AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08615

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08615.t1 MTR_4g059780 97.895 190 4 0 1 190 114 303 2.95e-134 378
MS.gene08615.t1 MTR_2g093980 68.063 191 55 2 4 190 96 284 2.80e-77 233
MS.gene08615.t1 MTR_2g017960 55.080 187 79 2 1 187 92 273 6.01e-63 196
MS.gene08615.t1 MTR_2g017970 56.593 182 74 2 1 182 92 268 9.60e-63 196
MS.gene08615.t1 MTR_8g087450 51.064 188 88 1 1 188 101 284 5.19e-57 181
MS.gene08615.t1 MTR_4g059840 53.933 178 74 4 1 172 97 272 1.91e-56 180
MS.gene08615.t1 MTR_4g059790 51.685 178 78 3 1 172 97 272 4.75e-56 179
MS.gene08615.t1 MTR_4g053380 47.980 198 89 4 1 188 101 294 3.26e-51 166
MS.gene08615.t1 MTR_4g059720 60.630 127 49 1 2 128 67 192 1.03e-50 164
MS.gene08615.t1 MTR_2g093970 57.812 128 54 0 1 128 93 220 5.62e-48 158
MS.gene08615.t1 MTR_2g093990 48.438 192 88 3 2 190 66 249 2.67e-47 155
MS.gene08615.t1 MTR_8g087460 51.497 167 77 3 1 164 117 282 7.82e-46 153
MS.gene08615.t1 MTR_8g087470 51.497 167 77 3 1 164 117 282 1.13e-45 153
MS.gene08615.t1 MTR_2g017950 49.701 167 77 3 1 160 95 261 1.67e-45 152
MS.gene08615.t1 MTR_7g101080 50.806 124 59 2 4 126 67 189 3.09e-34 122
MS.gene08615.t1 MTR_2g090765 41.071 112 66 0 15 126 75 186 1.55e-23 94.0
MS.gene08615.t1 MTR_7g075453 33.333 138 86 2 15 147 217 353 2.25e-15 73.6
MS.gene08615.t1 MTR_5g098060 35.294 136 78 3 15 143 85 217 3.76e-15 71.6
MS.gene08615.t1 MTR_5g098420 32.743 113 75 1 13 125 227 338 1.15e-13 68.6
MS.gene08615.t1 MTR_3g460780 33.913 115 75 1 11 125 223 336 4.67e-13 67.0
MS.gene08615.t1 MTR_2g437700 32.174 115 74 2 15 125 230 344 7.01e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08615.t1 AT5G03170 46.667 135 70 2 4 136 63 197 1.02e-37 130
MS.gene08615.t1 AT5G60490 52.679 112 52 1 15 125 76 187 1.13e-36 128
MS.gene08615.t1 AT2G20520 40.136 147 80 3 15 153 75 221 2.49e-22 90.9
MS.gene08615.t1 AT5G44130 32.727 165 104 4 9 169 67 228 1.73e-21 88.6
MS.gene08615.t1 AT1G03870 31.492 181 117 4 2 180 64 239 5.43e-20 84.7
MS.gene08615.t1 AT4G12730 33.750 160 102 3 13 169 221 379 2.04e-14 70.9
MS.gene08615.t1 AT3G46550 34.454 119 73 4 12 125 239 357 1.72e-13 68.2
MS.gene08615.t1 AT5G55730 32.479 117 78 1 13 129 218 333 7.06e-12 63.5
MS.gene08615.t1 AT5G55730 32.479 117 78 1 13 129 218 333 7.06e-12 63.5
MS.gene08615.t1 AT3G60900 30.370 135 88 2 15 143 223 357 2.05e-11 62.4
