCGCGTCGCCTGA+CGG 0.530902 4.3:-16739204 MS.gene08894:CDS
AGAATGGTTCGCTCTTCGTA+AGG 0.534956 4.3:-16739466 MS.gene08894:CDS
CCGGTACCAAGAACACCGTC+AGG 0.549096 4.3:+16739189 None:intergenic
TCCAGTCAATTTATGTGTAG+AGG 0.552337 4.3:+16738867 None:intergenic
CCTGACGGTGTTCTTGGTAC+CGG 0.552937 4.3:-16739189 MS.gene08894:CDS
CAAAGAAATGCTATGAATTG+GGG 0.562081 4.3:-16739327 MS.gene08894:CDS
GGAAAACGTGATTCCGGCAA+GGG 0.564224 4.3:-16738938 MS.gene08894:CDS
ACTTGAGGCATGTAATAGAA+TGG 0.565196 4.3:+16739099 None:intergenic
GAATCTAATCAAGCTAGAGT+TGG 0.567061 4.3:+16739662 None:intergenic
GAAGCAAATGCTGTAAATGA+TGG 0.578930 4.3:+16739522 None:intergenic
AGCCTGAGACAGGTTTGCCA+TGG 0.592845 4.3:-16739131 MS.gene08894:CDS
TCTAGCTTGATTAGATTCAG+TGG 0.596966 4.3:-16739657 MS.gene08894:CDS
AATCAAAGAAGTTGTTGGTG+AGG 0.598502 4.3:+16739554 None:intergenic
AACCATTCTTCCGAACGTTG+CGG 0.616608 4.3:+16739480 None:intergenic
GGGAAAACGTGATTCCGGCA+AGG 0.625422 4.3:-16738939 MS.gene08894:CDS
GAATTGGGGAGTGCTTAATG+AGG 0.644725 4.3:-16739313 MS.gene08894:CDS
TTGGGGAGTGCTTAATGAGG+CGG 0.645877 4.3:-16739310 MS.gene08894:CDS
GTGGTCGTCGTGCTGAGTTG+TGG 0.647045 4.3:-16739395 MS.gene08894:CDS
AATATTGGGATATAATACAT+GGG 0.663115 4.3:-16738981 MS.gene08894:CDS
GCAAATGCTGTAAATGATGG+AGG 0.672307 4.3:+16739525 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAAGTATACAAAAATTACT+GGG - chr4.3:16739192-16739211 MS.gene08894:CDS 15.0%
!! AATATTGGGATATAATACAT+GGG - chr4.3:16739489-16739508 MS.gene08894:CDS 20.0%
!! TTAATAATCAAAGAAGTTGT+TGG + chr4.3:16738924-16738943 None:intergenic 20.0%
!!! GAAAAGTATACAAAAATTAC+TGG - chr4.3:16739191-16739210 MS.gene08894:CDS 20.0%
! AGTTAAGTGTCCTTATAATA+AGG - chr4.3:16739313-16739332 MS.gene08894:CDS 25.0%
! GAATATTGGGATATAATACA+TGG - chr4.3:16739488-16739507 MS.gene08894:CDS 25.0%
! GTTAAGTGTCCTTATAATAA+GGG - chr4.3:16739314-16739333 MS.gene08894:CDS 25.0%
! TCAAAGAAATGCTATGAATT+GGG - chr4.3:16739142-16739161 MS.gene08894:CDS 25.0%
! TGTTAGAAATCGTGAATATT+GGG - chr4.3:16739475-16739494 MS.gene08894:CDS 25.0%
! TTCAAAGAAATGCTATGAAT+TGG - chr4.3:16739141-16739160 MS.gene08894:CDS 25.0%
! TTGTTAGAAATCGTGAATAT+TGG - chr4.3:16739474-16739493 MS.gene08894:CDS 25.0%
!! CTAAAATGATCTTTTCCATA+TGG + chr4.3:16738873-16738892 None:intergenic 25.0%
