AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene76473

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76473.t1 MTR_8g076160 96.373 193 7 0 1 193 1 193 2.29e-140 389
MS.gene76473.t1 MTR_5g021610 78.462 195 39 3 1 193 14 207 9.29e-110 312
MS.gene76473.t1 MTR_2g005880 63.514 148 48 2 12 159 2 143 3.48e-64 196
MS.gene76473.t1 MTR_4g114080 57.639 144 57 1 12 155 4 143 3.66e-56 175
MS.gene76473.t1 MTR_4g011020 54.362 149 61 2 12 157 8 152 2.85e-55 173
MS.gene76473.t1 MTR_0003s0630 47.887 142 72 2 14 154 35 175 1.53e-47 154
MS.gene76473.t1 MTR_2g103490 49.333 150 68 3 12 157 8 153 6.23e-47 152
MS.gene76473.t1 MTR_2g103460 48.667 150 69 3 12 157 8 153 2.60e-45 147
MS.gene76473.t1 MTR_1g115170 44.444 135 66 3 30 161 3 131 5.04e-36 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene76473.t1 AT1G15380 57.718 149 56 2 12 157 8 152 1.81e-58 181
MS.gene76473.t1 AT1G15380 57.718 149 56 2 12 157 8 152 1.81e-58 181
MS.gene76473.t1 AT1G80160 52.349 149 64 2 12 157 8 152 1.23e-54 171
MS.gene76473.t1 AT1G80160 52.349 149 64 2 12 157 49 193 3.49e-54 171
MS.gene76473.t1 AT2G28420 50.000 144 68 2 14 156 17 157 6.15e-49 157
MS.gene76473.t1 AT1G80160 48.077 104 47 2 57 157 27 126 1.68e-31 111

Find 59 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATCAAATTCATCATAATT+TGG 0.184282 8.1:-31283569 None:intergenic
TTGTGTAGGTTGTATAATTA+TGG 0.227214 8.1:+31283521 MS.gene76473:intron
ATGGTTGTCCTTGGGATTAA+TGG 0.258018 8.1:-31283612 None:intergenic
TATGAAGAAGTCTTGGGTTT+TGG 0.266509 8.1:+31283351 MS.gene76473:CDS
TAATTACTTGGAATGATATA+TGG 0.268558 8.1:-31283631 None:intergenic
TTCTGCTTCCTGCTCTTTCA+AGG 0.282455 8.1:+31283907 MS.gene76473:CDS
TGTGTAGGTTGTATAATTAT+GGG 0.310343 8.1:+31283522 MS.gene76473:intron
CAACACTGATCTGCATAATA+TGG 0.311667 8.1:-31283313 None:intergenic
TTCTAACAAGTGTGGGTTCA+TGG 0.316320 8.1:+31283958 MS.gene76473:CDS
GCAGAAGAAATGGGAACTAT+TGG 0.335608 8.1:-31283890 None:intergenic
ATGGGTCGTGATTCACTCAT+AGG 0.351235 8.1:-31283593 None:intergenic
GAAAATGAGGTTGGAAGAAA+TGG 0.352191 8.1:+31283757 MS.gene76473:CDS
CCTTCCTCTTTCAAATTCAA+TGG 0.370841 8.1:+31283387 MS.gene76473:CDS
AGAGCAGGAAGCAGAAGAAA+TGG 0.381171 8.1:-31283900 None:intergenic
AAAATGGGGATTGAGGAAAT+TGG 0.400288 8.1:+31283246 None:intergenic
TGGTTGTCCTTGGGATTAAT+GGG 0.407514 8.1:-31283611 None:intergenic
GATGAAGTATGTTACAGCTT+TGG 0.428272 8.1:+31283781 MS.gene76473:CDS
