AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene04748


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04748.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene04748.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene04748.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene04748.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene04748.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene04748.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene04748.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene04748.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene04748.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene04748.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene04748.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene04748.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene04748.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene04748.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene04748.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene04748.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene04748.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene04748.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene04748.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene04748.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene04748.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene04748.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene04748.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene04748.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04748.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene04748.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene04748.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene04748.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene04748.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene04748.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene04748.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene04748.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene04748.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene04748.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene04748.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene04748.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene04748.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene04748.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene04748.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene04748.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene04748.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene04748.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene04748.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene04748.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene04748.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene04748.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 41 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGATTTCTCTAACCAATCTT+TGG 0.224743 4.2:-2288192 None:intergenic
GCCGCTGAAGCTTATCTTGT+TGG 0.348800 4.2:+2288274 MS.gene04748:CDS
TTGAATATCCTTAGGCATAA+TGG 0.349539 4.2:-2288344 None:intergenic
AGCTGATTTCCGAGCGGCTT+TGG 0.356003 4.2:-2288056 None:intergenic
TCACGAAGAGCAACAGTTCC+GGG 0.371586 4.2:-2288118 None:intergenic
CTCACGAAGAGCAACAGTTC+CGG 0.390727 4.2:-2288119 None:intergenic
TTCTTCACTCCTCCGGTGGC+CGG 0.400280 4.2:-2288079 None:intergenic
GAAGCTTCCATTCCAAAGAT+TGG 0.412914 4.2:+2288180 MS.gene04748:CDS
CTTGCAAGTTGAATATCCTT+AGG 0.413826 4.2:-2288352 None:intergenic
AGGATTTCAAAACTGATCTC+AGG 0.429009 4.2:+2288218 MS.gene04748:CDS
GGATTTGCGAGCGGTTTGTT+TGG 0.441284 4.2:-2287999 None:intergenic
AGAGCACTGAGCTTCTCATC+AGG 0.458709 4.2:+2288158 MS.gene04748:CDS
TTGGTGGCGAGTTGTTTCCT+TGG 0.473034 4.2:-2288037 None:intergenic
GGCTTCTTGAAGAGCAGAAA+CGG 0.474881 4.2:-2288254 None:intergenic
TTTCCTTGGAGCTTTGCCTC+CGG 0.476973 4.2:-2288023 None:intergenic
CGGAAATCAGCTCCGGCCAC+CGG 0.487022 4.2:+2288067 MS.gene04748:CDS
CCTTGGAGCTTTGCCTCCGG+TGG 0.489182 4.2:-2288020 None:intergenic
TGATTTCCGAGCGGCTTTGG+TGG 0.495094 4.2:-2288053 None:intergenic
AGCCGCTCGGAAATCAGCTC+CGG 0.498921 4.2:+2288060 MS.gene04748:CDS
CAGTGCTCTTCTGATACTTA+CGG 0.501233 4.2:-2288144 None:intergenic
GTGTGGCTTCTTCACTCCTC+CGG 0.509508 4.2:-2288086 None:intergenic
TCTCTAACCAATCTTTGGAA+TGG 0.520211 4.2:-2288187 None:intergenic
GAGAGTTACCATTATGCCTA+AGG 0.535535 4.2:+2288336 MS.gene04748:CDS
AACTCGCCACCAAAGCCGCT+CGG 0.570459 4.2:+2288047 MS.gene04748:CDS
CCACCGGAGGCAAAGCTCCA+AGG 0.572363 4.2:+2288020 MS.gene04748:CDS
AAGAAGAATCAGAGGCGAGA+GGG 0.597241 4.2:+2288372 MS.gene04748:CDS
TGGCTTCTTCACTCCTCCGG+TGG 0.598450 4.2:-2288083 None:intergenic
AAATCAGCTCCGGCCACCGG+AGG 0.599225 4.2:+2288070 MS.gene04748:CDS
ATTGGTTAGAGAAATCGCTC+AGG 0.600201 4.2:+2288198 MS.gene04748:CDS
AGCATGAATAGCGCAAAGGT+TGG 0.613099 4.2:-2288311 None:intergenic
CAAACCGCTCGCAAATCCAC+CGG 0.629023 4.2:+2288004 MS.gene04748:CDS
GCCTCCGGTGGATTTGCGAG+CGG 0.639769 4.2:-2288008 None:intergenic
ACCGCTCGCAAATCCACCGG+AGG 0.648108 4.2:+2288007 MS.gene04748:CDS
CAAGAAGAATCAGAGGCGAG+AGG 0.648850 4.2:+2288371 MS.gene04748:CDS
AAGCCACACAGATTCCGTCC+CGG 0.653763 4.2:+2288100 MS.gene04748:CDS
TCTTAGCATGAATAGCGCAA+AGG 0.658330 4.2:-2288315 None:intergenic
CAACTTGCAAGAAGAATCAG+AGG 0.660238 4.2:+2288364 MS.gene04748:CDS
ACCAACAAGATAAGCTTCAG+CGG 0.667251 4.2:-2288275 None:intergenic
GAAGAGCAACAGTTCCGGGA+CGG 0.670696 4.2:-2288114 None:intergenic
GTTCCGGGACGGAATCTGTG+TGG 0.693886 4.2:-2288103 None:intergenic
GGCCGGAGCTGATTTCCGAG+CGG 0.718116 4.2:-2288062 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGAATATCCTTAGGCATAA+TGG - chr4.2:2288347-2288366 None:intergenic 30.0%
AGGATTTCAAAACTGATCTC+AGG + chr4.2:2288218-2288237 MS.gene04748:CDS 35.0%
CGATTTCTCTAACCAATCTT+TGG - chr4.2:2288195-2288214 None:intergenic 35.0%
! CTTGCAAGTTGAATATCCTT+AGG - chr4.2:2288355-2288374 None:intergenic 35.0%
! TCTCTAACCAATCTTTGGAA+TGG - chr4.2:2288190-2288209 None:intergenic 35.0%
ACCAACAAGATAAGCTTCAG+CGG - chr4.2:2288278-2288297 None:intergenic 40.0%
ATTGGTTAGAGAAATCGCTC+AGG + chr4.2:2288198-2288217 MS.gene04748:CDS 40.0%
CAACTTGCAAGAAGAATCAG+AGG + chr4.2:2288364-2288383 MS.gene04748:CDS 40.0%
CAGTGCTCTTCTGATACTTA+CGG - chr4.2:2288147-2288166 None:intergenic 40.0%
GAAGCTTCCATTCCAAAGAT+TGG + chr4.2:2288180-2288199 MS.gene04748:CDS 40.0%
