AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051867

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051867.t1 MTR_4g126210 89.641 251 16 3 1 247 1 245 1.20e-145 407
MS.gene051867.t1 MTR_4g126170 38.403 263 67 10 1 246 5 189 1.15e-30 112
MS.gene051867.t1 MTR_1g016100 33.569 283 143 9 8 245 17 299 2.33e-28 109
MS.gene051867.t1 MTR_2g039320 32.129 249 116 7 7 245 12 217 1.27e-24 97.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051867.t1 AT2G26110 36.940 268 130 11 6 244 43 300 1.25e-30 115
MS.gene051867.t1 AT4G26130 34.028 288 129 12 6 244 5 280 3.49e-18 82.0
MS.gene051867.t1 AT5G56980 32.328 232 106 9 50 244 156 373 4.03e-18 82.8
MS.gene051867.t1 AT5G56980 31.548 168 90 6 6 148 5 172 1.74e-12 66.6

Find 56 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCATTGTAAACCTTGTTAT+AGG 0.263832 8.2:+6385525 MS.gene051867:CDS
CTCTTTACCTCATCGCTGAC+CGG 0.346958 8.2:-6385960 None:intergenic
CTGCAACAAATGATGGTTCT+TGG 0.349234 8.2:-6385677 None:intergenic
ACCATCATTTGTTGCAGAAC+CGG 0.359413 8.2:+6385683 MS.gene051867:CDS
GAGGTTGTTGGTGTTGGGTT+TGG 0.362660 8.2:-6385593 None:intergenic
TGAGTTGAGGTTGTTGGTGT+TGG 0.367035 8.2:-6385599 None:intergenic
GTTGTAGTGACGGAAGTTAA+AGG 0.372378 8.2:-6385655 None:intergenic
CGCTGACCGGGTTCAGAGAT+GGG 0.379247 8.2:-6385947 None:intergenic
CTCCTCGCCGCCGCCGTCGC+TGG 0.383420 8.2:-6386065 None:intergenic
CTTCACTTCTCAACCGTATC+AGG 0.388196 8.2:+6385631 MS.gene051867:CDS
GAGTTGAGGTTGTTGGTGTT+GGG 0.397570 8.2:-6385598 None:intergenic
AAGCTGATGATTTCATCAAC+AGG 0.418680 8.2:+6386129 MS.gene051867:CDS
AACGATTGAGTTGAGGTTGT+TGG 0.427795 8.2:-6385605 None:intergenic
AAGAAGGCCAGCGACGGCGG+CGG 0.457267 8.2:+6386058 MS.gene051867:CDS
TCGCTGACCGGGTTCAGAGA+TGG 0.480905 8.2:-6385948 None:intergenic
TCCGGTTCTGCAACAAATGA+TGG 0.484555 8.2:-6385684 None:intergenic
CATGTTGCTATGAAAGTTGT+TGG 0.489388 8.2:-6385480 None:intergenic
GTTGATTCAGACTCAGACTC+GGG 0.495280 8.2:-6385831 None:intergenic
TGTTGATTCAGACTCAGACT+CGG 0.501879 8.2:-6385832 None:intergenic
TTCGTGTTTGTTGAGATTGA+AGG 0.508523 8.2:-6385778 None:intergenic
GCTCTAGCTTCTCGCTTCAA+TGG 0.509488 8.2:+6385555 MS.gene051867:CDS
TTCGTGTTTGTTGAGATTGA+AGG 0.512433 8.2:-6385901 None:intergenic
TTCATCTTCTTTGCACGTCG+TGG 0.520246 8.2:-6386093 None:intergenic
GGAGGAAGAAGATGAAGAAA+CGG 0.520656 8.2:+6386028 MS.gene051867:CDS
AAGAAACGGTGGAGAGAAGA+AGG 0.523159 8.2:+6386042 MS.gene051867:CDS
CGAGCTCGAAAACGTTTGAA+AGG 0.532874 8.2:+6386006 MS.gene051867:CDS
TCTTTACCTCATCGCTGACC+GGG 0.535702 8.2:-6385959 None:intergenic
GAGAAGAAGGCCAGCGACGG+CGG 0.537567 8.2:+6386055 MS.gene051867:CDS
GGCCAGCGACGGCGGCGGCG+AGG 0.541710 8.2:+6386063 MS.gene051867:CDS