CAGAAGAAATGGGAACTATT+GGG 0.429676 8.1:-31283889 None:intergenic
AGGTTGTATAATTATGGGTT+TGG 0.430257 8.1:+31283527 MS.gene76473:intron
GAGGTTCTATGAAGAAGTCT+TGG 0.431037 8.1:+31283344 MS.gene76473:CDS
AGTTCTATCATGTATCCATC+AGG 0.435736 8.1:-31283848 None:intergenic
AAACAGTCTTCTTAAAGCTC+TGG 0.447084 8.1:-31283937 None:intergenic
GAATGATATATGGTTGTCCT+TGG 0.451197 8.1:-31283621 None:intergenic
AAAATGAGGTTGGAAGAAAT+GGG 0.458153 8.1:+31283758 MS.gene76473:CDS
AGGTTCTATGAAGAAGTCTT+GGG 0.458934 8.1:+31283345 MS.gene76473:CDS
TTGTGCAGTGTACAGATGTT+GGG 0.460233 8.1:+31283729 MS.gene76473:intron
TGCTCCATTGAATTTGAAAG+AGG 0.466642 8.1:-31283391 None:intergenic
CACATGATTCAGTGAGAGAA+GGG 0.472092 8.1:-31283289 None:intergenic
TTTGTGCAGTGTACAGATGT+TGG 0.472216 8.1:+31283728 MS.gene76473:intron
GAGCAGGAAGCAGAAGAAAT+GGG 0.476522 8.1:-31283899 None:intergenic
TGAAGGAATCAAGGTGGAGC+AGG 0.491848 8.1:+31283811 MS.gene76473:CDS
TGGGTCGTGATTCACTCATA+GGG 0.496984 8.1:-31283592 None:intergenic
TCATGTATCCATCAGGGTCA+TGG 0.518219 8.1:-31283841 None:intergenic
ACAGCTTTGGTAGAGGATGA+AGG 0.518692 8.1:+31283794 MS.gene76473:CDS
CCATTGAATTTGAAAGAGGA+AGG 0.520942 8.1:-31283387 None:intergenic
AATGATATATGGTTGTCCTT+GGG 0.521545 8.1:-31283620 None:intergenic
GCCTCGTGCCTTGAAAGAGC+AGG 0.526263 8.1:-31283915 None:intergenic
CTTTCAAATTCAATGGAGCA+TGG 0.540814 8.1:+31283394 MS.gene76473:CDS
GTATGTTACAGCTTTGGTAG+AGG 0.543537 8.1:+31283787 MS.gene76473:CDS
TTCAGTGAGAGAAGGGGTAG+TGG 0.543925 8.1:-31283282 None:intergenic
TGGGCTAGTGAAAATGAGGT+TGG 0.545299 8.1:+31283748 MS.gene76473:CDS
GGTAGAGGATGAAGGAATCA+AGG 0.549754 8.1:+31283802 MS.gene76473:CDS
CATATTATGCAGATCAGTGT+TGG 0.552916 8.1:+31283314 MS.gene76473:CDS
GTGTTCTTCCATGACCCTGA+TGG 0.553401 8.1:+31283833 MS.gene76473:CDS
AAGACTGTTTCTAACAAGTG+TGG 0.559960 8.1:+31283950 MS.gene76473:CDS
ATATTGGAAAATGGGGATTG+AGG 0.566391 8.1:+31283239 None:intergenic
AGACTGTTTCTAACAAGTGT+GGG 0.576406 8.1:+31283951 MS.gene76473:CDS
GATCAGTGTTGGACTCTATG+AGG 0.578559 8.1:+31283325 MS.gene76473:CDS
TCCTGCTCTTTCAAGGCACG+AGG 0.591048 8.1:+31283914 MS.gene76473:CDS
ACACATGATTCAGTGAGAGA+AGG 0.601179 8.1:-31283290 None:intergenic
GTTCTATCATGTATCCATCA+GGG 0.630489 8.1:-31283847 None:intergenic
CATTGAATTTGAAAGAGGAA+GGG 0.632398 8.1:-31283386 None:intergenic
TATGATGCGAAGCTTGAGCA+TGG 0.640468 8.1:+31283988 MS.gene76473:CDS
ATCACGACCCATTAATCCCA+AGG 0.645670 8.1:+31283604 MS.gene76473:CDS
