AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26171


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26171.t1 MTR_5g076930 97.568 370 9 0 1 370 1 370 0.0 741
MS.gene26171.t1 MTR_5g076940 81.481 108 18 1 265 370 1 108 1.99e-55 177
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26171.t1 AT3G03210 57.713 376 145 6 1 370 1 368 6.30e-140 402

Find 67 sgRNAs with CRISPR-Local

Find 85 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTACAAATGCTTCTGATTA+TGG 0.165491 5.4:-57468610 MS.gene26171:CDS
CTTTGCTTCATGAGATTGTT+TGG 0.216592 5.4:-57469059 MS.gene26171:CDS
TTCTTTGTTGAGTTTAGTTT+TGG 0.229067 5.4:-57468839 MS.gene26171:CDS
TGATGAGATGGGTTTGAAAT+TGG 0.236912 5.4:-57468749 MS.gene26171:CDS
TCCTAACAATTTGACAGATT+TGG 0.259155 5.4:-57468707 MS.gene26171:CDS
GGTTCATCATTCTCAAATTT+CGG 0.287793 5.4:+57468535 None:intergenic
TGGATTTGCTTAATGGGTCT+TGG 0.290048 5.4:-57468903 MS.gene26171:CDS
TTAGATCGCCGCATTTGTTT+TGG 0.290342 5.4:-57468489 MS.gene26171:CDS
CATTGAATTATGATAAGTTT+TGG 0.296461 5.4:-57468990 MS.gene26171:CDS
ACATTTGTATCCGGATGTTT+TGG 0.314178 5.4:-57468665 MS.gene26171:CDS
TCAGAAACAGAAGGAAAATA+AGG 0.316073 5.4:+57469150 None:intergenic
TCTGATTATGGTGACTTGTT+GGG 0.319697 5.4:-57468598 MS.gene26171:CDS
TTCTCAAATTTCGGCGAAAC+AGG 0.321721 5.4:+57468544 None:intergenic
GCTTAAGAGGAAGGATGTTA+TGG 0.329703 5.4:-57468923 MS.gene26171:CDS
GATGTTATGGATTTGCTTAA+TGG 0.332464 5.4:-57468910 MS.gene26171:CDS
CCATTTCAACTACTCGATAT+AGG 0.351255 5.4:-57468337 MS.gene26171:CDS
GGATTTGCTTAATGGGTCTT+GGG 0.351297 5.4:-57468902 MS.gene26171:CDS
ATGTTATGGATTTGCTTAAT+GGG 0.354857 5.4:-57468909 MS.gene26171:CDS
TTTGCTTCATGAGATTGTTT+GGG 0.355412 5.4:-57469058 MS.gene26171:CDS
TTCTGATTATGGTGACTTGT+TGG 0.369091 5.4:-57468599 MS.gene26171:CDS
GTGAGTTTCAGAGGCTTAAG+AGG 0.380831 5.4:-57468936 MS.gene26171:CDS
AATGTTTGGTGCTGTTCAAT+TGG 0.384156 5.4:-57469301 MS.gene26171:CDS
ACCAAATCTGTCAAATTGTT+AGG 0.393608 5.4:+57468706 None:intergenic
TGTTGTATTGTTTGTTCCAA+TGG 0.395106 5.4:-57469262 MS.gene26171:CDS
TGGTGATGGGTTCTGGTTTG+TGG 0.402650 5.4:-57468645 MS.gene26171:CDS
GGGTCTTGGGTTATGATTGT+AGG 0.403798 5.4:-57468889 MS.gene26171:CDS
ATGAATTATTTCTCAACAAA+GGG 0.415974 5.4:+57469010 None:intergenic
TAAGAAGAAACATTTGTATC+CGG 0.417131 5.4:-57468674 MS.gene26171:CDS
GGATTCGGAGCGGGTTGAAT+CGG 0.419839 5.4:-57468818 MS.gene26171:CDS
CCTATATCGAGTAGTTGAAA+TGG 0.422886 5.4:+57468337 None:intergenic
CATATTGATATTGATGAGAT+GGG 0.430367 5.4:-57468760 MS.gene26171:CDS
TCTGTCAAATTGTTAGGATA+AGG 0.433218 5.4:+57468712 None:intergenic
AAATGATGATGTTGTGTTTG+TGG 0.434990 5.4:-57469103 MS.gene26171:CDS
TCATATTGATATTGATGAGA+TGG 0.436718 5.4:-57468761 MS.gene26171:CDS
AACATAGAGTTTATCAAAGT+CGG 0.442553 5.4:+57468457 None:intergenic
GTTGTATTGTTTGTTCCAAT+GGG 0.452111 5.4:-57469261 MS.gene26171:CDS
TTGGGAGGTTATGCCAAGTA+AGG 0.454727 5.4:-57469040 MS.gene26171:CDS
CTGATTATGGTGACTTGTTG+GGG 0.455040 5.4:-57468597 MS.gene26171:CDS
TGCGATGGGTTCTGTTTCAT+CGG 0.467835 5.4:-57468512 MS.gene26171:CDS
TTTGTTCCAATGGGTATGGC+TGG 0.472651 5.4:-57469252 MS.gene26171:CDS
AATGAATTATTTCTCAACAA+AGG 0.477205 5.4:+57469009 None:intergenic
ATTGTTTGTTCCAATGGGTA+TGG 0.477514 5.4:-57469256 MS.gene26171:CDS
GGTCTTGGGTTATGATTGTA+GGG 0.490359 5.4:-57468888 MS.gene26171:CDS
ATGTTTGGTGCTGTTCAATT+GGG 0.492915 5.4:-57469300 MS.gene26171:CDS
AGTGAAGATGAATGATGTAA+TGG 0.493702 5.4:-57468416 MS.gene26171:CDS
TTCCAATGGGTATGGCTGGT+TGG 0.506316 5.4:-57469248 MS.gene26171:CDS
GCTTCATGAGATTGTTTGGG+AGG 0.519554 5.4:-57469055 MS.gene26171:CDS
TGAAGAATAAAACTTTGTTA+CGG 0.526592 5.4:+57469217 None:intergenic
CGGAGCGGGTTGAATCGGTT+AGG 0.533530 5.4:-57468813 MS.gene26171:CDS
TGGAGTAGATTGAATTCTGT+TGG 0.534685 5.4:-57468964 MS.gene26171:CDS
TTGGTGAATGTGAGTTTCAG+AGG 0.541342 5.4:-57468945 MS.gene26171:CDS
GAACCCATCACCAAAACATC+CGG 0.544298 5.4:+57468655 None:intergenic
GTTTCAGAGGCTTAAGAGGA+AGG 0.545889 5.4:-57468932 MS.gene26171:CDS
GGATTATTGAGTTTGAATTG+TGG 0.565016 5.4:-57468316 MS.gene26171:CDS
TGCCAACCAGCCATACCCAT+TGG 0.570463 5.4:+57469246 None:intergenic
TGAGAATGATGAACCTGCGA+TGG 0.581367 5.4:-57468527 MS.gene26171:CDS
TTGTAGGGGATTCACAAGCT+AGG 0.585033 5.4:-57468873 MS.gene26171:CDS
GGAATCAAATGTACAGATGA+TGG 0.585892 5.4:-57468295 MS.gene26171:CDS
GATGATGGTATGCATTATGA+TGG 0.601643 5.4:-57468280 MS.gene26171:CDS
GTCTTGGGTTATGATTGTAG+GGG 0.606642 5.4:-57468887 MS.gene26171:CDS
GAGAATGATGAACCTGCGAT+GGG 0.610564 5.4:-57468526 MS.gene26171:CDS
