AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91527


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91527.t1 MTR_1g082480 93.510 339 14 4 1 333 1 337 0.0 613
MS.gene91527.t1 MTR_1g082480 93.528 309 12 4 1 303 1 307 0.0 554
MS.gene91527.t1 MTR_7g113830 56.897 348 100 11 1 333 1 313 5.75e-123 356
MS.gene91527.t1 MTR_3g099620 50.000 330 136 7 14 329 1 315 5.96e-100 297
MS.gene91527.t1 MTR_5g064950 43.614 321 152 7 14 330 1 296 5.31e-80 246
MS.gene91527.t1 MTR_8g066770 53.774 212 87 2 126 332 104 309 1.97e-74 232
MS.gene91527.t1 MTR_5g064950 43.197 294 138 7 14 303 1 269 7.91e-70 220
MS.gene91527.t1 MTR_8g024210 51.244 201 88 2 126 326 171 361 4.48e-58 191
MS.gene91527.t1 MTR_0194s0050 47.748 222 97 5 118 326 166 381 7.76e-58 191
MS.gene91527.t1 MTR_1g028470 33.218 289 144 8 54 321 30 290 6.00e-36 132
MS.gene91527.t1 MTR_2g022280 40.860 186 107 2 136 321 1 183 6.40e-35 126
MS.gene91527.t1 MTR_3g090850 33.333 252 120 6 117 321 76 326 1.55e-33 126
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91527.t1 AT1G72210 46.491 342 133 9 14 330 1 317 3.11e-82 252
MS.gene91527.t1 AT1G22490 44.248 339 132 11 14 330 1 304 2.66e-79 244
MS.gene91527.t1 AT1G72210 46.984 315 117 10 14 303 1 290 1.17e-72 228
MS.gene91527.t1 AT1G22490 43.910 312 118 11 14 303 1 277 7.87e-68 216
MS.gene91527.t1 AT3G24140 43.556 225 112 3 115 327 176 397 8.04e-54 181
MS.gene91527.t1 AT3G24140 43.556 225 112 3 115 327 176 397 1.05e-53 181
MS.gene91527.t1 AT4G01460 43.602 211 107 2 126 331 105 308 4.57e-53 177
MS.gene91527.t1 AT4G01460 43.602 211 107 2 126 331 105 308 4.57e-53 177
MS.gene91527.t1 AT5G46690 45.455 231 93 4 126 329 78 302 1.06e-51 174
MS.gene91527.t1 AT5G65320 45.024 211 106 4 124 329 90 295 5.93e-50 168
MS.gene91527.t1 AT3G61950 45.455 198 94 3 126 322 117 301 1.10e-47 163
MS.gene91527.t1 AT2G46810 46.701 197 92 4 127 322 112 296 1.54e-47 162
MS.gene91527.t1 AT3G61950 45.000 200 96 3 126 324 168 354 3.06e-47 163
MS.gene91527.t1 AT2G46810 46.535 202 89 5 127 324 184 370 6.78e-47 162
MS.gene91527.t1 AT2G46810 46.535 202 89 5 127 324 172 358 6.84e-47 162
MS.gene91527.t1 AT5G65320 46.196 184 90 3 124 303 90 268 6.33e-43 149
MS.gene91527.t1 AT2G46810 41.304 230 88 6 127 324 112 326 6.81e-42 148
MS.gene91527.t1 AT3G61950 46.667 165 75 2 126 290 117 268 1.67e-41 146
MS.gene91527.t1 AT3G61950 46.667 165 75 2 126 290 168 319 5.82e-41 146
MS.gene91527.t1 AT5G46690 44.390 205 81 4 126 303 78 276 2.92e-40 143
MS.gene91527.t1 AT3G06120 37.234 188 95 2 136 309 1 179 2.38e-32 120
MS.gene91527.t1 AT5G53210 56.923 65 28 0 134 198 100 164 5.77e-20 89.7
