AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78556

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78556.t1 AT5G22250 56.569 274 113 3 10 280 7 277 3.11e-106 310
MS.gene78556.t1 AT3G44260 55.762 269 110 5 15 280 17 279 5.91e-100 294
MS.gene78556.t1 AT5G10960 46.182 275 139 6 7 280 1 267 1.66e-81 247
MS.gene78556.t1 AT2G32070 48.315 267 129 6 15 280 10 268 4.72e-81 246
MS.gene78556.t1 AT1G80780 46.241 266 135 5 15 280 10 267 1.31e-76 234
MS.gene78556.t1 AT1G80780 46.241 266 135 5 15 280 10 267 1.31e-76 234
MS.gene78556.t1 AT1G80780 46.241 266 135 5 15 280 10 267 1.98e-76 234
MS.gene78556.t1 AT1G15920 45.324 278 142 6 9 282 8 279 4.22e-73 226
MS.gene78556.t1 AT1G15920 45.324 278 142 6 9 282 8 279 4.22e-73 226
MS.gene78556.t1 AT1G61470 38.618 246 126 8 19 259 4 229 6.01e-42 145
MS.gene78556.t1 AT1G06450 34.657 277 154 11 10 281 3 257 5.34e-39 140
MS.gene78556.t1 AT1G27820 35.878 262 141 9 13 267 2 243 4.15e-36 131
MS.gene78556.t1 AT1G27890 36.863 255 136 9 19 267 3 238 1.66e-34 127
MS.gene78556.t1 AT3G44240 35.193 233 130 8 31 260 3 217 1.47e-32 120

Find 56 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCATGGCGCTTATGATTT+TGG 0.117389 5.2:-32874170 MS.gene78556:CDS
AAATACGCTGGAGTAGTATT+TGG 0.224745 5.2:-32873873 MS.gene78556:CDS
AAGAAATTTGCCTGATAGTT+TGG 0.274713 5.2:-32874123 MS.gene78556:CDS
TGAATATGGTGAATATTCTT+TGG 0.278766 5.2:-32874570 MS.gene78556:CDS
CGTGATGTTCTTCCTGAATA+TGG 0.278966 5.2:-32874584 MS.gene78556:CDS
CTTGGACTCACTTTAATAGA+TGG 0.314324 5.2:-32874422 MS.gene78556:CDS
CAAACTTCTCTGACGATGAT+TGG 0.318920 5.2:+32874641 None:intergenic
CAATCATCGTCAGAGAAGTT+TGG 0.333434 5.2:-32874640 MS.gene78556:CDS
GCTGAACTAATGTTGACTTC+TGG 0.360897 5.2:-32874227 MS.gene78556:CDS
TCGATAGACACCGAGTTTCC+TGG 0.362514 5.2:-32874545 MS.gene78556:CDS
AGTTTAAGATCATCAACATT+AGG 0.373743 5.2:+32874452 None:intergenic
CGATTATCGGTGTCAAAATC+AGG 0.397384 5.2:+32874386 None:intergenic
ACACCGATAATCGCTACATT+TGG 0.399135 5.2:-32874376 MS.gene78556:CDS
AGGTGGCGATGGTCGACTTT+TGG 0.407532 5.2:+32874509 None:intergenic
TTGCCAAATGTAGCGATTAT+CGG 0.410093 5.2:+32874373 None:intergenic
AACTATCAGGCAAATTTCTT+CGG 0.413248 5.2:+32874126 None:intergenic
AAAGAATATTCACCATATTC+AGG 0.416250 5.2:+32874572 None:intergenic