ATAACTCTCTCTAACAAAGA+AGG 0.544656 8.2:-6385753 None:intergenic
TCGGACTCTGACTCTACCTC+CGG 0.548761 8.2:-6385702 None:intergenic
AGAAGCAACTACGGTTGCAA+AGG 0.555330 8.2:+6386156 MS.gene051867:CDS
GAGTTGAGGCTGAGTGAACT+CGG 0.556334 8.2:-6385721 None:intergenic
CTCGAAAACGTTTGAAAGGG+AGG 0.563627 8.2:+6386010 MS.gene051867:CDS
ACAATGATGAAAATAGAAGA+AGG 0.575111 8.2:-6385510 None:intergenic
GGAAGTTAAAGGACCTGATA+CGG 0.584536 8.2:-6385644 None:intergenic
GGAGAGAAGAAGGCCAGCGA+CGG 0.586100 8.2:+6386052 MS.gene051867:CDS
ATGTTGCTATGAAAGTTGTT+GGG 0.590580 8.2:-6385479 None:intergenic
CTGATACGGTTGAGAAGTGA+AGG 0.593968 8.2:-6385630 None:intergenic
GAGCTCGAAAACGTTTGAAA+GGG 0.597585 8.2:+6386007 MS.gene051867:CDS
GGAAGAAGATGAAGAAACGG+TGG 0.601259 8.2:+6386031 MS.gene051867:CDS
AATCTCAACAAACACGAACC+AGG 0.605009 8.2:+6385906 MS.gene051867:CDS
CAACAACTTTCATAGCAACA+TGG 0.606436 8.2:+6385481 MS.gene051867:CDS
TGAAAACCCATCTCTGAACC+CGG 0.607759 8.2:+6385941 MS.gene051867:CDS
ACAGGTTTAAGAAGCAACTA+CGG 0.608928 8.2:+6386147 MS.gene051867:CDS
GAAGCGAGAAGCTAGAGCTA+TGG 0.615154 8.2:-6385550 None:intergenic
TAATGTGTCTGTGGATATTG+TGG 0.622076 8.2:-6385801 None:intergenic
ATGGTTCTTGGTTGTAGTGA+CGG 0.623543 8.2:-6385665 None:intergenic
ATCATTTGTTGCAGAACCGG+AGG 0.633321 8.2:+6385686 MS.gene051867:CDS
CAGCGATGAGGTAAAGAGCA+AGG 0.634647 8.2:+6385965 MS.gene051867:CDS
ATGACTCGTTGTAACAGAGA+CGG 0.646476 8.2:-6385876 None:intergenic
GAAGGTGAACGATTGAGTTG+AGG 0.653353 8.2:-6385612 None:intergenic
TCTGAACCCGGTCAGCGATG+AGG 0.655711 8.2:+6385953 MS.gene051867:CDS
GAGCTATGGTACCTATAACA+AGG 0.664959 8.2:-6385536 None:intergenic
GGTTGAACGTAATGTGTCTG+TGG 0.666874 8.2:-6385810 None:intergenic
CGATGAGGTAAAGAGCAAGG+TGG 0.704311 8.2:+6385968 MS.gene051867:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ACAATGATGAAAATAGAAGA+AGG - chr8.2:6385513-6385532 None:intergenic 25.0%
!! ATCATTGTAAACCTTGTTAT+AGG + chr8.2:6385525-6385544 MS.gene051867:CDS 25.0%
ATAACTCTCTCTAACAAAGA+AGG - chr8.2:6385756-6385775 None:intergenic 30.0%
ATGTTGCTATGAAAGTTGTT+GGG - chr8.2:6385482-6385501 None:intergenic 30.0%
AAGCTGATGATTTCATCAAC+AGG + chr8.2:6386129-6386148 MS.gene051867:CDS 35.0%
ACAGGTTTAAGAAGCAACTA+CGG + chr8.2:6386147-6386166 MS.gene051867:CDS 35.0%
CAACAACTTTCATAGCAACA+TGG + chr8.2:6385481-6385500 MS.gene051867:CDS 35.0%
CATGTTGCTATGAAAGTTGT+TGG - chr8.2:6385483-6385502 None:intergenic 35.0%
TAATGTGTCTGTGGATATTG+TGG - chr8.2:6385804-6385823 None:intergenic 35.0%
! TTCGTGTTTGTTGAGATTGA+AGG - chr8.2:6385781-6385800 None:intergenic 35.0%
!!! TGTTGGGTTTGGTCATTTTT+GGG - chr8.2:6385585-6385604 None:intergenic 35.0%