MS.gene91527.t1 AT5G53210 56.923 65 28 0 134 198 100 164 5.81e-20 89.7
MS.gene91527.t1 AT3G61950 71.429 42 12 0 126 167 168 209 4.43e-13 67.8
MS.gene91527.t1 AT3G61950 71.429 42 12 0 126 167 168 209 4.43e-13 67.8

Find 43 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTTGATTCCATAACTAAA+AGG 0.292800 1.2:-60441069 None:intergenic
GGTGATCAAGCTTCTATAAT+TGG 0.293785 1.2:+60441778 MS.gene91527:CDS
ACTCTATCTCTTTCCTCTTC+AGG 0.299868 1.2:-60441000 None:intergenic
CAGCTCTTGAAAATGGTATC+TGG 0.309667 1.2:+60442078 MS.gene91527:CDS
AATGAAAAGAATTCAGAAAA+TGG 0.318161 1.2:-60441907 None:intergenic
GCCAAAACAGCTCTTGAAAA+TGG 0.324313 1.2:+60442071 MS.gene91527:CDS
TCTAATTCTGCAGCTACTAT+TGG 0.326308 1.2:+60441955 MS.gene91527:CDS
CATTTAAATGTTACTACTAC+TGG 0.355694 1.2:+60442129 MS.gene91527:CDS
ATTGTCCTCCTTATGTAGAT+TGG 0.357399 1.2:+60441181 MS.gene91527:CDS
TTTCTTGAACTTCATTCAAA+TGG 0.360903 1.2:-60441233 None:intergenic
CTAAAAGGATCTTGTGTTTG+TGG 0.365756 1.2:-60441054 None:intergenic
TTCTTGAACTTCATTCAAAT+GGG 0.379399 1.2:-60441232 None:intergenic
TCTTTACTCTCTCAGTGTTA+AGG 0.389543 1.2:+60442161 MS.gene91527:CDS
GTTGAATCCTATTGACCATC+TGG 0.393376 1.2:-60442349 None:intergenic
CTGTATACCAGATGGTCAAT+AGG 0.406963 1.2:+60442342 MS.gene91527:CDS
ACCCTTTGGATGTAAGAATC+TGG 0.440881 1.2:-60441471 None:intergenic
GTTGAAGATGATTGCAAGCT+GGG 0.453141 1.2:+60442296 MS.gene91527:CDS
TTGTTATTCCAATCTACATA+AGG 0.465642 1.2:-60441189 None:intergenic
TTAAAATAAGATCAAGAAAG+AGG 0.490885 1.2:+60442049 MS.gene91527:CDS
TGCCAGATTCTTACATCCAA+AGG 0.505226 1.2:+60441469 MS.gene91527:CDS
GGTTGAAGATGATTGCAAGC+TGG 0.507884 1.2:+60442295 MS.gene91527:intron
GCCAGATTCTTACATCCAAA+GGG 0.516817 1.2:+60441470 MS.gene91527:CDS
TTAGTAATAGTATTACTACT+TGG 0.517777 1.2:-60441267 None:intergenic
TGTTATGTGTTTACCTGAAG+AGG 0.521964 1.2:+60440987 None:intergenic
ACACAGTTATTCGTCCGAAA+AGG 0.534814 1.2:+60441325 MS.gene91527:CDS
GATCAAGCTTCTATAATTGG+AGG 0.557225 1.2:+60441781 MS.gene91527:CDS
TGAACTTCATTCAAATGGGG+TGG 0.566537 1.2:-60441228 None:intergenic
ATTACTACTTGGATCAGTAG+TGG 0.576946 1.2:-60441256 None:intergenic
TTATCACTTGTTGAATACTG+TGG 0.584055 1.2:-60441931 None:intergenic
GGTCAATAGGATTCAACAAG+AGG 0.595940 1.2:+60442355 MS.gene91527:CDS
AGCTTCAGCTGTATACCAGA+TGG 0.597796 1.2:+60442334 MS.gene91527:CDS
TATGTAGATTGGAATAACAA+TGG 0.602597 1.2:+60441192 MS.gene91527:CDS
TGATTGCAAGCTGGGATCAG+TGG 0.605953 1.2:+60442304 MS.gene91527:CDS
TTATTCCAATCTACATAAGG+AGG 0.614549 1.2:-60441186 None:intergenic
TCTTGAACTTCATTCAAATG+GGG 0.614700 1.2:-60441231 None:intergenic
ACGAATAACTGTGTTCACAG+AGG 0.614740 1.2:-60441316 None:intergenic
CGAATAACTGTGTTCACAGA+GGG 0.620805 1.2:-60441315 None:intergenic
AGACATGGCTCTAGAAGCAG+TGG 0.621348 1.2:+60441026 MS.gene91527:CDS
AAGAGATAGAGTGAAAGACA+TGG 0.647297 1.2:+60441011 MS.gene91527:CDS
GTGAAATCTGATGAAGCTGG+TGG 0.684533 1.2:+60441871 MS.gene91527:CDS
TGCTGACATAGAAGTGACAA+TGG 0.687267 1.2:+60442008 MS.gene91527:CDS
GAAGTGAAATCTGATGAAGC+TGG 0.693568 1.2:+60441868 MS.gene91527:CDS
TGACATAGAAGTGACAATGG+TGG 0.780182 1.2:+60442011 MS.gene91527:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGAAAAGAATTCAGAAAA+TGG - chr1.2:60441910-60441929 None:intergenic 20.0%
!! TTAAAATAAGATCAAGAAAG+AGG + chr1.2:60442049-60442068 MS.gene91527:CDS 20.0%
!! TTAGTAATAGTATTACTACT+TGG - chr1.2:60441270-60441289 None:intergenic 20.0%
!!! AGATTTCTTTGAACAATTTT+TGG + chr1.2:60442224-60442243 MS.gene91527:intron 20.0%
!!! ATCTTATTTTAAGATTTGCA+TGG - chr1.2:60442041-60442060 None:intergenic 20.0%
! CATTTAAATGTTACTACTAC+TGG + chr1.2:60442129-60442148 MS.gene91527:CDS 25.0%
! TATGTAGATTGGAATAACAA+TGG + chr1.2:60441192-60441211 MS.gene91527:CDS 25.0%
! TCTTTGATTCCATAACTAAA+AGG - chr1.2:60441072-60441091 None:intergenic 25.0%
! TTCTTGAACTTCATTCAAAT+GGG - chr1.2:60441235-60441254 None:intergenic 25.0%
! TTTCTTGAACTTCATTCAAA+TGG - chr1.2:60441236-60441255 None:intergenic 25.0%
!! TTGTTATTCCAATCTACATA+AGG - chr1.2:60441192-60441211 None:intergenic 25.0%
!!! GTGTTTGTTTTTTTTGTTGT+TGG + chr1.2:60441746-60441765 MS.gene91527:intron 25.0%
TCTTGAACTTCATTCAAATG+GGG - chr1.2:60441234-60441253 None:intergenic 30.0%
TTATTCCAATCTACATAAGG+AGG - chr1.2:60441189-60441208 None:intergenic 30.0%
! GAGGACAATTATTTTCTGTT+TGG - chr1.2:60441170-60441189 None:intergenic 30.0%
! TTATCACTTGTTGAATACTG+TGG - chr1.2:60441934-60441953 None:intergenic 30.0%
!! ACACAAGATCCTTTTAGTTA+TGG + chr1.2:60441060-60441079 MS.gene91527:CDS 30.0%
AACATGCAGTTACATGTTCT+TGG + chr1.2:60441644-60441663 MS.gene91527:intron 35.0%
AAGAGATAGAGTGAAAGACA+TGG + chr1.2:60441011-60441030 MS.gene91527:CDS 35.0%
ATTACTACTTGGATCAGTAG+TGG - chr1.2:60441259-60441278 None:intergenic 35.0%
ATTGTCCTCCTTATGTAGAT+TGG + chr1.2:60441181-60441200 MS.gene91527:CDS 35.0%
CAGTGAGTTTAGTAGAATCA+CGG + chr1.2:60441539-60441558 MS.gene91527:intron 35.0%
CTAAAAGGATCTTGTGTTTG+TGG - chr1.2:60441057-60441076 None:intergenic 35.0%
GATCAAGCTTCTATAATTGG+AGG + chr1.2:60441781-60441800 MS.gene91527:CDS 35.0%
GCTACTATTGGTGAAAAAGT+TGG + chr1.2:60441967-60441986 MS.gene91527:CDS 35.0%
GGTGATCAAGCTTCTATAAT+TGG + chr1.2:60441778-60441797 MS.gene91527:CDS 35.0%
TCTAATTCTGCAGCTACTAT+TGG + chr1.2:60441955-60441974 MS.gene91527:CDS 35.0%
TCTTTACTCTCTCAGTGTTA+AGG + chr1.2:60442161-60442180 MS.gene91527:CDS 35.0%