ACACTTAACTTCCAATATTC+CGG + chr4.3:16739303-16739322 None:intergenic 30.0%
AGTATACAAAAATTACTGGG+AGG - chr4.3:16739195-16739214 MS.gene08894:CDS 30.0%
CAAAGAAATGCTATGAATTG+GGG - chr4.3:16739143-16739162 MS.gene08894:CDS 30.0%
CGAAATATAGTACTTCCATT+TGG + chr4.3:16739452-16739471 None:intergenic 30.0%
GTATACAAAAATTACTGGGA+GGG - chr4.3:16739196-16739215 MS.gene08894:CDS 30.0%
! ATTCGAAACAGTCTTATGAT+TGG - chr4.3:16739246-16739265 MS.gene08894:CDS 30.0%
! GGAGATTATGGATTTTGAAT+GGG - chr4.3:16739406-16739425 MS.gene08894:CDS 30.0%
! TGGAGATTATGGATTTTGAA+TGG - chr4.3:16739405-16739424 MS.gene08894:CDS 30.0%
!! AATGGGTTGATTTGTATTGT+TGG - chr4.3:16739423-16739442 MS.gene08894:CDS 30.0%
AATCAAAGAAGTTGTTGGTG+AGG + chr4.3:16738919-16738938 None:intergenic 35.0%
ACTTGAGGCATGTAATAGAA+TGG + chr4.3:16739374-16739393 None:intergenic 35.0%
AGCACATTTAGTACTGCATT+AGG - chr4.3:16739041-16739060 MS.gene08894:CDS 35.0%
ATTTACAGCATTTGCTTCAC+CGG - chr4.3:16738953-16738972 MS.gene08894:CDS 35.0%
CTATTATGCAGAGAAATTGC+AGG - chr4.3:16739668-16739687 MS.gene08894:CDS 35.0%
GAAGCAAATGCTGTAAATGA+TGG + chr4.3:16738951-16738970 None:intergenic 35.0%
GAATCTAATCAAGCTAGAGT+TGG + chr4.3:16738811-16738830 None:intergenic 35.0%
GCACATTTAGTACTGCATTA+GGG - chr4.3:16739042-16739061 MS.gene08894:CDS 35.0%
TATTACATGCCTCAAGTTCA+GGG - chr4.3:16739377-16739396 MS.gene08894:CDS 35.0%
TCAGGCTTACCCTTATTATA+AGG + chr4.3:16739326-16739345 None:intergenic 35.0%
TCCAGTCAATTTATGTGTAG+AGG + chr4.3:16739606-16739625 None:intergenic 35.0%
! AAACAGTCTTATGATTGGCT+TGG - chr4.3:16739251-16739270 MS.gene08894:CDS 35.0%
! TAGAATGGCATAGTTTTCCA+TGG + chr4.3:16739359-16739378 None:intergenic 35.0%
! TCTAGCTTGATTAGATTCAG+TGG - chr4.3:16738813-16738832 MS.gene08894:CDS 35.0%
! TTAGTACTGCATTAGGGTTT+TGG - chr4.3:16739048-16739067 MS.gene08894:CDS 35.0%
CCATATGGCTTAATTCTGCT+AGG + chr4.3:16738858-16738877 None:intergenic 40.0%
CCTAGCAGAATTAAGCCATA+TGG - chr4.3:16738855-16738874 MS.gene08894:CDS 40.0%
CTATTACATGCCTCAAGTTC+AGG - chr4.3:16739376-16739395 MS.gene08894:CDS 40.0%
GCAAATGCTGTAAATGATGG+AGG + chr4.3:16738948-16738967 None:intergenic 40.0%
GCCTCTACACATAAATTGAC+TGG - chr4.3:16739602-16739621 MS.gene08894:CDS 40.0%
GTCAATTTATGTGTAGAGGC+AGG + chr4.3:16739602-16739621 None:intergenic 40.0%
TACAAAAATTACTGGGAGGG+AGG - chr4.3:16739199-16739218 MS.gene08894:CDS 40.0%