AATCTCAACAAACACGAACC+AGG + chr8.2:6385783-6385802 MS.gene051867:CDS 40.0%
ATGACTCGTTGTAACAGAGA+CGG - chr8.2:6385879-6385898 None:intergenic 40.0%
ATGGTTCTTGGTTGTAGTGA+CGG - chr8.2:6385668-6385687 None:intergenic 40.0%
CTGCAACAAATGATGGTTCT+TGG - chr8.2:6385680-6385699 None:intergenic 40.0%
GAGCTATGGTACCTATAACA+AGG - chr8.2:6385539-6385558 None:intergenic 40.0%
GAGCTCGAAAACGTTTGAAA+GGG + chr8.2:6386007-6386026 MS.gene051867:CDS 40.0%
GGAAGTTAAAGGACCTGATA+CGG - chr8.2:6385647-6385666 None:intergenic 40.0%
GGAGGAAGAAGATGAAGAAA+CGG + chr8.2:6386028-6386047 MS.gene051867:CDS 40.0%
! ACCATCATTTGTTGCAGAAC+CGG + chr8.2:6385683-6385702 MS.gene051867:CDS 40.0%
! GTTGTAGTGACGGAAGTTAA+AGG - chr8.2:6385658-6385677 None:intergenic 40.0%
!! AACGATTGAGTTGAGGTTGT+TGG - chr8.2:6385608-6385627 None:intergenic 40.0%
!! GTGTTGGGTTTGGTCATTTT+TGG - chr8.2:6385586-6385605 None:intergenic 40.0%
!! TGTTGATTCAGACTCAGACT+CGG - chr8.2:6385835-6385854 None:intergenic 40.0%
AAGAAACGGTGGAGAGAAGA+AGG + chr8.2:6386042-6386061 MS.gene051867:CDS 45.0%
AGAAGCAACTACGGTTGCAA+AGG + chr8.2:6386156-6386175 MS.gene051867:CDS 45.0%
CGAGCTCGAAAACGTTTGAA+AGG + chr8.2:6386006-6386025 MS.gene051867:CDS 45.0%
CTCGAAAACGTTTGAAAGGG+AGG + chr8.2:6386010-6386029 MS.gene051867:CDS 45.0%
CTGATACGGTTGAGAAGTGA+AGG - chr8.2:6385633-6385652 None:intergenic 45.0%
CTTCACTTCTCAACCGTATC+AGG + chr8.2:6385631-6385650 MS.gene051867:CDS 45.0%
GGAAGAAGATGAAGAAACGG+TGG + chr8.2:6386031-6386050 MS.gene051867:CDS 45.0%
GGTTGAACGTAATGTGTCTG+TGG - chr8.2:6385813-6385832 None:intergenic 45.0%
TCCGGTTCTGCAACAAATGA+TGG - chr8.2:6385687-6385706 None:intergenic 45.0%
TGAAAACCCATCTCTGAACC+CGG + chr8.2:6385941-6385960 MS.gene051867:CDS 45.0%
TTCATCTTCTTTGCACGTCG+TGG - chr8.2:6386096-6386115 None:intergenic 45.0%
! ATCATTTGTTGCAGAACCGG+AGG + chr8.2:6385686-6385705 MS.gene051867:CDS 45.0%
! GAAGGTGAACGATTGAGTTG+AGG - chr8.2:6385615-6385634 None:intergenic 45.0%
! GAAGGTTTTCGAACGAGTTG+AGG - chr8.2:6385738-6385757 None:intergenic 45.0%
! GAGTTGAGGTTGTTGGTGTT+GGG - chr8.2:6385601-6385620 None:intergenic 45.0%
! GTTGATTCAGACTCAGACTC+GGG - chr8.2:6385834-6385853 None:intergenic 45.0%
! TGAGTTGAGGTTGTTGGTGT+TGG - chr8.2:6385602-6385621 None:intergenic 45.0%
!! AGAGATGGGTTTTCAGCTTC+GGG - chr8.2:6385936-6385955 None:intergenic 45.0%
!! CAGAGATGGGTTTTCAGCTT+CGG - chr8.2:6385937-6385956 None:intergenic 45.0%
!!! TGGGTTTGGTCATTTTTGGG+TGG - chr8.2:6385582-6385601 None:intergenic 45.0%
CAGCGATGAGGTAAAGAGCA+AGG + chr8.2:6385965-6385984 MS.gene051867:CDS 50.0%
CGATGAGGTAAAGAGCAAGG+TGG + chr8.2:6385968-6385987 MS.gene051867:CDS 50.0%
CTCTTTACCTCATCGCTGAC+CGG - chr8.2:6385963-6385982 None:intergenic 50.0%