TGTAAGTAGTAAGTACCCTT+TGG - chr1.2:60441488-60441507 None:intergenic 35.0%
! AGCTCTGGTAATCTAAAGTT+CGG - chr1.2:60441680-60441699 None:intergenic 35.0%
! GAGCACAAGTTTCATTTTCT+TGG + chr1.2:60441829-60441848 MS.gene91527:CDS 35.0%
!! ACCATTTTCAAGAGCTGTTT+TGG - chr1.2:60442075-60442094 None:intergenic 35.0%
!!! TTTTGTTGTTGGTGAATGCA+GGG + chr1.2:60441757-60441776 MS.gene91527:intron 35.0%
!!! TTTTTGTTGTTGGTGAATGC+AGG + chr1.2:60441756-60441775 MS.gene91527:intron 35.0%
ACACAGTTATTCGTCCGAAA+AGG + chr1.2:60441325-60441344 MS.gene91527:CDS 40.0%
ACCCTTTGGATGTAAGAATC+TGG - chr1.2:60441474-60441493 None:intergenic 40.0%
ACGAATAACTGTGTTCACAG+AGG - chr1.2:60441319-60441338 None:intergenic 40.0%
ACTCTATCTCTTTCCTCTTC+AGG - chr1.2:60441003-60441022 None:intergenic 40.0%
CAGCTCTTGAAAATGGTATC+TGG + chr1.2:60442078-60442097 MS.gene91527:CDS 40.0%
CGAATAACTGTGTTCACAGA+GGG - chr1.2:60441318-60441337 None:intergenic 40.0%
CTGTATACCAGATGGTCAAT+AGG + chr1.2:60442342-60442361 MS.gene91527:CDS 40.0%
GAAGTGAAATCTGATGAAGC+TGG + chr1.2:60441868-60441887 MS.gene91527:CDS 40.0%
GCCAAAACAGCTCTTGAAAA+TGG + chr1.2:60442071-60442090 MS.gene91527:CDS 40.0%
GCCAGATTCTTACATCCAAA+GGG + chr1.2:60441470-60441489 MS.gene91527:CDS 40.0%
GGTCAATAGGATTCAACAAG+AGG + chr1.2:60442355-60442374 MS.gene91527:CDS 40.0%
GTTGAAGATGATTGCAAGCT+GGG + chr1.2:60442296-60442315 MS.gene91527:CDS 40.0%
GTTGAATCCTATTGACCATC+TGG - chr1.2:60442352-60442371 None:intergenic 40.0%
TGAACTTCATTCAAATGGGG+TGG - chr1.2:60441231-60441250 None:intergenic 40.0%
TGACATAGAAGTGACAATGG+TGG + chr1.2:60442011-60442030 MS.gene91527:CDS 40.0%
TGCCAGATTCTTACATCCAA+AGG + chr1.2:60441469-60441488 MS.gene91527:CDS 40.0%
TGCTGACATAGAAGTGACAA+TGG + chr1.2:60442008-60442027 MS.gene91527:CDS 40.0%
! CCCTCTAGTTTCTAGAAGAA+GGG - chr1.2:60441703-60441722 None:intergenic 40.0%
! CCCTTCTTCTAGAAACTAGA+GGG + chr1.2:60441700-60441719 MS.gene91527:intron 40.0%
! TCCCTTCTTCTAGAAACTAG+AGG + chr1.2:60441699-60441718 MS.gene91527:intron 40.0%
AGCTTCAGCTGTATACCAGA+TGG + chr1.2:60442334-60442353 MS.gene91527:CDS 45.0%
CAAATGGGGTGGTGAAAAAG+TGG - chr1.2:60441220-60441239 None:intergenic 45.0%
GGTTGAAGATGATTGCAAGC+TGG + chr1.2:60442295-60442314 MS.gene91527:intron 45.0%
GTGAAATCTGATGAAGCTGG+TGG + chr1.2:60441871-60441890 MS.gene91527:CDS 45.0%
! GCCCTCTAGTTTCTAGAAGA+AGG - chr1.2:60441704-60441723 None:intergenic 45.0%
! TTTCTAGAAGAAGGGAGCTC+TGG - chr1.2:60441695-60441714 None:intergenic 45.0%
!!! TGAATTTTTTTTTTTTATTT+AGG + chr1.2:60442274-60442293 MS.gene91527:intron 5.0%
TGATTGCAAGCTGGGATCAG+TGG + chr1.2:60442304-60442323 MS.gene91527:CDS 50.0%
