AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene74977

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74977.t1 MTR_1g112030 97.403 154 4 0 1 154 3 156 2.99e-109 307
MS.gene74977.t1 MTR_1g112030 97.403 154 4 0 1 154 7 160 4.28e-109 307
MS.gene74977.t1 MTR_1g112050 90.196 153 15 0 1 153 1 153 1.15e-100 286
MS.gene74977.t1 MTR_2g086510 72.727 132 35 1 24 154 24 155 3.62e-67 201
MS.gene74977.t1 MTR_4g053120 65.385 156 48 3 1 154 4 155 1.22e-65 197
MS.gene74977.t1 MTR_2g006290 55.102 147 60 3 12 153 3 148 7.50e-50 157
MS.gene74977.t1 MTR_8g088720 55.556 144 61 3 12 153 4 146 1.06e-49 156
MS.gene74977.t1 MTR_5g006320 31.757 148 96 3 6 153 1 143 1.86e-19 79.7
MS.gene74977.t1 MTR_4g098490 39.535 86 52 0 69 154 74 159 1.19e-18 78.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74977.t1 AT2G27510 60.000 155 56 3 6 154 1 155 2.91e-60 184
MS.gene74977.t1 AT1G60950 56.209 153 56 5 6 153 1 147 7.46e-50 157
MS.gene74977.t1 AT1G10960 58.915 129 47 3 30 153 20 147 6.59e-47 149
MS.gene74977.t1 AT5G10000 52.381 126 57 2 31 153 22 147 8.26e-40 131
MS.gene74977.t1 AT4G14890 44.554 101 53 3 53 153 47 144 6.33e-20 81.3
MS.gene74977.t1 AT1G32550 39.535 86 52 0 69 154 69 154 3.45e-18 77.4
MS.gene74977.t1 AT1G32550 37.255 102 45 3 69 154 69 167 8.19e-13 63.5

Find 33 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAATCACAGTATCTGATTT+TGG 0.126493 1.3:+75968192 None:intergenic
TTCACAGATCTCAAACTTGA+TGG 0.324898 1.3:+75968513 None:intergenic
TTGTGCTGGCCAAGTGGTTA+CGG 0.329557 1.3:-75968295 MS.gene74977:CDS
CCCTGATGACTCTTACATTC+TGG 0.354348 1.3:-75968379 MS.gene74977:CDS
GCACCCGCTCTGCATGAATA+AGG 0.356204 1.3:+75968327 None:intergenic
TGTGCTGGCCAAGTGGTTAC+GGG 0.411836 1.3:-75968294 MS.gene74977:CDS
AAGAATGTGTCCAAAACATT+TGG 0.421132 1.3:-75968492 MS.gene74977:CDS
AATTCGTTCTCTGTTCCATC+TGG 0.449513 1.3:+75968408 None:intergenic
TCCAGAATGTAAGAGTCATC+AGG 0.451621 1.3:+75968378 None:intergenic
CTTTCAACAGCTTCATTGTA+CGG 0.469663 1.3:-75968576 MS.gene74977:CDS
CTGGATTCAGCTGAAGATGC+TGG 0.504908 1.3:-75968360 MS.gene74977:CDS
GGTGCATGTTCTACTTGTGC+TGG 0.505031 1.3:-75968309 MS.gene74977:CDS
GTATACAAAGTGAAACTGAT+TGG 0.509553 1.3:-75968432 MS.gene74977:CDS
CTACCTTATTCATGCAGAGC+GGG 0.513286 1.3:-75968330 MS.gene74977:CDS
CGACAGAACCCGTAACCACT+TGG 0.534235 1.3:+75968286 None:intergenic
GTGAAACTGATTGGACCAGA+TGG 0.549003 1.3:-75968423 MS.gene74977:CDS
TGTACGGAACAGTGCCCTCT+CGG 0.555453 1.3:-75968560 MS.gene74977:CDS
CGATGAGCAGCAAATCGAGA+AGG 0.589494 1.3:-75968241 MS.gene74977:CDS
CCAGAATGTAAGAGTCATCA+GGG 0.593554 1.3:+75968379 None:intergenic
TCTCACGGTGGACATATTCA+CGG 0.595716 1.3:+75968599 None:intergenic
ATCATTTAGAGTATCTGCAA+TGG 0.596293 1.3:-75968457 MS.gene74977:CDS
TTCTACTTGTGCTGGCCAAG+TGG 0.605670 1.3:-75968301 MS.gene74977:CDS
TTCAGCTGAAGATGCTGGAG+TGG 0.623617 1.3:-75968355 MS.gene74977:CDS
GATGAGCAGCAAATCGAGAA+GGG 0.629753 1.3:-75968240 MS.gene74977:CDS
TACTGTGATTTACACACACA+AGG 0.647153 1.3:-75968181 MS.gene74977:CDS
TCTCGATTTGCTGCTCATCG+AGG 0.652018 1.3:+75968244 None:intergenic
TGAAGCTGTTGAAAGTCTCA+CGG 0.659563 1.3:+75968584 None:intergenic
AGAGCACAAGATGTCCGAGA+GGG 0.687025 1.3:+75968546 None:intergenic
GCTACCTTATTCATGCAGAG+CGG 0.717700 1.3:-75968331 MS.gene74977:CDS
TGTGATTTACACACACAAGG+AGG 0.721823 1.3:-75968178 MS.gene74977:CDS
CAGAGCACAAGATGTCCGAG+AGG 0.730685 1.3:+75968545 None:intergenic
CAGAATGTAAGAGTCATCAG+GGG 0.754480 1.3:+75968380 None:intergenic
AGCTGTTGAAAGTCTCACGG+TGG 0.759008 1.3:+75968587 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATCACAGTATCTGATTTT+GGG + chr1.3:75968580-75968599 None:intergenic 25.0%
!! TAAATCACAGTATCTGATTT+TGG + chr1.3:75968581-75968600 None:intergenic 25.0%
!!! AGATTTTAGTCCAAATGTTT+TGG + chr1.3:75968291-75968310 None:intergenic 25.0%
AAGAATGTGTCCAAAACATT+TGG - chr1.3:75968278-75968297 MS.gene74977:CDS 30.0%
GTATACAAAGTGAAACTGAT+TGG - chr1.3:75968338-75968357 MS.gene74977:CDS 30.0%
! ATCATTTAGAGTATCTGCAA+TGG - chr1.3:75968313-75968332 MS.gene74977:CDS 30.0%
CTTTCAACAGCTTCATTGTA+CGG - chr1.3:75968194-75968213 MS.gene74977:CDS 35.0%
TACTGTGATTTACACACACA+AGG - chr1.3:75968589-75968608 MS.gene74977:CDS 35.0%
TTCACAGATCTCAAACTTGA+TGG + chr1.3:75968260-75968279 None:intergenic 35.0%
AATTCGTTCTCTGTTCCATC+TGG + chr1.3:75968365-75968384 None:intergenic 40.0%
CAGAATGTAAGAGTCATCAG+GGG + chr1.3:75968393-75968412 None:intergenic 40.0%
CCAGAATGTAAGAGTCATCA+GGG + chr1.3:75968394-75968413 None:intergenic 40.0%
TCCAGAATGTAAGAGTCATC+AGG + chr1.3:75968395-75968414 None:intergenic 40.0%
TGAAGCTGTTGAAAGTCTCA+CGG + chr1.3:75968189-75968208 None:intergenic 40.0%
TGTGATTTACACACACAAGG+AGG - chr1.3:75968592-75968611 MS.gene74977:CDS 40.0%
CCCTGATGACTCTTACATTC+TGG - chr1.3:75968391-75968410 MS.gene74977:CDS 45.0%
CTACCTTATTCATGCAGAGC+GGG - chr1.3:75968440-75968459 MS.gene74977:CDS 45.0%
GATGAGCAGCAAATCGAGAA+GGG - chr1.3:75968530-75968549 MS.gene74977:CDS 45.0%
GCTACCTTATTCATGCAGAG+CGG - chr1.3:75968439-75968458 MS.gene74977:CDS 45.0%
GTGAAACTGATTGGACCAGA+TGG - chr1.3:75968347-75968366 MS.gene74977:CDS 45.0%
TCTCACGGTGGACATATTCA+CGG + chr1.3:75968174-75968193 None:intergenic 45.0%
AGAGCACAAGATGTCCGAGA+GGG + chr1.3:75968227-75968246 None:intergenic 50.0%
AGCTGTTGAAAGTCTCACGG+TGG + chr1.3:75968186-75968205 None:intergenic 50.0%
CGATGAGCAGCAAATCGAGA+AGG - chr1.3:75968529-75968548 MS.gene74977:CDS 50.0%
CTGGATTCAGCTGAAGATGC+TGG - chr1.3:75968410-75968429 MS.gene74977:CDS 50.0%
GGTGCATGTTCTACTTGTGC+TGG - chr1.3:75968461-75968480 MS.gene74977:CDS 50.0%
TTCAGCTGAAGATGCTGGAG+TGG - chr1.3:75968415-75968434 MS.gene74977:CDS 50.0%
! TTCTACTTGTGCTGGCCAAG+TGG - chr1.3:75968469-75968488 MS.gene74977:CDS 50.0%
! TTGTGCTGGCCAAGTGGTTA+CGG - chr1.3:75968475-75968494 MS.gene74977:CDS 50.0%
!! TCTCGATTTGCTGCTCATCG+AGG + chr1.3:75968529-75968548 None:intergenic 50.0%
CAGAGCACAAGATGTCCGAG+AGG + chr1.3:75968228-75968247 None:intergenic 55.0%
CGACAGAACCCGTAACCACT+TGG + chr1.3:75968487-75968506 None:intergenic 55.0%
GCACCCGCTCTGCATGAATA+AGG + chr1.3:75968446-75968465 None:intergenic 55.0%
TGTACGGAACAGTGCCCTCT+CGG - chr1.3:75968210-75968229 MS.gene74977:CDS 55.0%
! TGTGCTGGCCAAGTGGTTAC+GGG - chr1.3:75968476-75968495 MS.gene74977:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 75968164 75968628 75968164 ID=MS.gene74977
chr1.3 mRNA 75968164 75968628 75968164 ID=MS.gene74977.t1;Parent=MS.gene74977
chr1.3 exon 75968164 75968628 75968164 ID=MS.gene74977.t1.exon1;Parent=MS.gene74977.t1
chr1.3 CDS 75968164 75968628 75968164 ID=cds.MS.gene74977.t1;Parent=MS.gene74977.t1
Gene Sequence

>MS.gene74977

ATGTCAGCCGTGAATATGTCCACCGTGAGACTTTCAACAGCTTCATTGTACGGAACAGTGCCCTCTCGGACATCTTGTGCTCTGATGAAGAGTCCATCAAGTTTGAGATCTGTGAAGAATGTGTCCAAAACATTTGGACTAAAATCTTCATCATTTAGAGTATCTGCAATGGCAGTATACAAAGTGAAACTGATTGGACCAGATGGAACAGAGAACGAATTTGATGCCCCTGATGACTCTTACATTCTGGATTCAGCTGAAGATGCTGGAGTGGAGCTACCTTATTCATGCAGAGCGGGTGCATGTTCTACTTGTGCTGGCCAAGTGGTTACGGGTTCTGTCGATCAGTCTGATCAATCTTTCCTCGATGAGCAGCAAATCGAGAAGGGTTATCTTCTCACTTGTGTCTCATACCCAAAATCAGATACTGTGATTTACACACACAAGGAGGAAGAACTCTACTAA
Protein sequence

>MS.gene74977.t1

MSAVNMSTVRLSTASLYGTVPSRTSCALMKSPSSLRSVKNVSKTFGLKSSSFRVSAMAVYKVKLIGPDGTENEFDAPDDSYILDSAEDAGVELPYSCRAGACSTCAGQVVTGSVDQSDQSFLDEQQIEKGYLLTCVSYPKSDTVIYTHKEEELY