CTCATAAAATCAGAAACAGA+AGG 0.611262 5.4:+57469141 None:intergenic
AAACTCTATGTTGAATACGC+AGG 0.625290 5.4:-57468446 MS.gene26171:CDS
GTTGTGTTTGTGGAAGATCG+TGG 0.630808 5.4:-57469093 MS.gene26171:CDS
GATGAAACAGAACCCATCGC+AGG 0.633804 5.4:+57468514 None:intergenic
AAGATGAATGATGTAATGGA+AGG 0.671697 5.4:-57468412 MS.gene26171:CDS
ATACCTAGCCAAAACAAATG+CGG 0.712684 5.4:+57468481 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTGAAATTGGATTTTATTT+GGG - chr5.4:57468773-57468792 MS.gene26171:CDS 15.0%
!! TGAAGAATAAAACTTTGTTA+CGG + chr5.4:57468296-57468315 None:intergenic 20.0%
!!! AATGAATTATTTCTCAACAA+AGG + chr5.4:57468504-57468523 None:intergenic 20.0%
!!! ATGAATTATTTCTCAACAAA+GGG + chr5.4:57468503-57468522 None:intergenic 20.0%
!!! CATTGAATTATGATAAGTTT+TGG - chr5.4:57468520-57468539 MS.gene26171:CDS 20.0%
!!! GTTTGAAATTGGATTTTATT+TGG - chr5.4:57468772-57468791 MS.gene26171:CDS 20.0%
! AACATAGAGTTTATCAAAGT+CGG + chr5.4:57469056-57469075 None:intergenic 25.0%
! ATTACAAATGCTTCTGATTA+TGG - chr5.4:57468900-57468919 MS.gene26171:CDS 25.0%
! CATATTGATATTGATGAGAT+GGG - chr5.4:57468750-57468769 MS.gene26171:CDS 25.0%
! TAAGAAGAAACATTTGTATC+CGG - chr5.4:57468836-57468855 MS.gene26171:CDS 25.0%
! TCATATTGATATTGATGAGA+TGG - chr5.4:57468749-57468768 MS.gene26171:CDS 25.0%
!! ATGTTATGGATTTGCTTAAT+GGG - chr5.4:57468601-57468620 MS.gene26171:CDS 25.0%
!!! AACAAAGTTTTATTCTTCAG+TGG - chr5.4:57468297-57468316 MS.gene26171:CDS 25.0%
!!! ATTATGATAAGTTTTGGTCT+TGG - chr5.4:57468526-57468545 MS.gene26171:CDS 25.0%
!!! TTAGGAGTTTTTTGTTTAAG+AGG - chr5.4:57468715-57468734 MS.gene26171:CDS 25.0%
!!! TTCTTTGTTGAGTTTAGTTT+TGG - chr5.4:57468671-57468690 MS.gene26171:CDS 25.0%
ACCAAATCTGTCAAATTGTT+AGG + chr5.4:57468807-57468826 None:intergenic 30.0%
AGTGAAGATGAATGATGTAA+TGG - chr5.4:57469094-57469113 MS.gene26171:CDS 30.0%
CTCATAAAATCAGAAACAGA+AGG + chr5.4:57468372-57468391 None:intergenic 30.0%
GGATTATTGAGTTTGAATTG+TGG - chr5.4:57469194-57469213 MS.gene26171:CDS 30.0%
GGTTCATCATTCTCAAATTT+CGG + chr5.4:57468978-57468997 None:intergenic 30.0%
GTTGTATTGTTTGTTCCAAT+GGG - chr5.4:57468249-57468268 MS.gene26171:CDS 30.0%
TCAGAAACAGAAGGAAAATA+AGG + chr5.4:57468363-57468382 None:intergenic 30.0%