AATCATCGTCAGAGAAGTTT+GGG 0.424375 5.2:-32874639 MS.gene78556:CDS
CATTGTATGGTGGTCTTGAT+CGG 0.438293 5.2:-32874022 MS.gene78556:CDS
TGTCAACAAGCTGTCGGATC+CGG 0.457649 5.2:+32873950 None:intergenic
TATTCAAGAAATCAATGACT+TGG 0.469568 5.2:-32874199 MS.gene78556:CDS
CTCAACGTGGATCGGGCTGT+TGG 0.476111 5.2:-32873987 MS.gene78556:CDS
CGCTACTGCAATGCATTGTA+TGG 0.477422 5.2:-32874035 MS.gene78556:CDS
ATGGCAGACGTTTCATAAGT+TGG 0.479969 5.2:-32873928 MS.gene78556:CDS
TGTAGTAATCAGAGGGTTGA+AGG 0.480186 5.2:+32874489 None:intergenic
CAAGTACACTCAACGTGGAT+CGG 0.507101 5.2:-32873995 MS.gene78556:CDS
GTTGACTTGCTTCGTCGACA+AGG 0.507118 5.2:-32874299 MS.gene78556:CDS
AAGTACACTCAACGTGGATC+GGG 0.508841 5.2:-32873994 MS.gene78556:CDS
ATTGTATGGTGGTCTTGATC+GGG 0.514058 5.2:-32874021 MS.gene78556:CDS
ACGTGGATCGGGCTGTTGGA+AGG 0.522206 5.2:-32873983 MS.gene78556:CDS
TTGACTTGCTTCGTCGACAA+GGG 0.527074 5.2:-32874298 MS.gene78556:CDS
TTTGGTGCATGGATAACTCC+AGG 0.535086 5.2:+32874527 None:intergenic
GTTGGAAGGTCTCATCAATC+CGG 0.537925 5.2:-32873969 MS.gene78556:CDS
TTCAATCGTTGTGTCTCTCA+AGG 0.540052 5.2:-32874269 MS.gene78556:CDS
ATTCAAGAAATCAATGACTT+GGG 0.542864 5.2:-32874198 MS.gene78556:CDS
GATCTTAAACTCATCCAACT+TGG 0.545194 5.2:-32874440 MS.gene78556:CDS
CACGCTCAACGTTGAAGTCA+CGG 0.550608 5.2:+32874342 None:intergenic
CTATTAAAGTGAGTCCAAGT+TGG 0.558411 5.2:+32874426 None:intergenic
CAGAGGGTTGAAGGTGGCGA+TGG 0.559485 5.2:+32874498 None:intergenic
TCAACATTAGTTCAGCAAAA+CGG 0.564358 5.2:+32874234 None:intergenic
GAAGAACATCACGAATGAGA+TGG 0.565749 5.2:+32874594 None:intergenic
GATCCGACAGCTTGTTGACA+TGG 0.577163 5.2:-32873947 MS.gene78556:CDS
CATACAATGCATTGCAGTAG+CGG 0.583860 5.2:+32874036 None:intergenic
ATGGATAACTCCAGGAAACT+CGG 0.585861 5.2:+32874535 None:intergenic
GACGTATCTGTAGTAATCAG+AGG 0.593946 5.2:+32874481 None:intergenic
TACTGCAATGCATTGTATGG+TGG 0.597106 5.2:-32874032 MS.gene78556:CDS
CAACGGAGTCCTTGTTGTGA+GGG 0.597538 5.2:+32874318 None:intergenic
TCAACGGAGTCCTTGTTGTG+AGG 0.600831 5.2:+32874317 None:intergenic
CTCACTTTAATAGATGGTTG+CGG 0.607202 5.2:-32874416 MS.gene78556:CDS
CTGCCATGTCAACAAGCTGT+CGG 0.613501 5.2:+32873944 None:intergenic
ACGTATCTGTAGTAATCAGA+GGG 0.626051 5.2:+32874482 None:intergenic
TTGTCGACGAAGCAAGTCAA+CGG 0.630986 5.2:+32874301 None:intergenic