ATGTTGGGCTAGTGAAAATG+AGG 0.654745 8.1:+31283744 MS.gene76473:CDS
GGGTCGTGATTCACTCATAG+GGG 0.689430 8.1:-31283591 None:intergenic
AAATGAGGTTGGAAGAAATG+GGG 0.690532 8.1:+31283759 MS.gene76473:CDS
ACATGATTCAGTGAGAGAAG+GGG 0.696257 8.1:-31283288 None:intergenic
AGAGGATGAAGGAATCAAGG+TGG 0.720837 8.1:+31283805 MS.gene76473:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAAGTTTCATAAAGAAAA+TGG - chr8.1:31283447-31283466 None:intergenic 15.0%
!!! AAACTTTATATCCATTATTT+TGG + chr8.1:31283458-31283477 MS.gene76473:intron 15.0%
!! ACACAAAACAAAACAAAAAA+TGG - chr8.1:31283507-31283526 None:intergenic 20.0%
!! TAATTACTTGGAATGATATA+TGG - chr8.1:31283634-31283653 None:intergenic 20.0%
!! TATTTGTTCAACCAAAATAA+TGG - chr8.1:31283472-31283491 None:intergenic 20.0%
!!! TTACTAAAAGTGTTTCAATT+TGG + chr8.1:31283704-31283723 MS.gene76473:intron 20.0%
!!! TTTTTTGTTTTGTTTTGTGT+AGG + chr8.1:31283507-31283526 MS.gene76473:intron 20.0%
! GCATCAAATTCATCATAATT+TGG - chr8.1:31283572-31283591 None:intergenic 25.0%
! GGTAATAAAGCAAAGTATAT+AGG - chr8.1:31283426-31283445 None:intergenic 25.0%
! TGTGTAGGTTGTATAATTAT+GGG + chr8.1:31283522-31283541 MS.gene76473:intron 25.0%
! TTGTGTAGGTTGTATAATTA+TGG + chr8.1:31283521-31283540 MS.gene76473:intron 25.0%
AAAATGAGGTTGGAAGAAAT+GGG + chr8.1:31283758-31283777 MS.gene76473:CDS 30.0%
AATGATATATGGTTGTCCTT+GGG - chr8.1:31283623-31283642 None:intergenic 30.0%
AGGTTGTATAATTATGGGTT+TGG + chr8.1:31283527-31283546 MS.gene76473:intron 30.0%
CATTGAATTTGAAAGAGGAA+GGG - chr8.1:31283389-31283408 None:intergenic 30.0%
! ACTAGAAATTTAGAATGCAC+AGG - chr8.1:31283658-31283677 None:intergenic 30.0%
AAACAGTCTTCTTAAAGCTC+TGG - chr8.1:31283940-31283959 None:intergenic 35.0%
AAATGAGGTTGGAAGAAATG+GGG + chr8.1:31283759-31283778 MS.gene76473:CDS 35.0%
AGGTTCTATGAAGAAGTCTT+GGG + chr8.1:31283345-31283364 MS.gene76473:CDS 35.0%
AGTTCTATCATGTATCCATC+AGG - chr8.1:31283851-31283870 None:intergenic 35.0%
CAACACTGATCTGCATAATA+TGG - chr8.1:31283316-31283335 None:intergenic 35.0%
CAGAAGAAATGGGAACTATT+GGG - chr8.1:31283892-31283911 None:intergenic 35.0%
CATATTATGCAGATCAGTGT+TGG + chr8.1:31283314-31283333 MS.gene76473:CDS 35.0%
CCATTGAATTTGAAAGAGGA+AGG - chr8.1:31283390-31283409 None:intergenic 35.0%
CCTTCCTCTTTCAAATTCAA+TGG + chr8.1:31283387-31283406 MS.gene76473:CDS 35.0%
CTTTCAAATTCAATGGAGCA+TGG + chr8.1:31283394-31283413 MS.gene76473:CDS 35.0%