TCCTAACAATTTGACAGATT+TGG - chr5.4:57468803-57468822 MS.gene26171:CDS 30.0%
TCTGTCAAATTGTTAGGATA+AGG + chr5.4:57468801-57468820 None:intergenic 30.0%
TGTTGTATTGTTTGTTCCAA+TGG - chr5.4:57468248-57468267 MS.gene26171:CDS 30.0%
TTTGCTTCATGAGATTGTTT+GGG - chr5.4:57468452-57468471 MS.gene26171:CDS 30.0%
! AAATGATGATGTTGTGTTTG+TGG - chr5.4:57468407-57468426 MS.gene26171:CDS 30.0%
! AAGATGAATGATGTAATGGA+AGG - chr5.4:57469098-57469117 MS.gene26171:CDS 30.0%
! GATGTTATGGATTTGCTTAA+TGG - chr5.4:57468600-57468619 MS.gene26171:CDS 30.0%
! TTCGAAAAAGTGGTATTTTG+AGG - chr5.4:57469138-57469157 MS.gene26171:CDS 30.0%
!! TCGAAAAAGTGGTATTTTGA+GGG - chr5.4:57469139-57469158 MS.gene26171:CDS 30.0%
!!! GTTGAGTTTAGTTTTGGATT+CGG - chr5.4:57468677-57468696 MS.gene26171:CDS 30.0%
AAACTCTATGTTGAATACGC+AGG - chr5.4:57469064-57469083 MS.gene26171:CDS 35.0%
AAAGGGTCAAAAACCTTACT+TGG + chr5.4:57468486-57468505 None:intergenic 35.0%
ATACCTAGCCAAAACAAATG+CGG + chr5.4:57469032-57469051 None:intergenic 35.0%
ATTGTTTGTTCCAATGGGTA+TGG - chr5.4:57468254-57468273 MS.gene26171:CDS 35.0%
CCATTTCAACTACTCGATAT+AGG - chr5.4:57469173-57469192 MS.gene26171:CDS 35.0%
CCTATATCGAGTAGTTGAAA+TGG + chr5.4:57469176-57469195 None:intergenic 35.0%
CTTTGCTTCATGAGATTGTT+TGG - chr5.4:57468451-57468470 MS.gene26171:CDS 35.0%
GGAATCAAATGTACAGATGA+TGG - chr5.4:57469215-57469234 MS.gene26171:CDS 35.0%
TGGAGTAGATTGAATTCTGT+TGG - chr5.4:57468546-57468565 MS.gene26171:CDS 35.0%
! ACATTTGTATCCGGATGTTT+TGG - chr5.4:57468845-57468864 MS.gene26171:CDS 35.0%
! CTTTTCATTACTCTTGCAGT+TGG - chr5.4:57468324-57468343 MS.gene26171:CDS 35.0%
! GATGATGGTATGCATTATGA+TGG - chr5.4:57469230-57469249 MS.gene26171:CDS 35.0%
! TGATGAGATGGGTTTGAAAT+TGG - chr5.4:57468761-57468780 MS.gene26171:CDS 35.0%
! TTCTGATTATGGTGACTTGT+TGG - chr5.4:57468911-57468930 MS.gene26171:CDS 35.0%
!! ATGTTTGGTGCTGTTCAATT+GGG - chr5.4:57468210-57468229 MS.gene26171:CDS 35.0%
!! TCTGATTATGGTGACTTGTT+GGG - chr5.4:57468912-57468931 MS.gene26171:CDS 35.0%
GCTTAAGAGGAAGGATGTTA+TGG - chr5.4:57468587-57468606 MS.gene26171:CDS 40.0%
GGTCTTGGGTTATGATTGTA+GGG - chr5.4:57468622-57468641 MS.gene26171:CDS 40.0%
GTCTTGGGTTATGATTGTAG+GGG - chr5.4:57468623-57468642 MS.gene26171:CDS 40.0%