TGAGCGTGACCCTCACAACA+AGG 0.670125 5.2:-32874327 MS.gene78556:CDS
TATCGGTGTCAAAATCAGGA+AGG 0.683593 5.2:+32874390 None:intergenic
AGTAATCAGAGGGTTGAAGG+TGG 0.690515 5.2:+32874492 None:intergenic
GGTTGCAAGTACACTCAACG+TGG 0.728911 5.2:-32874000 MS.gene78556:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACATTTTGGAAATGTTATT+CGG - chr5.2:32874445-32874464 MS.gene78556:CDS 20.0%
! AAAGAATATTCACCATATTC+AGG + chr5.2:32873965-32873984 None:intergenic 25.0%
! ATTCAAGAAATCAATGACTT+GGG - chr5.2:32874336-32874355 MS.gene78556:CDS 25.0%
! TATTCAAGAAATCAATGACT+TGG - chr5.2:32874335-32874354 MS.gene78556:CDS 25.0%
! TGAATATGGTGAATATTCTT+TGG - chr5.2:32873964-32873983 MS.gene78556:CDS 25.0%
!! AGTTTAAGATCATCAACATT+AGG + chr5.2:32874085-32874104 None:intergenic 25.0%
AAAAACTCTTCCAAACTATC+AGG + chr5.2:32874424-32874443 None:intergenic 30.0%
AACTATCAGGCAAATTTCTT+CGG + chr5.2:32874411-32874430 None:intergenic 30.0%
AAGAAATTTGCCTGATAGTT+TGG - chr5.2:32874411-32874430 MS.gene78556:CDS 30.0%
AGAGAATTTGAAAAATACGC+TGG - chr5.2:32874649-32874668 MS.gene78556:CDS 30.0%
TCAACATTAGTTCAGCAAAA+CGG + chr5.2:32874303-32874322 None:intergenic 30.0%
! GGAAGAGTTTTTGAACATTT+TGG - chr5.2:32874432-32874451 MS.gene78556:CDS 30.0%
!! TTTTGGAAATGTTATTCGGA+AGG - chr5.2:32874449-32874468 MS.gene78556:CDS 30.0%
AAATACGCTGGAGTAGTATT+TGG - chr5.2:32874661-32874680 MS.gene78556:CDS 35.0%
AATCATCGTCAGAGAAGTTT+GGG - chr5.2:32873895-32873914 MS.gene78556:CDS 35.0%
ACGTATCTGTAGTAATCAGA+GGG + chr5.2:32874055-32874074 None:intergenic 35.0%
CTATTAAAGTGAGTCCAAGT+TGG + chr5.2:32874111-32874130 None:intergenic 35.0%
CTCACTTTAATAGATGGTTG+CGG - chr5.2:32874118-32874137 MS.gene78556:CDS 35.0%
CTTGGACTCACTTTAATAGA+TGG - chr5.2:32874112-32874131 MS.gene78556:CDS 35.0%
GATCTTAAACTCATCCAACT+TGG - chr5.2:32874094-32874113 MS.gene78556:CDS 35.0%
TTGCCAAATGTAGCGATTAT+CGG + chr5.2:32874164-32874183 None:intergenic 35.0%
! CGCTTATGATTTTGGATACT+TGG - chr5.2:32874372-32874391 MS.gene78556:CDS 35.0%
! TTTCATGGCGCTTATGATTT+TGG - chr5.2:32874364-32874383 MS.gene78556:CDS 35.0%
ACACCGATAATCGCTACATT+TGG - chr5.2:32874158-32874177 MS.gene78556:CDS 40.0%
ATGGATAACTCCAGGAAACT+CGG + chr5.2:32874002-32874021 None:intergenic 40.0%
