AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83558

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83558.t1 MTR_2g104230 98.095 210 3 1 1 210 1 209 5.65e-155 427
MS.gene83558.t1 MTR_4g009760 59.729 221 65 10 1 210 1 208 9.74e-81 239
MS.gene83558.t1 MTR_4g116200 45.912 159 70 3 1 158 1 144 4.52e-34 122
MS.gene83558.t1 MTR_2g450720 38.378 185 86 6 1 165 1 177 1.72e-29 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83558.t1 AT1G15760 44.000 225 80 8 3 209 5 201 4.46e-57 179
MS.gene83558.t1 AT1G80520 47.032 219 78 8 1 209 1 191 3.95e-50 161
MS.gene83558.t1 AT2G12462 28.846 260 122 7 1 209 1 248 1.79e-25 99.8

Find 43 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTAGGCCTAATGGTGGATT+TGG 0.285518 2.2:+734367 MS.gene83558:CDS
GCTTTGTCTGGTGATCTTGA+TGG 0.316091 2.2:+734505 MS.gene83558:CDS
GAGAATTTCTAATCTGTGTT+TGG 0.325351 2.2:-734203 None:intergenic
TAAGTGGGATACCATGTTTA+AGG 0.337355 2.2:+734648 MS.gene83558:CDS
GAGAAAATGTTTCTCACAAA+TGG 0.339341 2.2:+734448 MS.gene83558:CDS
CCATCTCTTGTATATGAGTA+TGG 0.354378 2.2:+734094 MS.gene83558:CDS
TACTGAAGAATCAGGACTTA+TGG 0.367073 2.2:+734336 MS.gene83558:CDS
AGTACTTAGCTAACTATGTT+AGG 0.383843 2.2:+734302 MS.gene83558:CDS
TTCTAATCTGTGTTTGGCTA+TGG 0.404684 2.2:-734197 None:intergenic
ATAATCATGATGATGGTTAT+TGG 0.406535 2.2:+734605 MS.gene83558:CDS
CTAGGCCTAATGGTGGATTT+GGG 0.437057 2.2:+734368 MS.gene83558:CDS
TTGACTCATACTGAAGAATC+AGG 0.442832 2.2:+734328 MS.gene83558:CDS
ACAGTAGCTCCTGCTTTGTC+TGG 0.454059 2.2:+734493 MS.gene83558:CDS
GAAGAGGAACACACAATTTG+TGG 0.477404 2.2:+734414 MS.gene83558:CDS
CCATGCTTTGTAGAAACTCA+TGG 0.497469 2.2:-734168 None:intergenic
TTAACTCAACAGCCATGGAT+TGG 0.500177 2.2:+734041 None:intergenic
TTTCCAAAAGGAGCAAAAGA+TGG 0.506781 2.2:+734552 MS.gene83558:CDS
AATCCACCATTAGGCCTAGT+TGG 0.510240 2.2:-734364 None:intergenic
ATGGTGGATTTGGGAGAAGA+TGG 0.518326 2.2:+734377 MS.gene83558:CDS
CCATGAGTTTCTACAAAGCA+TGG 0.527981 2.2:+734168 MS.gene83558:CDS
CAAAAGATGGATGGAGATGA+TGG 0.529408 2.2:+734565 MS.gene83558:CDS
TACAAGAGATGGCTCAAGGT+TGG 0.536104 2.2:-734083 None:intergenic
GACTTATGGTGATGCCAACT+AGG 0.538549 2.2:+734350 MS.gene83558:CDS
CTGCTGTTGAAGAGATTAAG+TGG 0.538740 2.2:+734632 MS.gene83558:CDS
CTTCTCCCAAATCCACCATT+AGG 0.539738 2.2:-734373 None:intergenic
GTGATGCCAACTAGGCCTAA+TGG 0.547391 2.2:+734358 MS.gene83558:CDS
GATGGAGATGATGGTGGTGA+TGG 0.550508 2.2:+734574 MS.gene83558:CDS
TGTTGTGTATCATTTCCAAA+AGG 0.557274 2.2:+734540 MS.gene83558:CDS
CAAAAGGAGCAAAAGATGGA+TGG 0.561894 2.2:+734556 MS.gene83558:CDS
AATAATGATAATCATGATGA+TGG 0.562055 2.2:+734598 MS.gene83558:CDS
CCATACTCATATACAAGAGA+TGG 0.573633 2.2:-734094 None:intergenic
TCAAGATCACCAGACAAAGC+AGG 0.592387 2.2:-734502 None:intergenic
CATGAGTTTCTACAAAGCAT+GGG 0.601787 2.2:+734169 MS.gene83558:CDS
GGAAGAGTGCTATAATGAAG+AGG 0.605141 2.2:+734398 MS.gene83558:CDS
AAATGTTTCTCACAAATGGA+AGG 0.609404 2.2:+734452 MS.gene83558:CDS
CATATACAAGAGATGGCTCA+AGG 0.614307 2.2:-734087 None:intergenic
AATTTGTAGCTGCAATCAAG+AGG 0.614506 2.2:+734272 MS.gene83558:CDS
TAGCCATGAAAACCAATCCA+TGG 0.623251 2.2:-734053 None:intergenic
TGCTGTTGAAGAGATTAAGT+GGG 0.633418 2.2:+734633 MS.gene83558:CDS
TGGCTTTAGATCCTTAAACA+TGG 0.634954 2.2:-734659 None:intergenic
ATGCCAACTAGGCCTAATGG+TGG 0.656564 2.2:+734361 MS.gene83558:CDS
GAGGAACACACAATTTGTGG+TGG 0.682058 2.2:+734417 MS.gene83558:CDS
AAGATGGATGGAGATGATGG+TGG 0.707845 2.2:+734568 MS.gene83558:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATGATAATCATGATGA+TGG + chr2.2:734598-734617 MS.gene83558:CDS 20.0%
!!! ATAATCATGATGATGGTTAT+TGG + chr2.2:734605-734624 MS.gene83558:CDS 25.0%