TTCTCAAATTTCGGCGAAAC+AGG + chr5.4:57468969-57468988 None:intergenic 40.0%
TTGGTGAATGTGAGTTTCAG+AGG - chr5.4:57468565-57468584 MS.gene26171:CDS 40.0%
! GGATTTGCTTAATGGGTCTT+GGG - chr5.4:57468608-57468627 MS.gene26171:CDS 40.0%
! TGGATTTGCTTAATGGGTCT+TGG - chr5.4:57468607-57468626 MS.gene26171:CDS 40.0%
! TTAGATCGCCGCATTTGTTT+TGG - chr5.4:57469021-57469040 MS.gene26171:CDS 40.0%
!! AGTGGTATTTTGAGGGAGTT+TGG - chr5.4:57469146-57469165 MS.gene26171:CDS 40.0%
!! CTGATTATGGTGACTTGTTG+GGG - chr5.4:57468913-57468932 MS.gene26171:CDS 40.0%
!!! GTTTAGTTTTGGATTCGGAG+CGG - chr5.4:57468682-57468701 MS.gene26171:CDS 40.0%
!!! TATCCGGATGTTTTGGTGAT+GGG - chr5.4:57468852-57468871 MS.gene26171:CDS 40.0%
!!! TTTAGTTTTGGATTCGGAGC+GGG - chr5.4:57468683-57468702 MS.gene26171:CDS 40.0%
GAACCCATCACCAAAACATC+CGG + chr5.4:57468858-57468877 None:intergenic 45.0%
GAGAATGATGAACCTGCGAT+GGG - chr5.4:57468984-57469003 MS.gene26171:CDS 45.0%
GAGAGAGAGCTTCGAAAAAG+TGG - chr5.4:57469128-57469147 MS.gene26171:CDS 45.0%
GCTTCATGAGATTGTTTGGG+AGG - chr5.4:57468455-57468474 MS.gene26171:CDS 45.0%
GGGTCTTGGGTTATGATTGT+AGG - chr5.4:57468621-57468640 MS.gene26171:CDS 45.0%
GTGAGTTTCAGAGGCTTAAG+AGG - chr5.4:57468574-57468593 MS.gene26171:CDS 45.0%
GTTGTGTTTGTGGAAGATCG+TGG - chr5.4:57468417-57468436 MS.gene26171:CDS 45.0%
GTTTCAGAGGCTTAAGAGGA+AGG - chr5.4:57468578-57468597 MS.gene26171:CDS 45.0%
TGAGAATGATGAACCTGCGA+TGG - chr5.4:57468983-57469002 MS.gene26171:CDS 45.0%
TTGGGAGGTTATGCCAAGTA+AGG - chr5.4:57468470-57468489 MS.gene26171:CDS 45.0%
TTGTAGGGGATTCACAAGCT+AGG - chr5.4:57468637-57468656 MS.gene26171:CDS 45.0%
TTTGTTCCAATGGGTATGGC+TGG - chr5.4:57468258-57468277 MS.gene26171:CDS 45.0%
! TGCGATGGGTTCTGTTTCAT+CGG - chr5.4:57468998-57469017 MS.gene26171:CDS 45.0%
!! GGTATTTTGAGGGAGTTTGG+TGG - chr5.4:57469149-57469168 MS.gene26171:CDS 45.0%
!!! GATGTTTTGGTGATGGGTTC+TGG - chr5.4:57468858-57468877 MS.gene26171:CDS 45.0%
!!! GTATCCGGATGTTTTGGTGA+TGG - chr5.4:57468851-57468870 MS.gene26171:CDS 45.0%
GATGAAACAGAACCCATCGC+AGG + chr5.4:57468999-57469018 None:intergenic 50.0%
TTCCAATGGGTATGGCTGGT+TGG - chr5.4:57468262-57468281 MS.gene26171:CDS 50.0%
!! TGGTGATGGGTTCTGGTTTG+TGG - chr5.4:57468865-57468884 MS.gene26171:CDS 50.0%
!!! TCGCCGCATTTGTTTTGGCT+AGG - chr5.4:57469026-57469045 MS.gene26171:CDS 50.0%
TGCCAACCAGCCATACCCAT+TGG + chr5.4:57468267-57468286 None:intergenic 55.0%
!! GGATTCGGAGCGGGTTGAAT+CGG - chr5.4:57468692-57468711 MS.gene26171:CDS 55.0%
!! CGGAGCGGGTTGAATCGGTT+AGG - chr5.4:57468697-57468716 MS.gene26171:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 57468210 57469322 57468210 ID=MS.gene26171
chr5.4 mRNA 57468210 57469322 57468210 ID=MS.gene26171.t1;Parent=MS.gene26171
chr5.4 exon 57468210 57469322 57468210 ID=MS.gene26171.t1.exon1;Parent=MS.gene26171.t1
chr5.4 CDS 57468210 57469322 57468210 ID=cds.MS.gene26171.t1;Parent=MS.gene26171.t1
Gene Sequence

>MS.gene26171

ATGTTTGGTGCTGTTCAATTGGGTCTATTTGCAGCATGTGTTGTATTGTTTGTTCCAATGGGTATGGCTGGTTGGCACTTGAGCCGTAACAAAGTTTTATTCTTCAGTGGTGCACTTTTCATTACTCTTGCAGTTGGTGTTCATCTTACACCTTATTTTCCTTCTGTTTCTGATTTTATGAGTTCTGTTAAATCATCAAATGATGATGTTGTGTTTGTGGAAGATCGTGGTTTATGTGTTTCTTTGCTTCATGAGATTGTTTGGGAGGTTATGCCAAGTAAGGTTTTTGACCCTTTGTTGAGAAATAATTCATTGAATTATGATAAGTTTTGGTCTTGGAGTAGATTGAATTCTGTTGGTGAATGTGAGTTTCAGAGGCTTAAGAGGAAGGATGTTATGGATTTGCTTAATGGGTCTTGGGTTATGATTGTAGGGGATTCACAAGCTAGGATTTTTACACTTTCTTTGTTGAGTTTAGTTTTGGATTCGGAGCGGGTTGAATCGGTTAGGAGTTTTTTGTTTAAGAGGCATAGTGATTATCATATTGATATTGATGAGATGGGTTTGAAATTGGATTTTATTTGGGCACCTTATCCTAACAATTTGACAGATTTGGTTATGAAGTTTAAGAAGAAACATTTGTATCCGGATGTTTTGGTGATGGGTTCTGGTTTGTGGCACATGCTTCATATTACAAATGCTTCTGATTATGGTGACTTGTTGGGGTTGTTAAAGAATTCTGTGACATCAATGTTGCCTGTTTCGCCGAAATTTGAGAATGATGAACCTGCGATGGGTTCTGTTTCATCGGTTAGATCGCCGCATTTGTTTTGGCTAGGTATGCCGACTTTGATAAACTCTATGTTGAATACGCAGGAGAAGAGAGTGAAGATGAATGATGTAATGGAAGGTGAGTATGAGAGAGAGCTTCGAAAAAGTGGTATTTTGAGGGAGTTTGGTGGTCCATTTCAACTACTCGATATAGGATTATTGAGTTTGAATTGTGGAATCAAATGTACAGATGATGGTATGCATTATGATGGTGCTGTTTATGAAGCTGAACTTCATATTATGTTCAATGCATTGCTTATAGAATCTCATCAGAAGCTCTGA

Protein sequence

>MS.gene26171.t1

MFGAVQLGLFAACVVLFVPMGMAGWHLSRNKVLFFSGALFITLAVGVHLTPYFPSVSDFMSSVKSSNDDVVFVEDRGLCVSLLHEIVWEVMPSKVFDPLLRNNSLNYDKFWSWSRLNSVGECEFQRLKRKDVMDLLNGSWVMIVGDSQARIFTLSLLSLVLDSERVESVRSFLFKRHSDYHIDIDEMGLKLDFIWAPYPNNLTDLVMKFKKKHLYPDVLVMGSGLWHMLHITNASDYGDLLGLLKNSVTSMLPVSPKFENDEPAMGSVSSVRSPHLFWLGMPTLINSMLNTQEKRVKMNDVMEGEYERELRKSGILREFGGPFQLLDIGLLSLNCGIKCTDDGMHYDGAVYEAELHIMFNALLIESHQKL