ATGGCAGACGTTTCATAAGT+TGG - chr5.2:32874606-32874625 MS.gene78556:CDS 40.0%
CAAACTTCTCTGACGATGAT+TGG + chr5.2:32873896-32873915 None:intergenic 40.0%
CAATCATCGTCAGAGAAGTT+TGG - chr5.2:32873894-32873913 MS.gene78556:CDS 40.0%
CATACAATGCATTGCAGTAG+CGG + chr5.2:32874501-32874520 None:intergenic 40.0%
CGTGATGTTCTTCCTGAATA+TGG - chr5.2:32873950-32873969 MS.gene78556:CDS 40.0%
GAAGAACATCACGAATGAGA+TGG + chr5.2:32873943-32873962 None:intergenic 40.0%
GACGTATCTGTAGTAATCAG+AGG + chr5.2:32874056-32874075 None:intergenic 40.0%
TACTGCAATGCATTGTATGG+TGG - chr5.2:32874502-32874521 MS.gene78556:CDS 40.0%
TGTAGTAATCAGAGGGTTGA+AGG + chr5.2:32874048-32874067 None:intergenic 40.0%
TTCAATCGTTGTGTCTCTCA+AGG - chr5.2:32874265-32874284 MS.gene78556:CDS 40.0%
! ATTGTATGGTGGTCTTGATC+GGG - chr5.2:32874513-32874532 MS.gene78556:CDS 40.0%
! CATTGTATGGTGGTCTTGAT+CGG - chr5.2:32874512-32874531 MS.gene78556:CDS 40.0%
!! ATGACTTGGGTGACTTTTCA+TGG - chr5.2:32874349-32874368 MS.gene78556:CDS 40.0%
!! CGATTATCGGTGTCAAAATC+AGG + chr5.2:32874151-32874170 None:intergenic 40.0%
!! GCTGAACTAATGTTGACTTC+TGG - chr5.2:32874307-32874326 MS.gene78556:CDS 40.0%
!! TATCGGTGTCAAAATCAGGA+AGG + chr5.2:32874147-32874166 None:intergenic 40.0%
AAGTACACTCAACGTGGATC+GGG - chr5.2:32874540-32874559 MS.gene78556:CDS 45.0%
AGTAATCAGAGGGTTGAAGG+TGG + chr5.2:32874045-32874064 None:intergenic 45.0%
CAAGTACACTCAACGTGGAT+CGG - chr5.2:32874539-32874558 MS.gene78556:CDS 45.0%
CGCTACTGCAATGCATTGTA+TGG - chr5.2:32874499-32874518 MS.gene78556:CDS 45.0%
GTTGGAAGGTCTCATCAATC+CGG - chr5.2:32874565-32874584 MS.gene78556:CDS 45.0%
TTGTCGACGAAGCAAGTCAA+CGG + chr5.2:32874236-32874255 None:intergenic 45.0%
! TTTGGTGCATGGATAACTCC+AGG + chr5.2:32874010-32874029 None:intergenic 45.0%
!! TTGACTTGCTTCGTCGACAA+GGG - chr5.2:32874236-32874255 MS.gene78556:CDS 45.0%
CACGCTCAACGTTGAAGTCA+CGG + chr5.2:32874195-32874214 None:intergenic 50.0%
CTGCCATGTCAACAAGCTGT+CGG + chr5.2:32874593-32874612 None:intergenic 50.0%
GGTTGCAAGTACACTCAACG+TGG - chr5.2:32874534-32874553 MS.gene78556:CDS 50.0%
TCGATAGACACCGAGTTTCC+TGG - chr5.2:32873989-32874008 MS.gene78556:CDS 50.0%
TGTCAACAAGCTGTCGGATC+CGG + chr5.2:32874587-32874606 None:intergenic 50.0%
! CAACGGAGTCCTTGTTGTGA+GGG + chr5.2:32874219-32874238 None:intergenic 50.0%