GAAAATGAGGTTGGAAGAAA+TGG + chr8.1:31283757-31283776 MS.gene76473:CDS 35.0%
GAATGATATATGGTTGTCCT+TGG - chr8.1:31283624-31283643 None:intergenic 35.0%
GAATGCACAGGTTAATTACT+TGG - chr8.1:31283646-31283665 None:intergenic 35.0%
GATGAAGTATGTTACAGCTT+TGG + chr8.1:31283781-31283800 MS.gene76473:CDS 35.0%
GTTCTATCATGTATCCATCA+GGG - chr8.1:31283850-31283869 None:intergenic 35.0%
TGCTCCATTGAATTTGAAAG+AGG - chr8.1:31283394-31283413 None:intergenic 35.0%
! TATGAAGAAGTCTTGGGTTT+TGG + chr8.1:31283351-31283370 MS.gene76473:CDS 35.0%
!! AAGACTGTTTCTAACAAGTG+TGG + chr8.1:31283950-31283969 MS.gene76473:CDS 35.0%
!! AGACTGTTTCTAACAAGTGT+GGG + chr8.1:31283951-31283970 MS.gene76473:CDS 35.0%
ACACATGATTCAGTGAGAGA+AGG - chr8.1:31283293-31283312 None:intergenic 40.0%
ACATGATTCAGTGAGAGAAG+GGG - chr8.1:31283291-31283310 None:intergenic 40.0%
ATGGTTGTCCTTGGGATTAA+TGG - chr8.1:31283615-31283634 None:intergenic 40.0%
CACATGATTCAGTGAGAGAA+GGG - chr8.1:31283292-31283311 None:intergenic 40.0%
GAGGTTCTATGAAGAAGTCT+TGG + chr8.1:31283344-31283363 MS.gene76473:CDS 40.0%
GCAGAAGAAATGGGAACTAT+TGG - chr8.1:31283893-31283912 None:intergenic 40.0%
TGGTTGTCCTTGGGATTAAT+GGG - chr8.1:31283614-31283633 None:intergenic 40.0%
TTCTAACAAGTGTGGGTTCA+TGG + chr8.1:31283958-31283977 MS.gene76473:CDS 40.0%
TTGTGCAGTGTACAGATGTT+GGG + chr8.1:31283729-31283748 MS.gene76473:intron 40.0%
TTTGTGCAGTGTACAGATGT+TGG + chr8.1:31283728-31283747 MS.gene76473:intron 40.0%
! GTATGTTACAGCTTTGGTAG+AGG + chr8.1:31283787-31283806 MS.gene76473:CDS 40.0%
!! ATGTTGGGCTAGTGAAAATG+AGG + chr8.1:31283744-31283763 MS.gene76473:CDS 40.0%
AGAGCAGGAAGCAGAAGAAA+TGG - chr8.1:31283903-31283922 None:intergenic 45.0%
AGAGGATGAAGGAATCAAGG+TGG + chr8.1:31283805-31283824 MS.gene76473:CDS 45.0%
ATCACGACCCATTAATCCCA+AGG + chr8.1:31283604-31283623 MS.gene76473:CDS 45.0%
ATGGGTCGTGATTCACTCAT+AGG - chr8.1:31283596-31283615 None:intergenic 45.0%
GAGCAGGAAGCAGAAGAAAT+GGG - chr8.1:31283902-31283921 None:intergenic 45.0%
GGTAGAGGATGAAGGAATCA+AGG + chr8.1:31283802-31283821 MS.gene76473:CDS 45.0%
TATGATGCGAAGCTTGAGCA+TGG + chr8.1:31283988-31284007 MS.gene76473:CDS 45.0%
TCATGTATCCATCAGGGTCA+TGG - chr8.1:31283844-31283863 None:intergenic 45.0%
TGGGTCGTGATTCACTCATA+GGG - chr8.1:31283595-31283614 None:intergenic 45.0%
TTCTGCTTCCTGCTCTTTCA+AGG + chr8.1:31283907-31283926 MS.gene76473:CDS 45.0%
