AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene033826

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene033826.t1 MTR_2g049610 80.309 259 30 2 4 262 2 239 7.25e-154 428
MS.gene033826.t1 MTR_2g049630 61.660 253 63 5 1 245 1 227 2.97e-97 290
MS.gene033826.t1 MTR_2g049530 70.115 174 50 1 1 172 1 174 5.54e-84 249
MS.gene033826.t1 MTR_4g107170 46.606 221 103 5 1 214 1 213 2.15e-60 191
MS.gene033826.t1 MTR_4g045977 44.681 235 101 6 4 222 2 223 2.21e-56 186
MS.gene033826.t1 MTR_1g115290 49.689 161 57 4 40 195 2 143 9.84e-42 140
MS.gene033826.t1 MTR_6g018920 39.355 155 87 2 4 152 2 155 4.84e-32 120
MS.gene033826.t1 MTR_1g114730 40.385 156 86 2 4 153 2 156 1.11e-31 119
MS.gene033826.t1 MTR_6g005440 34.158 202 119 6 4 192 2 202 1.45e-30 116
MS.gene033826.t1 MTR_6g005450 38.065 155 89 3 4 152 2 155 3.50e-26 105
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 46 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAAATCCATCTATTGTTTC+TGG 0.138351 2.3:+41844785 None:intergenic
ACTTGGTAATGTTGCATATT+TGG 0.170747 2.3:-41844870 MS.gene033826:CDS
GGAATGGGAAACTCAATTTA+TGG 0.183833 2.3:-41844822 MS.gene033826:CDS
TCTTTCACATCAAAGATCTT+TGG 0.287719 2.3:+41845304 None:intergenic
ATGCAACAAAGTACTGAAAA+TGG 0.300561 2.3:-41845091 MS.gene033826:CDS
CACAATCTCTTTGTGCACTT+TGG 0.338528 2.3:+41845240 None:intergenic
ATGATTACAAGCTTGAATCT+TGG 0.383659 2.3:+41845135 None:intergenic
TCCTGACCAGGTTTAGCAAC+TGG 0.388453 2.3:+41844842 None:intergenic
TCATGGATATGTTGCATTTG+AGG 0.410645 2.3:+41844977 None:intergenic
GCTTTGCCAGAAACAATAGA+TGG 0.415718 2.3:-41844791 MS.gene033826:CDS
ACTTGGTGAAGTTGAAGAAT+TGG 0.421405 2.3:-41844921 MS.gene033826:CDS
CTATTAAACACATTCAAGAT+TGG 0.421571 2.3:-41845525 MS.gene033826:CDS
TGCTAAACCTGGTCAGGAAT+GGG 0.447809 2.3:-41844837 MS.gene033826:CDS
TGTGAGGAGACAACATTATT+CGG 0.449930 2.3:+41845031 None:intergenic
ATGTTGTCTCCTCACATTCA+AGG 0.456551 2.3:-41845024 MS.gene033826:CDS
TCCAGTTGCTAAACCTGGTC+AGG 0.458685 2.3:-41844843 MS.gene033826:CDS
TGAGTTTCCCATTCCTGACC+AGG 0.483105 2.3:+41844830 None:intergenic
GAATCTTGTGGCATAGTCAT+TGG 0.501448 2.3:+41845385 None:intergenic
ATGAAGCATGGATGCCAAGT+TGG 0.507763 2.3:+41845205 None:intergenic
CAATCAAAGAAGCAATGGAT+TGG 0.512118 2.3:-41845482 MS.gene033826:CDS
TTGCTAAACCTGGTCAGGAA+TGG 0.512431 2.3:-41844838 MS.gene033826:CDS