MS.gene08615.t1 AT2G45470 30.172 116 81 0 10 125 217 332 9.66e-11 60.1

Find 37 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACCTTGATCCTGATCATTT+TGG 0.263017 4.1:+38969004 None:intergenic
GGCTCCTAAAGCTGCTAATA+AGG 0.272377 4.1:-38969052 MS.gene08615:CDS
CACTTTATCCAAATGATAAA+TGG 0.279996 4.1:+38969143 None:intergenic
CAAGCTCGCCATTTATCATT+TGG 0.301480 4.1:-38969151 MS.gene08615:CDS
CGCTACTAAGGCACCTGCTT+TGG 0.312281 4.1:-38969100 MS.gene08615:CDS
CCACTTAATGTTTATGCATC+AGG 0.321174 4.1:-38969240 MS.gene08615:CDS
TTCTCCTTATTAGCAGCTTT+AGG 0.349370 4.1:+38969048 None:intergenic
TTACCAGCTATTGTTTGAAC+AGG 0.356173 4.1:+38969279 None:intergenic
GTGAGATTGTGTGGAATTCT+TGG 0.371931 4.1:-38968970 MS.gene08615:CDS
GATCAGGATCAAGGTAAATC+TGG 0.376467 4.1:-38968997 MS.gene08615:CDS
ACATTAAGTGGAAGCCTTGT+TGG 0.400783 4.1:+38969252 None:intergenic
AACAATGTCAGTCTTTCAAC+CGG 0.416183 4.1:-38969216 MS.gene08615:CDS
GTTGTTACTGCTTCCGTTGT+GGG 0.419419 4.1:-38969192 MS.gene08615:CDS
CTTGAAAATGCTGAATCGTC+TGG 0.426953 4.1:+38969414 None:intergenic
CCTGATGCATAAACATTAAG+TGG 0.445735 4.1:+38969240 None:intergenic
AACTCGTACTGCTGCTGCTA+AGG 0.455742 4.1:-38969073 MS.gene08615:CDS
TTTGAGCTCGCTACATATTG+AGG 0.476279 4.1:+38969321 None:intergenic
TCGTGATTTCTTCGCTACTA+AGG 0.488348 4.1:-38969112 MS.gene08615:CDS
TGATCAAGACCAAAATGATC+AGG 0.490187 4.1:-38969013 MS.gene08615:CDS
AACCCTGTTCAAACAATAGC+TGG 0.497527 4.1:-38969282 MS.gene08615:CDS
GACCAAAATGATCAGGATCA+AGG 0.527131 4.1:-38969006 MS.gene08615:CDS
GTACGAGTTGGAGCCAAAGC+AGG 0.540425 4.1:+38969087 None:intergenic
GGTTGTTACTGCTTCCGTTG+TGG 0.541810 4.1:-38969193 MS.gene08615:CDS
AGTTAAGGAACCCTGCTTTG+AGG 0.547004 4.1:+38969391 None:intergenic
TTAGCAGCAGCAGTACGAGT+TGG 0.559502 4.1:+38969075 None:intergenic
CTACATATTGAGGTAAGATG+TGG 0.578300 4.1:+38969331 None:intergenic
TTGTTGCTGTAGCAATGATG+TGG 0.582648 4.1:-38968930 MS.gene08615:CDS
ACAATGTCAGTCTTTCAACC+GGG 0.598947 4.1:-38969215 MS.gene08615:CDS
TACCAGCTATTGTTTGAACA+GGG 0.607680 4.1:+38969280 None:intergenic
ATGCTGAATCGTCTGGCGCG+AGG 0.616806 4.1:+38969421 None:intergenic
TCTGGAGCAGTGAGATTGTG+TGG 0.636283 4.1:-38968979 MS.gene08615:CDS
CAATGTCAGTCTTTCAACCG+GGG 0.675430 4.1:-38969214 MS.gene08615:CDS
AGTGTACACAACACCCACAA+CGG 0.678067 4.1:+38969179 None:intergenic
TGGAATTCTTGGAACAACGT+TGG 0.689897 4.1:-38968959 MS.gene08615:CDS