! ACAGCTTTGGTAGAGGATGA+AGG + chr8.1:31283794-31283813 MS.gene76473:CDS 45.0%
! GATCAGTGTTGGACTCTATG+AGG + chr8.1:31283325-31283344 MS.gene76473:CDS 45.0%
!! TGGGCTAGTGAAAATGAGGT+TGG + chr8.1:31283748-31283767 MS.gene76473:CDS 45.0%
GGGTCGTGATTCACTCATAG+GGG - chr8.1:31283594-31283613 None:intergenic 50.0%
GTGTTCTTCCATGACCCTGA+TGG + chr8.1:31283833-31283852 MS.gene76473:CDS 50.0%
TGAAGGAATCAAGGTGGAGC+AGG + chr8.1:31283811-31283830 MS.gene76473:CDS 50.0%
TTCAGTGAGAGAAGGGGTAG+TGG - chr8.1:31283285-31283304 None:intergenic 50.0%
TCCTGCTCTTTCAAGGCACG+AGG + chr8.1:31283914-31283933 MS.gene76473:CDS 55.0%
GCCTCGTGCCTTGAAAGAGC+AGG - chr8.1:31283918-31283937 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 31283249 31284033 31283249 ID=MS.gene76473
chr8.1 mRNA 31283249 31284033 31283249 ID=MS.gene76473.t1;Parent=MS.gene76473
chr8.1 exon 31283249 31283415 31283249 ID=MS.gene76473.t1.exon1;Parent=MS.gene76473.t1
chr8.1 CDS 31283249 31283415 31283249 ID=cds.MS.gene76473.t1;Parent=MS.gene76473.t1
chr8.1 exon 31283529 31283646 31283529 ID=MS.gene76473.t1.exon2;Parent=MS.gene76473.t1
chr8.1 CDS 31283529 31283646 31283529 ID=cds.MS.gene76473.t1;Parent=MS.gene76473.t1
chr8.1 exon 31283737 31284033 31283737 ID=MS.gene76473.t1.exon3;Parent=MS.gene76473.t1
chr8.1 CDS 31283737 31284033 31283737 ID=cds.MS.gene76473.t1;Parent=MS.gene76473.t1
Gene Sequence

>MS.gene76473

ATGGGGATTGAGGAAATTGGCAGCTATGAAGCACCACTACCCCTTCTCTCACTGAATCATGTGTCCATATTATGCAGATCAGTGTTGGACTCTATGAGGTTCTATGAAGAAGTCTTGGGTTTTGGTCTCATCAAACGCCCTTCCTCTTTCAAATTCAATGGAGCATGGTTAGTTCCTATATACTTTGCTTTATTACCATTTTCTTTATGAAACTTTATATCCATTATTTTGGTTGAACAAATATTTAATGCGTTACCATTTTTTGTTTTGTTTTGTGTAGGTTGTATAATTATGGGTTTGGCATACACTTGCTTGAGAATCCAAATTATGATGAATTTGATGCCCCTATGAGTGAATCACGACCCATTAATCCCAAGGACAACCATATATCATTCCAAGTAATTAACCTGTGCATTCTAAATTTCTAGTCTAGTTTTAAATCTAGTAAAAAATAATTACTAAAAGTGTTTCAATTTGGCTTTGTGCAGTGTACAGATGTTGGGCTAGTGAAAATGAGGTTGGAAGAAATGGGGATGAAGTATGTTACAGCTTTGGTAGAGGATGAAGGAATCAAGGTGGAGCAGGTGTTCTTCCATGACCCTGATGGATACATGATAGAACTTTGCAACTGTGAGAATATCCCAATAGTTCCCATTTCTTCTGCTTCCTGCTCTTTCAAGGCACGAGGCCAGAGCTTTAAGAAGACTGTTTCTAACAAGTGTGGGTTCATGGAAAATGTTATGATGCGAAGCTTGAGCATGGACATGATGAACTTTGCGTTTTAA
Protein sequence

>MS.gene76473.t1

MGIEEIGSYEAPLPLLSLNHVSILCRSVLDSMRFYEEVLGFGLIKRPSSFKFNGAWLYNYGFGIHLLENPNYDEFDAPMSESRPINPKDNHISFQCTDVGLVKMRLEEMGMKYVTALVEDEGIKVEQVFFHDPDGYMIELCNCENIPIVPISSASCSFKARGQSFKKTVSNKCGFMENVMMRSLSMDMMNFAF