GAAGCGAGAAGCTAGAGCTA+TGG - chr8.2:6385553-6385572 None:intergenic 50.0%
GAGTTGAGGCTGAGTGAACT+CGG - chr8.2:6385724-6385743 None:intergenic 50.0%
TCTTTACCTCATCGCTGACC+GGG - chr8.2:6385962-6385981 None:intergenic 50.0%
! GACGGTTTTCGAACGAGTTG+AGG - chr8.2:6385861-6385880 None:intergenic 50.0%
! GCTCTAGCTTCTCGCTTCAA+TGG + chr8.2:6385555-6385574 MS.gene051867:CDS 50.0%
!! GAGGTTGTTGGTGTTGGGTT+TGG - chr8.2:6385596-6385615 None:intergenic 50.0%
!!! TTTTCAGCTTCGGGTTGTCC+TGG - chr8.2:6385927-6385946 None:intergenic 50.0%
TCGGACTCTGACTCTACCTC+CGG - chr8.2:6385705-6385724 None:intergenic 55.0%
CGCTGACCGGGTTCAGAGAT+GGG - chr8.2:6385950-6385969 None:intergenic 60.0%
GGAGAGAAGAAGGCCAGCGA+CGG + chr8.2:6386052-6386071 MS.gene051867:CDS 60.0%
TCGCTGACCGGGTTCAGAGA+TGG - chr8.2:6385951-6385970 None:intergenic 60.0%
TCTGAACCCGGTCAGCGATG+AGG + chr8.2:6385953-6385972 MS.gene051867:CDS 60.0%
GAGAAGAAGGCCAGCGACGG+CGG + chr8.2:6386055-6386074 MS.gene051867:CDS 65.0%
AAGAAGGCCAGCGACGGCGG+CGG + chr8.2:6386058-6386077 MS.gene051867:CDS 70.0%
! CTCCTCGCCGCCGCCGTCGC+TGG - chr8.2:6386068-6386087 None:intergenic 85.0%
! GGCCAGCGACGGCGGCGGCG+AGG + chr8.2:6386063-6386082 MS.gene051867:CDS 90.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 6385471 6386217 6385471 ID=MS.gene051867
chr8.2 mRNA 6385471 6386217 6385471 ID=MS.gene051867.t1;Parent=MS.gene051867
chr8.2 exon 6385471 6386217 6385471 ID=MS.gene051867.t1.exon1;Parent=MS.gene051867.t1
chr8.2 CDS 6385471 6386217 6385471 ID=cds.MS.gene051867.t1;Parent=MS.gene051867.t1
Gene Sequence

>MS.gene051867

ATGGCAGACCCAACAACTTTCATAGCAACATGGTTTACACCTTCTTCTATTTTCATCATTGTAAACCTTGTTATAGGTACCATAGCTCTAGCTTCTCGCTTCAATGGTCCACCCAAAAATGACCAAACCCAACACCAACAACCTCAACTCAATCGTTCACCTTCACTTCTCAACCGTATCAGGTCCTTTAACTTCCGTCACTACAACCAAGAACCATCATTTGTTGCAGAACCGGAGGTAGAGTCAGAGTCCGAGTTCACTCAGCCTCAACTCGTTCGAAAACCTTCTTTGTTAGAGAGAGTTATGTCCTTCAATCTCAACAAACACGAACCACAATATCCACAGACACATTACGTTCAACCCGAGTCTGAGTCTGAATCAACAAAGCCTCAACTCGTTCGAAAACCGTCTCTGTTACAACGAGTCATGTCCTTCAATCTCAACAAACACGAACCAGGACAACCCGAAGCTGAAAACCCATCTCTGAACCCGGTCAGCGATGAGGTAAAGAGCAAGGTGGAGATGATGAAATCAGCGAGCTCGAAAACGTTTGAAAGGGAGGAAGAAGATGAAGAAACGGTGGAGAGAAGAAGGCCAGCGACGGCGGCGGCGAGGAGTGAAACCACGACGTGCAAAGAAGATGAAGCTGTTGATGCAAAAGCTGATGATTTCATCAACAGGTTTAAGAAGCAACTACGGTTGCAAAGGCTTGATTCTTTTATGCGTTACAGAAACAATTCTCTTTGA
Protein sequence

>MS.gene051867.t1

MADPTTFIATWFTPSSIFIIVNLVIGTIALASRFNGPPKNDQTQHQQPQLNRSPSLLNRIRSFNFRHYNQEPSFVAEPEVESESEFTQPQLVRKPSLLERVMSFNLNKHEPQYPQTHYVQPESESESTKPQLVRKPSLLQRVMSFNLNKHEPGQPEAENPSLNPVSDEVKSKVEMMKSASSKTFEREEEDEETVERRRPATAAARSETTTCKEDEAVDAKADDFINRFKKQLRLQRLDSFMRYRNNSL