AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene002482

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002482.t1 MTR_2g014200 89.189 111 10 1 1 109 1 111 1.19e-54 167
MS.gene002482.t1 MTR_4g088555 58.559 111 43 2 1 109 1 110 1.11e-31 109
MS.gene002482.t1 MTR_8g005960 64.286 56 20 0 54 109 179 234 3.66e-20 83.6
MS.gene002482.t1 MTR_2g078770 56.897 58 25 0 52 109 48 105 1.44e-19 79.3
MS.gene002482.t1 MTR_1g035010 50.575 87 38 2 23 109 70 151 1.62e-19 82.8
MS.gene002482.t1 MTR_7g110320 50.649 77 28 1 33 109 126 192 6.89e-19 81.3
MS.gene002482.t1 MTR_8g463140 62.000 50 19 0 60 109 63 112 2.47e-18 76.3
MS.gene002482.t1 MTR_7g110320 50.649 77 28 1 33 109 126 192 6.13e-18 78.6
MS.gene002482.t1 MTR_5g046670 51.562 64 31 0 46 109 228 291 4.75e-17 75.9
MS.gene002482.t1 MTR_1g086250 56.452 62 26 1 49 109 133 194 8.59e-17 75.1
MS.gene002482.t1 MTR_3g085180 46.429 84 43 2 28 109 129 212 1.22e-16 74.7
MS.gene002482.t1 MTR_7g444860 58.929 56 23 0 54 109 141 196 1.35e-16 73.9
MS.gene002482.t1 MTR_7g092930 59.322 59 20 1 55 109 57 115 1.49e-16 73.9
MS.gene002482.t1 MTR_2g046550 48.649 74 28 1 36 109 123 186 1.53e-16 74.3
MS.gene002482.t1 MTR_3g099080 62.264 53 20 0 57 109 93 145 1.89e-16 73.9
MS.gene002482.t1 MTR_1g053715 59.649 57 23 0 53 109 65 121 2.32e-16 73.6
MS.gene002482.t1 MTR_7g028740 61.111 54 21 0 56 109 71 124 2.66e-16 73.6
MS.gene002482.t1 MTR_4g109770 62.264 53 20 0 57 109 118 170 3.85e-16 73.2
MS.gene002482.t1 MTR_2g461920 64.583 48 17 0 62 109 171 218 9.16e-16 72.0
MS.gene002482.t1 MTR_8g096780 35.772 123 62 2 1 109 27 146 7.37e-15 69.3
MS.gene002482.t1 MTR_8g080690 53.846 52 24 0 60 111 149 200 1.90e-13 65.5
MS.gene002482.t1 MTR_8g080670 54.000 50 23 0 60 109 160 209 1.97e-12 62.8
MS.gene002482.t1 MTR_8g080680 54.000 50 23 0 60 109 130 179 2.97e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002482.t1 AT1G02065 59.375 64 26 0 54 117 180 243 1.18e-21 86.3
MS.gene002482.t1 AT1G53160 55.072 69 31 0 41 109 33 101 1.01e-19 79.7
MS.gene002482.t1 AT1G53160 55.072 69 31 0 41 109 33 101 1.01e-19 79.7
MS.gene002482.t1 AT1G53160 55.072 69 31 0 41 109 33 101 1.13e-19 79.7
MS.gene002482.t1 AT2G33810 63.333 60 19 1 53 109 42 101 1.36e-19 78.2
MS.gene002482.t1 AT1G02065 64.286 56 20 0 54 109 180 235 1.46e-19 82.0
MS.gene002482.t1 AT1G76580 68.000 50 16 0 60 109 112 161 1.69e-19 83.2
MS.gene002482.t1 AT1G20980 62.295 61 21 1 49 109 109 167 2.24e-19 82.8
MS.gene002482.t1 AT3G60030 60.938 64 20 2 50 109 112 174 5.42e-19 81.6
MS.gene002482.t1 AT1G76580 68.000 50 16 0 60 109 112 161 5.56e-19 81.6
MS.gene002482.t1 AT1G76580 68.000 50 16 0 60 109 112 161 5.61e-19 81.6
MS.gene002482.t1 AT2G47070 55.224 67 26 1 43 109 91 153 5.83e-18 78.6
MS.gene002482.t1 AT1G27370 47.887 71 35 1 41 109 153 223 3.56e-17 75.9
MS.gene002482.t1 AT1G27370 47.887 71 35 1 41 109 153 223 5.45e-17 75.5
MS.gene002482.t1 AT1G27370 47.887 71 35 1 41 109 153 223 5.45e-17 75.5
MS.gene002482.t1 AT1G27370 47.887 71 35 1 41 109 153 223 5.45e-17 75.5
MS.gene002482.t1 AT1G27370 47.887 71 35 1 41 109 153 223 5.45e-17 75.5
MS.gene002482.t1 AT1G27370 47.887 71 35 1 41 109 153 223 5.45e-17 75.5
MS.gene002482.t1 AT1G27370 47.887 71 35 1 41 109 153 223 5.45e-17 75.5
MS.gene002482.t1 AT5G43270 58.824 51 21 0 59 109 166 216 1.85e-16 73.9
MS.gene002482.t1 AT5G43270 58.824 51 21 0 59 109 166 216 1.85e-16 73.9
MS.gene002482.t1 AT5G43270 58.824 51 21 0 59 109 166 216 1.85e-16 73.9
MS.gene002482.t1 AT1G27360 49.296 71 35 1 40 109 152 222 4.26e-16 73.2
MS.gene002482.t1 AT1G27360 49.296 71 35 1 40 109 152 222 4.26e-16 73.2
MS.gene002482.t1 AT1G27360 49.296 71 35 1 40 109 152 222 4.26e-16 73.2
MS.gene002482.t1 AT1G27360 49.296 71 35 1 40 109 152 222 4.26e-16 73.2
MS.gene002482.t1 AT1G69170 56.452 62 25 1 50 109 110 171 6.51e-16 72.4
MS.gene002482.t1 AT3G15270 56.250 48 21 0 62 109 63 110 1.22e-15 69.3
MS.gene002482.t1 AT3G57920 47.436 78 36 1 32 109 34 106 4.63e-15 70.1
MS.gene002482.t1 AT5G50670 52.542 59 28 0 51 109 90 148 5.37e-15 69.7
MS.gene002482.t1 AT5G50670 52.542 59 28 0 51 109 90 148 5.37e-15 69.7
MS.gene002482.t1 AT5G50570 52.542 59 28 0 51 109 90 148 5.37e-15 69.7
MS.gene002482.t1 AT5G50570 52.542 59 28 0 51 109 90 148 5.37e-15 69.7
MS.gene002482.t1 AT2G42200 54.000 50 23 0 60 109 72 121 9.25e-14 66.2