AACGGAAGCAGTAACAACCC+CGG 0.701266 4.1:+38969197 None:intergenic
TAGCTGGTAAAGATCCAACA+AGG 0.719387 4.1:-38969266 MS.gene08615:CDS
TTAGTAGCGAAGAAATCACG+AGG 0.758452 4.1:+38969114 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CACTTTATCCAAATGATAAA+TGG + chr4.1:38969258-38969277 None:intergenic 25.0%
!!! GATTTTTTTGTTTTCGTCTA+AGG + chr4.1:38969033-38969052 None:intergenic 25.0%
AACAATGTCAGTCTTTCAAC+CGG - chr4.1:38969182-38969201 MS.gene08615:CDS 35.0%
CCACTTAATGTTTATGCATC+AGG - chr4.1:38969158-38969177 MS.gene08615:CDS 35.0%
CCTGATGCATAAACATTAAG+TGG + chr4.1:38969161-38969180 None:intergenic 35.0%
CTACATATTGAGGTAAGATG+TGG + chr4.1:38969070-38969089 None:intergenic 35.0%
TACCAGCTATTGTTTGAACA+GGG + chr4.1:38969121-38969140 None:intergenic 35.0%
TGATCAAGACCAAAATGATC+AGG - chr4.1:38969385-38969404 MS.gene08615:CDS 35.0%
TTACCAGCTATTGTTTGAAC+AGG + chr4.1:38969122-38969141 None:intergenic 35.0%
TTCTCCTTATTAGCAGCTTT+AGG + chr4.1:38969353-38969372 None:intergenic 35.0%
! TACCTTGATCCTGATCATTT+TGG + chr4.1:38969397-38969416 None:intergenic 35.0%
! TGTTTTCGTCTAAGGAGTTA+AGG + chr4.1:38969025-38969044 None:intergenic 35.0%
AACCCTGTTCAAACAATAGC+TGG - chr4.1:38969116-38969135 MS.gene08615:CDS 40.0%
ACAATGTCAGTCTTTCAACC+GGG - chr4.1:38969183-38969202 MS.gene08615:CDS 40.0%
CAAGCTCGCCATTTATCATT+TGG - chr4.1:38969247-38969266 MS.gene08615:CDS 40.0%
CTTGAAAATGCTGAATCGTC+TGG + chr4.1:38968987-38969006 None:intergenic 40.0%
GACCAAAATGATCAGGATCA+AGG - chr4.1:38969392-38969411 MS.gene08615:CDS 40.0%
GATCAGGATCAAGGTAAATC+TGG - chr4.1:38969401-38969420 MS.gene08615:CDS 40.0%
GTGAGATTGTGTGGAATTCT+TGG - chr4.1:38969428-38969447 MS.gene08615:CDS 40.0%
TAGCTGGTAAAGATCCAACA+AGG - chr4.1:38969132-38969151 MS.gene08615:CDS 40.0%
TCGTGATTTCTTCGCTACTA+AGG - chr4.1:38969286-38969305 MS.gene08615:CDS 40.0%
TGGAATTCTTGGAACAACGT+TGG - chr4.1:38969439-38969458 MS.gene08615:CDS 40.0%
TTAGTAGCGAAGAAATCACG+AGG + chr4.1:38969287-38969306 None:intergenic 40.0%
TTGTTGCTGTAGCAATGATG+TGG - chr4.1:38969468-38969487 MS.gene08615:CDS 40.0%
TTTGAGCTCGCTACATATTG+AGG + chr4.1:38969080-38969099 None:intergenic 40.0%
! ACATTAAGTGGAAGCCTTGT+TGG + chr4.1:38969149-38969168 None:intergenic 40.0%
!! CATTTTCAAGCCTCAAAGCA+GGG - chr4.1:38968997-38969016 MS.gene08615:CDS 40.0%
AGTGTACACAACACCCACAA+CGG + chr4.1:38969222-38969241 None:intergenic 45.0%