! TCAACGGAGTCCTTGTTGTG+AGG + chr5.2:32874220-32874239 None:intergenic 50.0%
!! GATCCGACAGCTTGTTGACA+TGG - chr5.2:32874587-32874606 MS.gene78556:CDS 50.0%
!! GATGGTCGACTTTTGGTGCA+TGG + chr5.2:32874021-32874040 None:intergenic 50.0%
!! GTTGACTTGCTTCGTCGACA+AGG - chr5.2:32874235-32874254 MS.gene78556:CDS 50.0%
TGAGCGTGACCCTCACAACA+AGG - chr5.2:32874207-32874226 MS.gene78556:CDS 55.0%
!! AGGTGGCGATGGTCGACTTT+TGG + chr5.2:32874028-32874047 None:intergenic 55.0%
ACGTGGATCGGGCTGTTGGA+AGG - chr5.2:32874551-32874570 MS.gene78556:CDS 60.0%
CAGAGGGTTGAAGGTGGCGA+TGG + chr5.2:32874039-32874058 None:intergenic 60.0%
CTCAACGTGGATCGGGCTGT+TGG - chr5.2:32874547-32874566 MS.gene78556:CDS 60.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 32873854 32874702 32873854 ID=MS.gene78556
chr5.2 mRNA 32873854 32874702 32873854 ID=MS.gene78556.t1;Parent=MS.gene78556
chr5.2 exon 32873854 32874702 32873854 ID=MS.gene78556.t1.exon1;Parent=MS.gene78556.t1
chr5.2 CDS 32873854 32874702 32873854 ID=cds.MS.gene78556.t1;Parent=MS.gene78556.t1
Gene Sequence

>MS.gene78556

ATGACAAAAACGTGCATGCTGAGTGAAGAGTTATCGAAACCAATCATCGTCAGAGAAGTTTGGGCACACAACTTAGAGAATGAATTCCATCTCATTCGTGATGTTCTTCCTGAATATGGTGAATATTCTTTGGTCTCGATAGACACCGAGTTTCCTGGAGTTATCCATGCACCAAAAGTCGACCATCGCCACCTTCAACCCTCTGATTACTACAGATACGTCTTGAAGCCTAATGTTGATGATCTTAAACTCATCCAACTTGGACTCACTTTAATAGATGGTTGCGGTCACCTTCCTGATTTTGACACCGATAATCGCTACATTTGGCAATTCAACTTCCGTGACTTCAACGTTGAGCGTGACCCTCACAACAAGGACTCCGTTGACTTGCTTCGTCGACAAGGGATTGACTTCAATCGTTGTGTCTCTCAAGGTGTCGATTCATTCCGTTTTGCTGAACTAATGTTGACTTCTGGACTTCTATTCAAGAAATCAATGACTTGGGTGACTTTTCATGGCGCTTATGATTTTGGATACTTGGTGAAGATATTGATCCGAAGAAATTTGCCTGATAGTTTGGAAGAGTTTTTGAACATTTTGGAAATGTTATTCGGAAGGAATGTTTATGATTTGAAACATATGATCCGCTACTGCAATGCATTGTATGGTGGTCTTGATCGGGTTGCAAGTACACTCAACGTGGATCGGGCTGTTGGAAGGTCTCATCAATCCGGATCCGACAGCTTGTTGACATGGCAGACGTTTCATAAGTTGGTGCAAACACATCTCAGTCACAGAGAATTTGAAAAATACGCTGGAGTAGTATTTGGATTAGAAGTTTCTCGATAA
Protein sequence

>MS.gene78556.t1

MTKTCMLSEELSKPIIVREVWAHNLENEFHLIRDVLPEYGEYSLVSIDTEFPGVIHAPKVDHRHLQPSDYYRYVLKPNVDDLKLIQLGLTLIDGCGHLPDFDTDNRYIWQFNFRDFNVERDPHNKDSVDLLRRQGIDFNRCVSQGVDSFRFAELMLTSGLLFKKSMTWVTFHGAYDFGYLVKILIRRNLPDSLEEFLNILEMLFGRNVYDLKHMIRYCNALYGGLDRVASTLNVDRAVGRSHQSGSDSLLTWQTFHKLVQTHLSHREFEKYAGVVFGLEVSR