!! AGACATGGCTCTAGAAGCAG+TGG + chr1.2:60441026-60441045 MS.gene91527:CDS 50.0%
!!! CTTCTAGCTCTGCGCCTTTT+CGG - chr1.2:60441342-60441361 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 60440991 60442391 60440991 ID=MS.gene91527
chr1.2 mRNA 60440991 60442391 60440991 ID=MS.gene91527.t1;Parent=MS.gene91527
chr1.2 exon 60440991 60441491 60440991 ID=MS.gene91527.t1.exon1;Parent=MS.gene91527.t1
chr1.2 CDS 60440991 60441491 60440991 ID=cds.MS.gene91527.t1;Parent=MS.gene91527.t1
chr1.2 exon 60441778 60442182 60441778 ID=MS.gene91527.t1.exon2;Parent=MS.gene91527.t1
chr1.2 CDS 60441778 60442182 60441778 ID=cds.MS.gene91527.t1;Parent=MS.gene91527.t1
chr1.2 exon 60442296 60442391 60442296 ID=MS.gene91527.t1.exon3;Parent=MS.gene91527.t1
chr1.2 CDS 60442296 60442391 60442296 ID=cds.MS.gene91527.t1;Parent=MS.gene91527.t1
Gene Sequence

>MS.gene91527

ATGTGTTTACCTGAAGAGGAAAGAGATAGAGTGAAAGACATGGCTCTAGAAGCAGTGGTTTATCCACAAACACAAGATCCTTTTAGTTATGGAATCAAAGATTTTTACAACTTCAACTTCAACACTTTTGTTGCAAAAGAACAACAAGAACAGAGATCTTTCAGTTTTGTAGAAAACCAAACAGAAAATAATTGTCCTCCTTATGTAGATTGGAATAACAATGGTTCCACTTTTTCACCACCCCATTTGAATGAAGTTCAAGAAACCACTACTGATCCAAGTAGTAATACTATTACTAATAACACTCAAAACTTTCATGCTTCACCCTCTGTGAACACAGTTATTCGTCCGAAAAGGCGCAGAGCTAGAAGCAGAAAAAACAAAGAAGAAATTGAGAATCAGAGAATGACTCACATTGCTGTTGAGCGTAATAGAAGAAAGCAGATGAATGACTATCTTTCTATTCTTCGCTCTCTAATGCCAGATTCTTACATCCAAAGGGTACTTACTACTTACATAACATCACTTAGAATATATGTTTAGATTAACAGTGAGTTTAGTAGAATCACGGTGTGTCACTTTGATTTTAACATAAACTTCACTTTAGAGTTTTAAAAAAATCACTGTGATTTCGTCAAACTCATCGTGATTATAACATGCAGTTACATGTTCTTGGTACTCACATGCCGAACTTTAGATTACCAGAGCTCCCTTCTTCTAGAAACTAGAGGGCTAAGACAAACAAAAAACTGAGTGTGTTTGTTTTTTTTGTTGTTGGTGAATGCAGGGTGATCAAGCTTCTATAATTGGAGGTGCTATTAACTTTGTTAAAGAGCTTGAGCACAAGTTTCATTTTCTTGGTACTAAGAAAGAAAGAGAAGTGAAATCTGATGAAGCTGGTGGATCAAACAACATGCCATTTTCTGAATTCTTTTCATTTCCACAGTATTCAACAAGTGATAATTCTAATTCTGCAGCTACTATTGGTGAAAAAGTTGGTGAGATTCAATCTTGCATTGCTGACATAGAAGTGACAATGGTGGAAAACCATGCAAATCTTAAAATAAGATCAAGAAAGAGGCCAAAACAGCTCTTGAAAATGGTATCTGGTTTGCAAAGCATGCGTCTCACAATCTTGCATTTAAATGTTACTACTACTGGTGAAATTGTTCTTTACTCTCTCAGTGTTAAGGTTTGTGTTTGTTATTTCTTTTCACTTTTTCTTGTTGCTTTAGATTTCTTTGAACAATTTTTGGAAGTGCTTAATTAAAGTGAAAATGCATTGAATTTTTTTTTTTTATTTAGGTTGAAGATGATTGCAAGCTGGGATCAGTGGATGATATAGCTTCAGCTGTATACCAGATGGTCAATAGGATTCAACAAGAGGCAATGTTGAATTAA

Protein sequence

>MS.gene91527.t1

MCLPEEERDRVKDMALEAVVYPQTQDPFSYGIKDFYNFNFNTFVAKEQQEQRSFSFVENQTENNCPPYVDWNNNGSTFSPPHLNEVQETTTDPSSNTITNNTQNFHASPSVNTVIRPKRRRARSRKNKEEIENQRMTHIAVERNRRKQMNDYLSILRSLMPDSYIQRGDQASIIGGAINFVKELEHKFHFLGTKKEREVKSDEAGGSNNMPFSEFFSFPQYSTSDNSNSAATIGEKVGEIQSCIADIEVTMVENHANLKIRSRKRPKQLLKMVSGLQSMRLTILHLNVTTTGEIVLYSLSVKVEDDCKLGSVDDIASAVYQMVNRIQQEAMLN