AAATGTTTCTCACAAATGGA+AGG + chr2.2:734452-734471 MS.gene83558:CDS 30.0%
AGTACTTAGCTAACTATGTT+AGG + chr2.2:734302-734321 MS.gene83558:CDS 30.0%
GAGAAAATGTTTCTCACAAA+TGG + chr2.2:734448-734467 MS.gene83558:CDS 30.0%
GAGAATTTCTAATCTGTGTT+TGG - chr2.2:734206-734225 None:intergenic 30.0%
TGTTGTGTATCATTTCCAAA+AGG + chr2.2:734540-734559 MS.gene83558:CDS 30.0%
!! TTTTGGAAATGATACACAAC+AGG - chr2.2:734541-734560 None:intergenic 30.0%
AATTTGTAGCTGCAATCAAG+AGG + chr2.2:734272-734291 MS.gene83558:CDS 35.0%
CATGAGTTTCTACAAAGCAT+GGG + chr2.2:734169-734188 MS.gene83558:CDS 35.0%
CCATACTCATATACAAGAGA+TGG - chr2.2:734097-734116 None:intergenic 35.0%
CCATCTCTTGTATATGAGTA+TGG + chr2.2:734094-734113 MS.gene83558:CDS 35.0%
TAAGTGGGATACCATGTTTA+AGG + chr2.2:734648-734667 MS.gene83558:CDS 35.0%
TACTGAAGAATCAGGACTTA+TGG + chr2.2:734336-734355 MS.gene83558:CDS 35.0%
TGCTGTTGAAGAGATTAAGT+GGG + chr2.2:734633-734652 MS.gene83558:CDS 35.0%
TTCTAATCTGTGTTTGGCTA+TGG - chr2.2:734200-734219 None:intergenic 35.0%
TTGACTCATACTGAAGAATC+AGG + chr2.2:734328-734347 MS.gene83558:CDS 35.0%
TTTCCAAAAGGAGCAAAAGA+TGG + chr2.2:734552-734571 MS.gene83558:CDS 35.0%
! ACAAATTTTGCAACTGTGTG+TGG - chr2.2:734259-734278 None:intergenic 35.0%
!! TGGCTTTAGATCCTTAAACA+TGG - chr2.2:734662-734681 None:intergenic 35.0%
CAAAAGATGGATGGAGATGA+TGG + chr2.2:734565-734584 MS.gene83558:CDS 40.0%
CAAAAGGAGCAAAAGATGGA+TGG + chr2.2:734556-734575 MS.gene83558:CDS 40.0%
CATATACAAGAGATGGCTCA+AGG - chr2.2:734090-734109 None:intergenic 40.0%
CCATGAGTTTCTACAAAGCA+TGG + chr2.2:734168-734187 MS.gene83558:CDS 40.0%
CCATGCTTTGTAGAAACTCA+TGG - chr2.2:734171-734190 None:intergenic 40.0%
CTGCTGTTGAAGAGATTAAG+TGG + chr2.2:734632-734651 MS.gene83558:CDS 40.0%
GAAGAGGAACACACAATTTG+TGG + chr2.2:734414-734433 MS.gene83558:CDS 40.0%
! AAAGCAGGAGCTACTGTTTT+TGG - chr2.2:734490-734509 None:intergenic 40.0%
! CATCCATCTTTTGCTCCTTT+TGG - chr2.2:734558-734577 None:intergenic 40.0%
! GCTCATTTTGTGCAAAGACA+AGG - chr2.2:734120-734139 None:intergenic 40.0%
!! GGAAGAGTGCTATAATGAAG+AGG + chr2.2:734398-734417 MS.gene83558:CDS 40.0%
AATCCACCATTAGGCCTAGT+TGG - chr2.2:734367-734386 None:intergenic 45.0%
CTTCTCCCAAATCCACCATT+AGG - chr2.2:734376-734395 None:intergenic 45.0%
GAGGAACACACAATTTGTGG+TGG + chr2.2:734417-734436 MS.gene83558:CDS 45.0%
GCTTTGTCTGGTGATCTTGA+TGG + chr2.2:734505-734524 MS.gene83558:CDS 45.0%
TACAAGAGATGGCTCAAGGT+TGG - chr2.2:734086-734105 None:intergenic 45.0%
TCAAGATCACCAGACAAAGC+AGG - chr2.2:734505-734524 None:intergenic 45.0%
! AAGATGGATGGAGATGATGG+TGG + chr2.2:734568-734587 MS.gene83558:CDS 45.0%
! GACTTATGGTGATGCCAACT+AGG + chr2.2:734350-734369 MS.gene83558:CDS 45.0%
!! ACTAGGCCTAATGGTGGATT+TGG + chr2.2:734367-734386 MS.gene83558:CDS 45.0%
!! ATGGTGGATTTGGGAGAAGA+TGG + chr2.2:734377-734396 MS.gene83558:CDS 45.0%
!! CTAGGCCTAATGGTGGATTT+GGG + chr2.2:734368-734387 MS.gene83558:CDS 45.0%
!!! AGGAGCTACTGTTTTTGGCA+TGG - chr2.2:734485-734504 None:intergenic 45.0%
ACAGTAGCTCCTGCTTTGTC+TGG + chr2.2:734493-734512 MS.gene83558:CDS 50.0%
ATGCCAACTAGGCCTAATGG+TGG + chr2.2:734361-734380 MS.gene83558:CDS 50.0%
GTGATGCCAACTAGGCCTAA+TGG + chr2.2:734358-734377 MS.gene83558:CDS 50.0%
!! GATGGAGATGATGGTGGTGA+TGG + chr2.2:734574-734593 MS.gene83558:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 734055 734687 734055 ID=MS.gene83558
chr2.2 mRNA 734055 734687 734055 ID=MS.gene83558.t1;Parent=MS.gene83558
chr2.2 exon 734055 734687 734055 ID=MS.gene83558.t1.exon1;Parent=MS.gene83558.t1
chr2.2 CDS 734055 734687 734055 ID=cds.MS.gene83558.t1;Parent=MS.gene83558.t1
Gene Sequence