Find 27 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAAACCTTATGGCGCTTA+TGG 0.248219 2.1:+70786952 None:intergenic
AATGGTATTCACAAACCTTA+TGG 0.308780 2.1:+70786943 None:intergenic
TTAACTTATGGATGGAAGTT+GGG 0.358056 2.1:-70787189 None:intergenic
GGTTTGTGAATACCATTCTA+AGG 0.368542 2.1:-70786937 MS.gene002482:CDS
TTGTCAACCTGCTACATTGC+TGG 0.372075 2.1:+70786874 None:intergenic
GAAGAGGAAGATGTGAGTTA+TGG 0.375825 2.1:-70787107 MS.gene002482:CDS
CTTAACTTATGGATGGAAGT+TGG 0.386744 2.1:-70787190 None:intergenic
GAGATGATGGGAAGAAGAAA+AGG 0.443829 2.1:-70787085 MS.gene002482:CDS
TGAAGTAGAAGTAGAAGAAG+AGG 0.463169 2.1:-70787123 MS.gene002482:CDS
ATGGATGGAAGTTGGGGTGA+GGG 0.465253 2.1:-70787182 MS.gene002482:CDS
GATGTGAGTTATGGAGATGA+TGG 0.466595 2.1:-70787098 MS.gene002482:CDS
AACAGGAAAGGGTCAAAAGC+TGG 0.479614 2.1:-70787041 MS.gene002482:CDS
TATGGATGGAAGTTGGGGTG+AGG 0.500828 2.1:-70787183 MS.gene002482:CDS
TGACTGATCATCTTTACAAC+AGG 0.501584 2.1:-70787058 MS.gene002482:CDS
ATCATCTTTACAACAGGAAA+GGG 0.510630 2.1:-70787052 MS.gene002482:CDS
TTGAAGCTCTGAAATGAGTA+CGG 0.530837 2.1:+70786908 None:intergenic
GCAGTACCATAAGCGCCATA+AGG 0.534642 2.1:-70786958 MS.gene002482:CDS
GATTTACCTTAACTTATGGA+TGG 0.546093 2.1:-70787197 None:intergenic
TAACTTATGGATGGAAGTTG+GGG 0.568515 2.1:-70787188 None:intergenic
GATCATCTTTACAACAGGAA+AGG 0.569404 2.1:-70787053 MS.gene002482:CDS
GTACGGAATGAGCCTTAGAA+TGG 0.572289 2.1:+70786925 None:intergenic
AGATGATGGGAAGAAGAAAA+GGG 0.572790 2.1:-70787084 MS.gene002482:CDS
CAGTTATCAACTTGACAAGA+AGG 0.576877 2.1:+70787005 None:intergenic
ATGTGAGTTATGGAGATGAT+GGG 0.595276 2.1:-70787097 MS.gene002482:CDS
TCATTTCAGAGCTTCAACAA+AGG 0.599380 2.1:-70786902 MS.gene002482:CDS
TGATGGGAAGAAGAAAAGGG+TGG 0.655448 2.1:-70787081 MS.gene002482:CDS
AGGAAAGGGTCAAAAGCTGG+AGG 0.666819 2.1:-70787038 MS.gene002482:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAAAAAAGAGGTGAAATTA+GGG + chr2.1:70787180-70787199 None:intergenic 25.0%
AATGGTATTCACAAACCTTA+TGG + chr2.1:70787087-70787106 None:intergenic 30.0%
ATCATCTTTACAACAGGAAA+GGG - chr2.1:70786975-70786994 MS.gene002482:CDS 30.0%
GGAAAAAAAGAGGTGAAATT+AGG + chr2.1:70787181-70787200 None:intergenic 30.0%
ATGTGAGTTATGGAGATGAT+GGG - chr2.1:70786930-70786949 MS.gene002482:CDS 35.0%
CAGTTATCAACTTGACAAGA+AGG + chr2.1:70787025-70787044 None:intergenic 35.0%