CCTTCCATGTTCATGAAGCA+TGG 0.519687 2.3:+41845193 None:intergenic
GCATCCATGCTTCATGAACA+TGG 0.521603 2.3:-41845197 MS.gene033826:CDS
ATACAAGCAACAAAAGATTG+AGG 0.523829 2.3:-41845335 MS.gene033826:CDS
GTGGCTTCAAATGATCATCA+TGG 0.534306 2.3:+41844960 None:intergenic
GCTTGCTTAATTGTGTATGA+TGG 0.534651 2.3:-41845418 MS.gene033826:CDS
GTTTAATAGTTAATTTCCCA+CGG 0.538383 2.3:+41845539 None:intergenic
TACAAGCAACAAAAGATTGA+GGG 0.545039 2.3:-41845334 MS.gene033826:CDS
ACATTCAAGATTGGAGAGCT+CGG 0.553672 2.3:-41845516 MS.gene033826:CDS
CCATGCTTCATGAACATGGA+AGG 0.554983 2.3:-41845193 MS.gene033826:CDS
ACTTTCAATCAAAGAAGCAA+TGG 0.559273 2.3:-41845487 MS.gene033826:CDS
GATTGGGCTAGTCAAGTACT+TGG 0.562422 2.3:-41844887 MS.gene033826:CDS
GTAGAAATGGGTCGTGCCCG+TGG 0.563669 2.3:-41845556 None:intergenic
CATGCTTCATGAACATGGAA+GGG 0.576308 2.3:-41845192 MS.gene033826:CDS
ATGCTTCATGAACATGGAAG+GGG 0.583471 2.3:-41845191 MS.gene033826:CDS
TTTAATAGTTAATTTCCCAC+GGG 0.586000 2.3:+41845540 None:intergenic
GATGATCCAGTTGCTAAACC+TGG 0.589750 2.3:-41844848 MS.gene033826:CDS
ATCAAGCTTCCTTGAATGTG+AGG 0.590592 2.3:+41845015 None:intergenic
CTTAGTGATACTAATCGACT+TGG 0.592888 2.3:-41844938 MS.gene033826:CDS
TGATGAAAATGTATCCAACT+TGG 0.601327 2.3:-41845219 MS.gene033826:CDS
CACAAGATTCGACAATTGTA+CGG 0.605972 2.3:-41845372 MS.gene033826:CDS
TTAATTGTGTATGATGGTGA+TGG 0.608708 2.3:-41845412 MS.gene033826:CDS
CGTACAATTGTCGAATCTTG+TGG 0.612214 2.3:+41845373 None:intergenic
TAGAAATGGGTCGTGCCCGT+GGG 0.613629 2.3:-41845555 None:intergenic
CACTACTCAGACGCAAAATG+TGG 0.617631 2.3:-41845056 MS.gene033826:CDS
AGTCGATTAGTATCACTAAG+TGG 0.621773 2.3:+41844941 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CTATTAAACACATTCAAGAT+TGG - chr2.3:41844809-41844828 MS.gene033826:CDS 25.0%
! GTTTAATAGTTAATTTCCCA+CGG + chr2.3:41844798-41844817 None:intergenic 25.0%
! TAAAATCCATCTATTGTTTC+TGG + chr2.3:41845552-41845571 None:intergenic 25.0%
! TTTAATAGTTAATTTCCCAC+GGG + chr2.3:41844797-41844816 None:intergenic 25.0%
!! AATTGGATGATTTTATGGAT+TGG - chr2.3:41845430-41845449 MS.gene033826:CDS 25.0%
!! ATTGGATGATTTTATGGATT+GGG - chr2.3:41845431-41845450 MS.gene033826:CDS 25.0%
!! TGAAGAATTGGATGATTTTA+TGG - chr2.3:41845425-41845444 MS.gene033826:CDS 25.0%
ACTTTCAATCAAAGAAGCAA+TGG - chr2.3:41844847-41844866 MS.gene033826:CDS 30.0%