TCAGGGTCAAATGGAGATTA+TGG - chr4.3:16739394-16739413 MS.gene08894:CDS 40.0%
TGGTGAGGTAGTAGTACATA+TGG + chr4.3:16738904-16738923 None:intergenic 40.0%
TTGTATTGTTGGACGCCAAA+TGG - chr4.3:16739434-16739453 MS.gene08894:CDS 40.0%
! ATGGGATTCTCAGAGAGTTT+TGG - chr4.3:16739507-16739526 MS.gene08894:CDS 40.0%
! TGTTCTTGGTACCGGAATAT+TGG - chr4.3:16739289-16739308 MS.gene08894:CDS 40.0%
!! GATTCTCAGAGAGTTTTGGT+GGG - chr4.3:16739511-16739530 MS.gene08894:CDS 40.0%
!!! ACTGCATTAGGGTTTTGGAA+AGG - chr4.3:16739053-16739072 MS.gene08894:CDS 40.0%
AACAACAAAGCTTCCCTTGC+CGG + chr4.3:16739548-16739567 None:intergenic 45.0%
AACCATTCTTCCGAACGTTG+CGG + chr4.3:16738993-16739012 None:intergenic 45.0%
AATAAGGGTAAGCCTGAGAC+AGG - chr4.3:16739329-16739348 MS.gene08894:CDS 45.0%
AGAATGGTTCGCTCTTCGTA+AGG - chr4.3:16739004-16739023 MS.gene08894:CDS 45.0%
GTTGTTGGGGTCTAAAGATC+AGG - chr4.3:16739562-16739581 MS.gene08894:CDS 45.0%
TCCATTTGACCCTGAACTTG+AGG + chr4.3:16739389-16739408 None:intergenic 45.0%
TTGGTGGGAAAACGTGATTC+CGG - chr4.3:16739526-16739545 MS.gene08894:CDS 45.0%
!! CAAGGGAAGCTTTGTTGTTG+GGG - chr4.3:16739549-16739568 MS.gene08894:CDS 45.0%
!! GAATTGGGGAGTGCTTAATG+AGG - chr4.3:16739157-16739176 MS.gene08894:CDS 45.0%
!! GCAAGGGAAGCTTTGTTGTT+GGG - chr4.3:16739548-16739567 MS.gene08894:CDS 45.0%
!! GGATTCTCAGAGAGTTTTGG+TGG - chr4.3:16739510-16739529 MS.gene08894:CDS 45.0%
!!! GCATTAGGGTTTTGGAAAGG+TGG - chr4.3:16739056-16739075 MS.gene08894:CDS 45.0%
GCCTCAAGTTCAGGGTCAAA+TGG - chr4.3:16739385-16739404 MS.gene08894:CDS 50.0%
GGAAAACGTGATTCCGGCAA+GGG - chr4.3:16739532-16739551 MS.gene08894:CDS 50.0%
TTCCATGGCAAACCTGTCTC+AGG + chr4.3:16739344-16739363 None:intergenic 50.0%
TTCCGCAACGTTCGGAAGAA+TGG - chr4.3:16738988-16739007 MS.gene08894:CDS 50.0%
!! GGCAAGGGAAGCTTTGTTGT+TGG - chr4.3:16739547-16739566 MS.gene08894:CDS 50.0%
!! TTGGGGAGTGCTTAATGAGG+CGG - chr4.3:16739160-16739179 MS.gene08894:CDS 50.0%
AGCATTTGCTTCACCGGCAC+CGG - chr4.3:16738959-16738978 MS.gene08894:CDS 55.0%
AGCCTGAGACAGGTTTGCCA+TGG - chr4.3:16739339-16739358 MS.gene08894:CDS 55.0%
CCTGACGGTGTTCTTGGTAC+CGG - chr4.3:16739281-16739300 MS.gene08894:CDS 55.0%
GAACGTTGCGGAACATCAGC+CGG + chr4.3:16738981-16739000 None:intergenic 55.0%
GGCTGATGTTCCGCAACGTT+CGG - chr4.3:16738980-16738999 MS.gene08894:CDS 55.0%