>MS.gene83558

ATGGATTGGTTTTCATGGCTATCAAAAACCAACCTTGAGCCATCTCTTGTATATGAGTATGGCCTTGTCTTTGCACAAAATGAGCTTGAAGAAGAAGACATGTTTTACTTCAACCATGAGTTTCTACAAAGCATGGGAATCTCCATAGCCAAACACAGATTAGAAATTCTCAAGCTTGCTAAAAAAGACAAGAGAAAAAGTCCACACACAGTTGCAAAATTTGTAGCTGCAATCAAGAGGACAAAGAAGTACTTAGCTAACTATGTTAGGACTTTGACTCATACTGAAGAATCAGGACTTATGGTGATGCCAACTAGGCCTAATGGTGGATTTGGGAGAAGATGGAAGAGTGCTATAATGAAGAGGAACACACAATTTGTGGTGGCTAAGCAAGAGAAAATGTTTCTCACAAATGGAAGGTCTTCTTCCATGCCAAAAACAGTAGCTCCTGCTTTGTCTGGTGATCTTGATGGTTTTTCTAGTCCTGTTGTGTATCATTTCCAAAAGGAGCAAAAGATGGATGGAGATGATGGTGGTGATGGTAATAATGATAATCATGATGATGGTTATTGGTCTGCTGCTGTTGAAGAGATTAAGTGGGATACCATGTTTAAGGATCTAAAGCCAAACTAA
Protein sequence

>MS.gene83558.t1

MDWFSWLSKTNLEPSLVYEYGLVFAQNELEEEDMFYFNHEFLQSMGISIAKHRLEILKLAKKDKRKSPHTVAKFVAAIKRTKKYLANYVRTLTHTEESGLMVMPTRPNGGFGRRWKSAIMKRNTQFVVAKQEKMFLTNGRSSSMPKTVAPALSGDLDGFSSPVVYHFQKEQKMDGDDGGDGNNDNHDDGYWSAAVEEIKWDTMFKDLKPN