ATACAAGCAACAAAAGATTG+AGG - chr2.3:41844999-41845018 MS.gene033826:CDS 30.0%
ATGATTACAAGCTTGAATCT+TGG + chr2.3:41845202-41845221 None:intergenic 30.0%
TACAAGCAACAAAAGATTGA+GGG - chr2.3:41845000-41845019 MS.gene033826:CDS 30.0%
TCTTTCACATCAAAGATCTT+TGG + chr2.3:41845033-41845052 None:intergenic 30.0%
TGATGAAAATGTATCCAACT+TGG - chr2.3:41845115-41845134 MS.gene033826:CDS 30.0%
! TTAATTGTGTATGATGGTGA+TGG - chr2.3:41844922-41844941 MS.gene033826:CDS 30.0%
!! ACTTGGTAATGTTGCATATT+TGG - chr2.3:41845464-41845483 MS.gene033826:CDS 30.0%
!! ATGCAACAAAGTACTGAAAA+TGG - chr2.3:41845243-41845262 MS.gene033826:CDS 30.0%
!! TCTGAATTTTCTAGCAAGTT+TGG - chr2.3:41844886-41844905 MS.gene033826:CDS 30.0%
!!! TTGCTTGTATTTTTCAAGCA+TGG + chr2.3:41844989-41845008 None:intergenic 30.0%
AGTCGATTAGTATCACTAAG+TGG + chr2.3:41845396-41845415 None:intergenic 35.0%
CAATCAAAGAAGCAATGGAT+TGG - chr2.3:41844852-41844871 MS.gene033826:CDS 35.0%
CACAAGATTCGACAATTGTA+CGG - chr2.3:41844962-41844981 MS.gene033826:CDS 35.0%
CTTAGTGATACTAATCGACT+TGG - chr2.3:41845396-41845415 MS.gene033826:CDS 35.0%
GCTTGCTTAATTGTGTATGA+TGG - chr2.3:41844916-41844935 MS.gene033826:CDS 35.0%
GGAATGGGAAACTCAATTTA+TGG - chr2.3:41845512-41845531 MS.gene033826:CDS 35.0%
TCATGGATATGTTGCATTTG+AGG + chr2.3:41845360-41845379 None:intergenic 35.0%
TGTGAGGAGACAACATTATT+CGG + chr2.3:41845306-41845325 None:intergenic 35.0%
! ACTTGGTGAAGTTGAAGAAT+TGG - chr2.3:41845413-41845432 MS.gene033826:CDS 35.0%
ACATTCAAGATTGGAGAGCT+CGG - chr2.3:41844818-41844837 MS.gene033826:CDS 40.0%
ATCAAGCTTCCTTGAATGTG+AGG + chr2.3:41845322-41845341 None:intergenic 40.0%
ATGCTTCATGAACATGGAAG+GGG - chr2.3:41845143-41845162 MS.gene033826:CDS 40.0%
ATGTTGTCTCCTCACATTCA+AGG - chr2.3:41845310-41845329 MS.gene033826:CDS 40.0%
CACAATCTCTTTGTGCACTT+TGG + chr2.3:41845097-41845116 None:intergenic 40.0%
CATGCTTCATGAACATGGAA+GGG - chr2.3:41845142-41845161 MS.gene033826:CDS 40.0%
CGTACAATTGTCGAATCTTG+TGG + chr2.3:41844964-41844983 None:intergenic 40.0%
GAATCTTGTGGCATAGTCAT+TGG + chr2.3:41844952-41844971 None:intergenic 40.0%
GCTTTGCCAGAAACAATAGA+TGG - chr2.3:41845543-41845562 MS.gene033826:CDS 40.0%
GTGGCTTCAAATGATCATCA+TGG + chr2.3:41845377-41845396 None:intergenic 40.0%
ATGAAGCATGGATGCCAAGT+TGG + chr2.3:41845132-41845151 None:intergenic 45.0%