GGGAAAACGTGATTCCGGCA+AGG - chr4.3:16739531-16739550 MS.gene08894:CDS 55.0%
CCGGTACCAAGAACACCGTC+AGG + chr4.3:16739284-16739303 None:intergenic 60.0%
GGGAGGGAGGTGACTTCGAT+GGG - chr4.3:16739212-16739231 MS.gene08894:CDS 60.0%
GTGGTCGTCGTGCTGAGTTG+TGG - chr4.3:16739075-16739094 MS.gene08894:CDS 60.0%
TGGGAGGGAGGTGACTTCGA+TGG - chr4.3:16739211-16739230 MS.gene08894:CDS 60.0%
GCGTCGCCTGACGGTGTTCT+TGG - chr4.3:16739275-16739294 MS.gene08894:CDS 65.0%
TGCGGAACATCAGCCGGTGC+CGG + chr4.3:16738975-16738994 None:intergenic 65.0%
! TGGCTTGGCGCGTCGCCTGA+CGG - chr4.3:16739266-16739285 MS.gene08894:CDS 70.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 16738780 16739712 16738780 ID=MS.gene08894
chr4.3 mRNA 16738780 16739712 16738780 ID=MS.gene08894.t1;Parent=MS.gene08894
chr4.3 exon 16738780 16739712 16738780 ID=MS.gene08894.t1.exon1;Parent=MS.gene08894.t1
chr4.3 CDS 16738780 16739712 16738780 ID=cds.MS.gene08894.t1;Parent=MS.gene08894.t1
Gene Sequence

>MS.gene08894

ATGGATATGAGAATTTCATCGGCGACTACCAACTCTAGCTTGATTAGATTCAGTGGCATTCTTCTGAAAGTATTTCCTAGCAGAATTAAGCCATATGGAAAAGATCATTTTAGAAATCTATCCATATGTACTACTACCTCACCAACAACTTCTTTGATTATTAAGCCTCCATCATTTACAGCATTTGCTTCACCGGCACCGGCTGATGTTCCGCAACGTTCGGAAGAATGGTTCGCTCTTCGTAAGGACAGACTAACGACGAGCACATTTAGTACTGCATTAGGGTTTTGGAAAGGTGGTCGTCGTGCTGAGTTGTGGCATGATAAAGTATTTGCATCAGAGTCTCAAATCGTTGAATCTGTTCAAAGAAATGCTATGAATTGGGGAGTGCTTAATGAGGCGGTAGCTGTTGAAAAGTATACAAAAATTACTGGGAGGGAGGTGACTTCGATGGGTTTTGCAGTTCATTCGAAACAGTCTTATGATTGGCTTGGCGCGTCGCCTGACGGTGTTCTTGGTACCGGAATATTGGAAGTTAAGTGTCCTTATAATAAGGGTAAGCCTGAGACAGGTTTGCCATGGAAAACTATGCCATTCTATTACATGCCTCAAGTTCAGGGTCAAATGGAGATTATGGATTTTGAATGGGTTGATTTGTATTGTTGGACGCCAAATGGAAGTACTATATTTCGTGTTGTTAGAAATCGTGAATATTGGGATATAATACATGGGATTCTCAGAGAGTTTTGGTGGGAAAACGTGATTCCGGCAAGGGAAGCTTTGTTGTTGGGGTCTAAAGATCAGGTAGAGTCTTACAAGCCTGCCTCTACACATAAATTGACTGGATTAGCAATTGCGAAAAGTATCAAGTTAGCTAGTGAATCAAAGCTATTATGCAGAGAAATTGCAGGTCATGTTGAATTTTTTACATGA

Protein sequence

>MS.gene08894.t1

MDMRISSATTNSSLIRFSGILLKVFPSRIKPYGKDHFRNLSICTTTSPTTSLIIKPPSFTAFASPAPADVPQRSEEWFALRKDRLTTSTFSTALGFWKGGRRAELWHDKVFASESQIVESVQRNAMNWGVLNEAVAVEKYTKITGREVTSMGFAVHSKQSYDWLGASPDGVLGTGILEVKCPYNKGKPETGLPWKTMPFYYMPQVQGQMEIMDFEWVDLYCWTPNGSTIFRVVRNREYWDIIHGILREFWWENVIPAREALLLGSKDQVESYKPASTHKLTGLAIAKSIKLASESKLLCREIAGHVEFFT