AGTTAAGGAACCCTGCTTTG+AGG + chr4.1:38969010-38969029 None:intergenic 45.0%
CAATGTCAGTCTTTCAACCG+GGG - chr4.1:38969184-38969203 MS.gene08615:CDS 45.0%
CAGCTCATCACAGCCAAAAA+CGG - chr4.1:38968942-38968961 MS.gene08615:CDS 45.0%
GGCTCCTAAAGCTGCTAATA+AGG - chr4.1:38969346-38969365 MS.gene08615:CDS 45.0%
GTTGTTACTGCTTCCGTTGT+GGG - chr4.1:38969206-38969225 MS.gene08615:CDS 45.0%
!! GATTGTTAAGCCGCCGTTTT+TGG + chr4.1:38968958-38968977 None:intergenic 45.0%
!! GCATTTTCAAGCCTCAAAGC+AGG - chr4.1:38968996-38969015 MS.gene08615:CDS 45.0%
AACGGAAGCAGTAACAACCC+CGG + chr4.1:38969204-38969223 None:intergenic 50.0%
AACTCGTACTGCTGCTGCTA+AGG - chr4.1:38969325-38969344 MS.gene08615:CDS 50.0%
CTCATCACAGCCAAAAACGG+CGG - chr4.1:38968945-38968964 MS.gene08615:CDS 50.0%
GGTTGTTACTGCTTCCGTTG+TGG - chr4.1:38969205-38969224 MS.gene08615:CDS 50.0%
TTAGCAGCAGCAGTACGAGT+TGG + chr4.1:38969326-38969345 None:intergenic 50.0%
! TCTGGAGCAGTGAGATTGTG+TGG - chr4.1:38969419-38969438 MS.gene08615:CDS 50.0%
! CGCTACTAAGGCACCTGCTT+TGG - chr4.1:38969298-38969317 MS.gene08615:CDS 55.0%
! GTACGAGTTGGAGCCAAAGC+AGG + chr4.1:38969314-38969333 None:intergenic 55.0%
ATGCTGAATCGTCTGGCGCG+AGG + chr4.1:38968980-38968999 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 38968924 38969496 38968924 ID=MS.gene08615
chr4.1 mRNA 38968924 38969496 38968924 ID=MS.gene08615.t1;Parent=MS.gene08615
chr4.1 exon 38968924 38969496 38968924 ID=MS.gene08615.t1.exon1;Parent=MS.gene08615.t1
chr4.1 CDS 38968924 38969496 38968924 ID=cds.MS.gene08615.t1;Parent=MS.gene08615.t1
Gene Sequence

>MS.gene08615

ATGAGCAGCGTAAACTCACAGCTCATCACAGCCAAAAACGGCGGCTTAACAATCCTCGCGCCAGACGATTCAGCATTTTCAAGCCTCAAAGCAGGGTTCCTTAACTCCTTAGACGAAAACAAAAAAATCGAACTTTTACAATTCCACATCTTACCTCAATATGTAGCGAGCTCAAACTTCGATTCTTTAAGCAACCCTGTTCAAACAATAGCTGGTAAAGATCCAACAAGGCTTCCACTTAATGTTTATGCATCAGGTAACAATGTCAGTCTTTCAACCGGGGTTGTTACTGCTTCCGTTGTGGGTGTTGTGTACACTGATAACAAGCTCGCCATTTATCATTTGGATAAAGTGCTTCTTCCTCGTGATTTCTTCGCTACTAAGGCACCTGCTTTGGCTCCAACTCGTACTGCTGCTGCTAAGGCTCCTAAAGCTGCTAATAAGGAGAATTCTTCTGCTGATGATCAAGACCAAAATGATCAGGATCAAGGTAAATCTGGAGCAGTGAGATTGTGTGGAATTCTTGGAACAACGTTGGTGTCTTTTGTTGCTGTAGCAATGATGTGGAGTTGA
Protein sequence

>MS.gene08615.t1

MSSVNSQLITAKNGGLTILAPDDSAFSSLKAGFLNSLDENKKIELLQFHILPQYVASSNFDSLSNPVQTIAGKDPTRLPLNVYASGNNVSLSTGVVTASVVGVVYTDNKLAIYHLDKVLLPRDFFATKAPALAPTRTAAAKAPKAANKENSSADDQDQNDQDQGKSGAVRLCGILGTTLVSFVAVAMMWS