CACTACTCAGACGCAAAATG+TGG - chr2.3:41845278-41845297 MS.gene033826:CDS 45.0%
CCATGCTTCATGAACATGGA+AGG - chr2.3:41845141-41845160 MS.gene033826:CDS 45.0%
CCTTCCATGTTCATGAAGCA+TGG + chr2.3:41845144-41845163 None:intergenic 45.0%
GATGATCCAGTTGCTAAACC+TGG - chr2.3:41845486-41845505 MS.gene033826:CDS 45.0%
GCATCCATGCTTCATGAACA+TGG - chr2.3:41845137-41845156 MS.gene033826:CDS 45.0%
TGCTAAACCTGGTCAGGAAT+GGG - chr2.3:41845497-41845516 MS.gene033826:CDS 45.0%
TTGCTAAACCTGGTCAGGAA+TGG - chr2.3:41845496-41845515 MS.gene033826:CDS 45.0%
!! GATTGGGCTAGTCAAGTACT+TGG - chr2.3:41845447-41845466 MS.gene033826:CDS 45.0%
TCCAGTTGCTAAACCTGGTC+AGG - chr2.3:41845491-41845510 MS.gene033826:CDS 50.0%
TCCTGACCAGGTTTAGCAAC+TGG + chr2.3:41845495-41845514 None:intergenic 50.0%
TGAGTTTCCCATTCCTGACC+AGG + chr2.3:41845507-41845526 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 41844784 41845572 41844784 ID=MS.gene033826
chr2.3 mRNA 41844784 41845572 41844784 ID=MS.gene033826.t1;Parent=MS.gene033826
chr2.3 exon 41844784 41845572 41844784 ID=MS.gene033826.t1.exon1;Parent=MS.gene033826.t1
chr2.3 CDS 41844784 41845572 41844784 ID=cds.MS.gene033826.t1;Parent=MS.gene033826.t1
Gene Sequence

>MS.gene033826

ATGGGTCGTGCCCGTGGGAAATTAACTATTAAACACATTCAAGATTGGAGAGCTCGGAAATCAACTTTCAATCAAAGAAGCAATGGATTGGCAAAAAAAGTTTCTGAATTTTCTAGCAAGTTTGGAGTTGAAGCTTGCTTAATTGTGTATGATGGTGATGGTAGACCAATGACTATGCCACAAGATTCGACAATTGTACGGTCCATGCTTGAAAAATACAAGCAACAAAAGATTGAGGGTACAACTCCAAAGATCTTTGATGTGAAAGACTATTTTGCAAATAAGAAGAATAAGATTGAAGCTGATATTTCCAAAGTGCACAAAGAGATTGTGATGAAAATGTATCCAACTTGGCATCCATGCTTCATGAACATGGAAGGGGAACAACTCAAAACTTTCATTGCTATTGTAGATGCCAAGATTCAAGCTTGTAATCATAAAATTAACATGCTAAAGAAAATGCAACAAAGTACTGAAAATGGTTTCATGCTAAACACTACTCAGACGCAAAATGTGGCTCCGAATAATGTTGTCTCCTCACATTCAAGGAAGCTTGATGTCACTGATAGATTTCCTCAAATGCAACATATCCATGATGATCATTTGAAGCCACTTAGTGATACTAATCGACTTGGTGAAGTTGAAGAATTGGATGATTTTATGGATTGGGCTAGTCAAGTACTTGGTAATGTTGCATATTTGGATGATCCAGTTGCTAAACCTGGTCAGGAATGGGAAACTCAATTTATGGATTTTGATGCTTTGCCAGAAACAATAGATGGATTTTAA
Protein sequence

>MS.gene033826.t1

MGRARGKLTIKHIQDWRARKSTFNQRSNGLAKKVSEFSSKFGVEACLIVYDGDGRPMTMPQDSTIVRSMLEKYKQQKIEGTTPKIFDVKDYFANKKNKIEADISKVHKEIVMKMYPTWHPCFMNMEGEQLKTFIAIVDAKIQACNHKINMLKKMQQSTENGFMLNTTQTQNVAPNNVVSSHSRKLDVTDRFPQMQHIHDDHLKPLSDTNRLGEVEELDDFMDWASQVLGNVAYLDDPVAKPGQEWETQFMDFDALPETIDGF