GATCATCTTTACAACAGGAA+AGG - chr2.1:70786974-70786993 MS.gene002482:CDS 35.0%
GGTTTGTGAATACCATTCTA+AGG - chr2.1:70787090-70787109 MS.gene002482:CDS 35.0%
TCATTTCAGAGCTTCAACAA+AGG - chr2.1:70787125-70787144 MS.gene002482:CDS 35.0%
TGAAGTAGAAGTAGAAGAAG+AGG - chr2.1:70786904-70786923 MS.gene002482:CDS 35.0%
TGACTGATCATCTTTACAAC+AGG - chr2.1:70786969-70786988 MS.gene002482:CDS 35.0%
!! AGATGATGGGAAGAAGAAAA+GGG - chr2.1:70786943-70786962 MS.gene002482:CDS 35.0%
!! TTGAAGCTCTGAAATGAGTA+CGG + chr2.1:70787122-70787141 None:intergenic 35.0%
GAAGAGGAAGATGTGAGTTA+TGG - chr2.1:70786920-70786939 MS.gene002482:CDS 40.0%
GATGTGAGTTATGGAGATGA+TGG - chr2.1:70786929-70786948 MS.gene002482:CDS 40.0%
!! GAGATGATGGGAAGAAGAAA+AGG - chr2.1:70786942-70786961 MS.gene002482:CDS 40.0%
AACAGGAAAGGGTCAAAAGC+TGG - chr2.1:70786986-70787005 MS.gene002482:CDS 45.0%
CACAAACCTTATGGCGCTTA+TGG + chr2.1:70787078-70787097 None:intergenic 45.0%
GTACGGAATGAGCCTTAGAA+TGG + chr2.1:70787105-70787124 None:intergenic 45.0%
TGATGGGAAGAAGAAAAGGG+TGG - chr2.1:70786946-70786965 MS.gene002482:CDS 45.0%
TTGTCAACCTGCTACATTGC+TGG + chr2.1:70787156-70787175 None:intergenic 45.0%
AGGAAAGGGTCAAAAGCTGG+AGG - chr2.1:70786989-70787008 MS.gene002482:CDS 50.0%
ATGGATGGAAGTTGGGGTGA+GGG - chr2.1:70786845-70786864 MS.gene002482:CDS 50.0%
GCAGTACCATAAGCGCCATA+AGG - chr2.1:70787069-70787088 MS.gene002482:CDS 50.0%
! GGTTTTGCCAGCAATGTAGC+AGG - chr2.1:70787146-70787165 MS.gene002482:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 70786845 70787204 70786845 ID=MS.gene002482
chr2.1 mRNA 70786845 70787204 70786845 ID=MS.gene002482.t1;Parent=MS.gene002482
chr2.1 exon 70786845 70787204 70786845 ID=MS.gene002482.t1.exon1;Parent=MS.gene002482.t1
chr2.1 CDS 70786845 70787204 70786845 ID=cds.MS.gene002482.t1;Parent=MS.gene002482.t1
Gene Sequence

>MS.gene002482

ATGGATGGAAGTTGGGGTGAGGGAAAGAGAATCTATGAGTACAGAGAAGAAGATGAGTATGAAGTAGAAGTAGAAGAAGAGGAAGATGTGAGTTATGGAGATGATGGGAAGAAGAAAAGGGTGGTGACTGATCATCTTTACAACAGGAAAGGGTCAAAAGCTGGAGGATCAGTGACACCTTCTTGTCAAGTTGATAACTGTAATGCTGATCTAAGTGTTGCTAAGCAGTACCATAAGCGCCATAAGGTTTGTGAATACCATTCTAAGGCTCATTCCGTACTCATTTCAGAGCTTCAACAAAGGTTTTGCCAGCAATGTAGCAGGTTGACAAACCCTAATTTCACCTCTTTTTTTCCTTGA
Protein sequence

>MS.gene002482.t1

MDGSWGEGKRIYEYREEDEYEVEVEEEEDVSYGDDGKKKRVVTDHLYNRKGSKAGGSVTPSCQVDNCNADLSVAKQYHKRHKVCEYHSKAHSVLISELQQRFCQQCSRLTNPNFTSFFP