GAGAGTTACCATTATGCCTA+AGG + chr4.2:2288336-2288355 MS.gene04748:CDS 40.0%
TCTTAGCATGAATAGCGCAA+AGG - chr4.2:2288318-2288337 None:intergenic 40.0%
AAGAAGAATCAGAGGCGAGA+GGG + chr4.2:2288372-2288391 MS.gene04748:CDS 45.0%
AGCATGAATAGCGCAAAGGT+TGG - chr4.2:2288314-2288333 None:intergenic 45.0%
GGCTTCTTGAAGAGCAGAAA+CGG - chr4.2:2288257-2288276 None:intergenic 45.0%
CAAGAAGAATCAGAGGCGAG+AGG + chr4.2:2288371-2288390 MS.gene04748:CDS 50.0%
CTCACGAAGAGCAACAGTTC+CGG - chr4.2:2288122-2288141 None:intergenic 50.0%
GCCGCTGAAGCTTATCTTGT+TGG + chr4.2:2288274-2288293 MS.gene04748:CDS 50.0%
TCACGAAGAGCAACAGTTCC+GGG - chr4.2:2288121-2288140 None:intergenic 50.0%
TTTCCTTGGAGCTTTGCCTC+CGG - chr4.2:2288026-2288045 None:intergenic 50.0%
! GGATTTGCGAGCGGTTTGTT+TGG - chr4.2:2288002-2288021 None:intergenic 50.0%
!! AGAGCACTGAGCTTCTCATC+AGG + chr4.2:2288158-2288177 MS.gene04748:CDS 50.0%
!! TTGGTGGCGAGTTGTTTCCT+TGG - chr4.2:2288040-2288059 None:intergenic 50.0%
AAGCCACACAGATTCCGTCC+CGG + chr4.2:2288100-2288119 MS.gene04748:CDS 55.0%
CAAACCGCTCGCAAATCCAC+CGG + chr4.2:2288004-2288023 MS.gene04748:CDS 55.0%
GAAGAGCAACAGTTCCGGGA+CGG - chr4.2:2288117-2288136 None:intergenic 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.2:2288089-2288108 None:intergenic 55.0%
! AGCTGATTTCCGAGCGGCTT+TGG - chr4.2:2288059-2288078 None:intergenic 55.0%
! TGATTTCCGAGCGGCTTTGG+TGG - chr4.2:2288056-2288075 None:intergenic 55.0%
AACTCGCCACCAAAGCCGCT+CGG + chr4.2:2288047-2288066 MS.gene04748:CDS 60.0%
AGCCGCTCGGAAATCAGCTC+CGG + chr4.2:2288060-2288079 MS.gene04748:CDS 60.0%
GTTCCGGGACGGAATCTGTG+TGG - chr4.2:2288106-2288125 None:intergenic 60.0%
TGGCTTCTTCACTCCTCCGG+TGG - chr4.2:2288086-2288105 None:intergenic 60.0%
TTCTTCACTCCTCCGGTGGC+CGG - chr4.2:2288082-2288101 None:intergenic 60.0%
AAATCAGCTCCGGCCACCGG+AGG + chr4.2:2288070-2288089 MS.gene04748:CDS 65.0%
ACCGCTCGCAAATCCACCGG+AGG + chr4.2:2288007-2288026 MS.gene04748:CDS 65.0%
CCACCGGAGGCAAAGCTCCA+AGG + chr4.2:2288020-2288039 MS.gene04748:CDS 65.0%
CCTTGGAGCTTTGCCTCCGG+TGG - chr4.2:2288023-2288042 None:intergenic 65.0%
CGGAAATCAGCTCCGGCCAC+CGG + chr4.2:2288067-2288086 MS.gene04748:CDS 65.0%
! GCCTCCGGTGGATTTGCGAG+CGG - chr4.2:2288011-2288030 None:intergenic 65.0%
! GGCCGGAGCTGATTTCCGAG+CGG - chr4.2:2288065-2288084 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 2287989 2288399 2287989 ID=MS.gene04748
chr4.2 mRNA 2287989 2288399 2287989 ID=MS.gene04748.t1;Parent=MS.gene04748
chr4.2 exon 2287989 2288399 2287989 ID=MS.gene04748.t1.exon1;Parent=MS.gene04748.t1
chr4.2 CDS 2287989 2288399 2287989 ID=cds.MS.gene04748.t1;Parent=MS.gene04748.t1
Gene Sequence

>MS.gene04748

ATGGCTCGTACCAAACAAACCGCTCGCAAATCCACCGGAGGCAAAGCTCCAAGGAAACAACTCGCCACCAAAGCCGCTCGGAAATCAGCTCCGGCCACCGGAGGAGTGAAGAAGCCACACAGATTCCGTCCCGGAACTGTTGCTCTTCGTGAGATCCGTAAGTATCAGAAGAGCACTGAGCTTCTCATCAGGAAGCTTCCATTCCAAAGATTGGTTAGAGAAATCGCTCAGGATTTCAAAACTGATCTCAGGTTTCAGAGTAGCGCCGTTTCTGCTCTTCAAGAAGCCGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACCAACCTTTGCGCTATTCATGCTAAGAGAGTTACCATTATGCCTAAGGATATTCAACTTGCAAGAAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene04748.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA