AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene93299

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93299.t1 MTR_1g052185 83.628 226 37 0 1 226 32 257 8.87e-126 357
MS.gene93299.t1 MTR_4g073310 62.791 86 22 2 1 85 32 108 9.84e-27 103
MS.gene93299.t1 MTR_1g046810 37.900 219 85 9 1 169 40 257 3.40e-26 103
MS.gene93299.t1 MTR_1g053530 30.539 167 89 6 9 155 27 186 2.32e-12 65.1
MS.gene93299.t1 MTR_1g085590 36.667 120 56 5 48 154 70 182 2.81e-11 62.4
MS.gene93299.t1 MTR_5g098470 36.842 114 67 3 1 113 63 172 4.10e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93299.t1 AT2G37430 33.613 119 71 4 2 120 47 157 1.10e-11 62.0
MS.gene93299.t1 AT5G43170 42.308 78 39 1 2 79 75 146 1.58e-11 62.0
MS.gene93299.t1 AT5G67450 39.560 91 35 3 2 73 97 186 7.44e-11 60.8

Find 38 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCTCTTGCTACCTTTAT+TGG 0.117903 1.3:-33761063 None:intergenic
ACACAAACATGCTGTTAATA+AGG 0.281600 1.3:+33760863 MS.gene93299:CDS
GAAACTTTCCTGCGGTGATA+TGG 0.327630 1.3:+33761160 MS.gene93299:CDS
TTATTGGTCTGATGAGATAT+TGG 0.370387 1.3:-33761047 None:intergenic
ATATCTCATCAGACCAATAA+AGG 0.385178 1.3:+33761050 MS.gene93299:CDS
TGCTAACTGCGAGTCATGTT+AGG 0.385892 1.3:+33761213 MS.gene93299:CDS
CTTCTCTTCAATGTCAATAG+AGG 0.428268 1.3:-33761366 None:intergenic
GTGGCCACCGAGTGCGGCTC+CGG 0.454483 1.3:-33760799 None:intergenic
GGTATTATTATCCTTTACCT+TGG 0.495202 1.3:-33761345 None:intergenic
ATAATCATGGTGAGAGGAAG+AGG 0.500570 1.3:+33761135 MS.gene93299:CDS
GAGAAGAAGATCAATAATGA+AGG 0.510676 1.3:+33761383 MS.gene93299:CDS
ATGAGATGTCACAAAAGAGA+TGG 0.516344 1.3:+33760969 MS.gene93299:CDS
GCTAACTGCGAGTCATGTTA+GGG 0.531070 1.3:+33761214 MS.gene93299:CDS
TTCAACTCCGGAGCCGCACT+CGG 0.534161 1.3:+33760792 MS.gene93299:CDS
AAGTCAATTGACGATGAAGT+TGG 0.540982 1.3:-33761008 None:intergenic
GTATCTCATGATAATAATCA+TGG 0.542280 1.3:+33761122 MS.gene93299:CDS
GTGTCCACACAAAGCCTGCT+TGG 0.550186 1.3:-33760946 None:intergenic
AGTGTGATTTGTGCGGCAAA+AGG 0.561321 1.3:+33760769 MS.gene93299:CDS
CTCATTAACCATATCACCGC+AGG 0.561714 1.3:-33761168 None:intergenic
TAGGGTTAATGATGAAATAG+TGG 0.562125 1.3:+33761232 MS.gene93299:CDS
ATCACGAGAGACCAAGGTAA+AGG 0.568045 1.3:+33761334 MS.gene93299:CDS
TGAGATGTCACAAAAGAGAT+GGG 0.575280 1.3:+33760970 MS.gene93299:CDS
TCATCCAAGCAGGCTTTGTG+TGG 0.579070 1.3:+33760942 MS.gene93299:CDS
TCAATTGACGATGAAGTTGG+AGG 0.580649 1.3:-33761005 None:intergenic
CGGTGATATGGTTAATGAGA+CGG 0.580945 1.3:+33761172 MS.gene93299:CDS
TGAGATACTTGTATGAGTGT+TGG 0.587106 1.3:-33761107 None:intergenic
AACTCCGGAGCCGCACTCGG+TGG 0.593152 1.3:+33760795 MS.gene93299:CDS
TGCGGCAAAAGGTTCAACTC+CGG 0.598335 1.3:+33760780 MS.gene93299:CDS
CAATTGACGATGAAGTTGGA+GGG 0.619880 1.3:-33761004 None:intergenic
AGACCAATAAAGGTAGCAAG+AGG 0.628089 1.3:+33761060 MS.gene93299:CDS
TATGGTTAATGAGACGGTCA+AGG 0.630287 1.3:+33761178 MS.gene93299:CDS
ATGATAATAATCATGGTGAG+AGG 0.635487 1.3:+33761129 MS.gene93299:CDS
TGATGAATCACGAGAGACCA+AGG 0.650584 1.3:+33761328 MS.gene93299:CDS
TTGTTGTGATGTTTGCAACA+AGG 0.651265 1.3:+33760914 MS.gene93299:CDS
ATCATGGTGAGAGGAAGAGG+CGG 0.703073 1.3:+33761138 MS.gene93299:CDS
AAGAGGCGGAAACTTTCCTG+CGG 0.719801 1.3:+33761152 MS.gene93299:CDS
ATGTATGAGTGTGATTTGTG+CGG 0.720837 1.3:+33760762 MS.gene93299:CDS
ATCAAAGTGAAAGATGACAG+CGG 0.730896 1.3:+33761257 MS.gene93299:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAGAAAATGAAAGACTAAT+TGG - chr1.3:33761500-33761519 None:intergenic 20.0%
!!! ACTCATTGTTGTATTTTATT+AGG + chr1.3:33761538-33761557 MS.gene93299:intron 20.0%
!!! AGTCTTTCATTTTCTTATTT+AGG + chr1.3:33761503-33761522 MS.gene93299:intron 20.0%
!!! CTCATTGTTGTATTTTATTA+GGG + chr1.3:33761539-33761558 MS.gene93299:intron 20.0%
! GTATCTCATGATAATAATCA+TGG + chr1.3:33761122-33761141 MS.gene93299:CDS 25.0%
!!! TGTTTTTGTTTCTTGTTTTG+AGG - chr1.3:33760846-33760865 None:intergenic 25.0%
ACACAAACATGCTGTTAATA+AGG + chr1.3:33760863-33760882 MS.gene93299:CDS 30.0%
ATATCTCATCAGACCAATAA+AGG + chr1.3:33761050-33761069 MS.gene93299:CDS 30.0%
ATGATAATAATCATGGTGAG+AGG + chr1.3:33761129-33761148 MS.gene93299:CDS 30.0%
GAGAAGAAGATCAATAATGA+AGG + chr1.3:33761383-33761402 MS.gene93299:CDS 30.0%
GGTATTATTATCCTTTACCT+TGG - chr1.3:33761348-33761367 None:intergenic 30.0%
TAGGGTTAATGATGAAATAG+TGG + chr1.3:33761232-33761251 MS.gene93299:CDS 30.0%
! TTATTGGTCTGATGAGATAT+TGG - chr1.3:33761050-33761069 None:intergenic 30.0%
AAGTCAATTGACGATGAAGT+TGG - chr1.3:33761011-33761030 None:intergenic 35.0%
ATCAAAGTGAAAGATGACAG+CGG + chr1.3:33761257-33761276 MS.gene93299:CDS 35.0%
ATGAGATGTCACAAAAGAGA+TGG + chr1.3:33760969-33760988 MS.gene93299:CDS 35.0%
ATTCCTCTTGCTACCTTTAT+TGG - chr1.3:33761066-33761085 None:intergenic 35.0%
CTTCTCTTCAATGTCAATAG+AGG - chr1.3:33761369-33761388 None:intergenic 35.0%
TGAGATACTTGTATGAGTGT+TGG - chr1.3:33761110-33761129 None:intergenic 35.0%
TGAGATGTCACAAAAGAGAT+GGG + chr1.3:33760970-33760989 MS.gene93299:CDS 35.0%
TTGTTGTGATGTTTGCAACA+AGG + chr1.3:33760914-33760933 MS.gene93299:CDS 35.0%
! ATGTATGAGTGTGATTTGTG+CGG + chr1.3:33760762-33760781 MS.gene93299:CDS 35.0%
!! GAGCTTTTGAAGAATCAAAG+CGG + chr1.3:33761589-33761608 MS.gene93299:CDS 35.0%
AGACCAATAAAGGTAGCAAG+AGG + chr1.3:33761060-33761079 MS.gene93299:CDS 40.0%
ATAATCATGGTGAGAGGAAG+AGG + chr1.3:33761135-33761154 MS.gene93299:CDS 40.0%
CAATTGACGATGAAGTTGGA+GGG - chr1.3:33761007-33761026 None:intergenic 40.0%
CGGTGATATGGTTAATGAGA+CGG + chr1.3:33761172-33761191 MS.gene93299:CDS 40.0%
TATGGTTAATGAGACGGTCA+AGG + chr1.3:33761178-33761197 MS.gene93299:CDS 40.0%
TCAATTGACGATGAAGTTGG+AGG - chr1.3:33761008-33761027 None:intergenic 40.0%
TCATCTGCAACATCTTCCAT+CGG - chr1.3:33761471-33761490 None:intergenic 40.0%
!!! CAAGGTTTTTTCATCCAAGC+AGG + chr1.3:33760932-33760951 MS.gene93299:CDS 40.0%
!!! TCTTGTTTTGAGGTTGTGAG+CGG - chr1.3:33760836-33760855 None:intergenic 40.0%
ATCACGAGAGACCAAGGTAA+AGG + chr1.3:33761334-33761353 MS.gene93299:CDS 45.0%
CTCATTAACCATATCACCGC+AGG - chr1.3:33761171-33761190 None:intergenic 45.0%
GAAACTTTCCTGCGGTGATA+TGG + chr1.3:33761160-33761179 MS.gene93299:CDS 45.0%
GCTAACTGCGAGTCATGTTA+GGG + chr1.3:33761214-33761233 MS.gene93299:CDS 45.0%
TGATGAATCACGAGAGACCA+AGG + chr1.3:33761328-33761347 MS.gene93299:CDS 45.0%
TGATTTGAATGAGCGTCCGA+TGG + chr1.3:33761452-33761471 MS.gene93299:intron 45.0%
TGCTAACTGCGAGTCATGTT+AGG + chr1.3:33761213-33761232 MS.gene93299:CDS 45.0%
! AGTGTGATTTGTGCGGCAAA+AGG + chr1.3:33760769-33760788 MS.gene93299:CDS 45.0%
AAGAGGCGGAAACTTTCCTG+CGG + chr1.3:33761152-33761171 MS.gene93299:CDS 50.0%
ATCATGGTGAGAGGAAGAGG+CGG + chr1.3:33761138-33761157 MS.gene93299:CDS 50.0%
TGCGGCAAAAGGTTCAACTC+CGG + chr1.3:33760780-33760799 MS.gene93299:CDS 50.0%
! GTGAGCGGTGAGATGTTTTG+TGG - chr1.3:33760821-33760840 None:intergenic 50.0%
! TCATCCAAGCAGGCTTTGTG+TGG + chr1.3:33760942-33760961 MS.gene93299:CDS 50.0%
GTGTCCACACAAAGCCTGCT+TGG - chr1.3:33760949-33760968 None:intergenic 55.0%
! TGTTTTGTGGCCACCGAGTG+CGG - chr1.3:33760808-33760827 None:intergenic 55.0%
TTCAACTCCGGAGCCGCACT+CGG + chr1.3:33760792-33760811 MS.gene93299:CDS 60.0%
AACTCCGGAGCCGCACTCGG+TGG + chr1.3:33760795-33760814 MS.gene93299:CDS 70.0%
GTGGCCACCGAGTGCGGCTC+CGG - chr1.3:33760802-33760821 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 33760762 33761624 33760762 ID=MS.gene93299
chr1.3 mRNA 33760762 33761624 33760762 ID=MS.gene93299.t1;Parent=MS.gene93299
chr1.3 exon 33760762 33761404 33760762 ID=MS.gene93299.t1.exon1;Parent=MS.gene93299.t1
chr1.3 CDS 33760762 33761404 33760762 ID=cds.MS.gene93299.t1;Parent=MS.gene93299.t1
chr1.3 exon 33761560 33761624 33761560 ID=MS.gene93299.t1.exon2;Parent=MS.gene93299.t1
chr1.3 CDS 33761560 33761624 33761560 ID=cds.MS.gene93299.t1;Parent=MS.gene93299.t1
Gene Sequence

>MS.gene93299

ATGTATGAGTGTGATTTGTGCGGCAAAAGGTTCAACTCCGGAGCCGCACTCGGTGGCCACAAAACATCTCACCGCTCACAACCTCAAAACAAGAAACAAAAACACAAACATGCTGTTAATAAGGATGATAAAGATGATGAGAAACAGAAACATTGTTGTGATGTTTGCAACAAGGTTTTTTCATCCAAGCAGGCTTTGTGTGGACACATGAGATGTCACAAAAGAGATGGGAAGAGTATTCACCCTCCAACTTCATCGTCAATTGACTTATCAAAATATATGCTACCAATATCTCATCAGACCAATAAAGGTAGCAAGAGGAATATCATTGATGACGATGTTGCTCCAACACTCATACAAGTATCTCATGATAATAATCATGGTGAGAGGAAGAGGCGGAAACTTTCCTGCGGTGATATGGTTAATGAGACGGTCAAGGAACAAACTGTGATGCTAACTGCGAGTCATGTTAGGGTTAATGATGAAATAGTGGTGATCAAAGTGAAAGATGACAGCGGAAATAAAAGACTCAAACTTTCAAGCAATTCTGAAGATATTGTTGACATTGATGAATCACGAGAGACCAAGGTAAAGGATAATAATACCTCTATTGACATTGAAGAGAAGAAGATCAATAATGAAGGTGAAACTTCATAATGAATTGAAGTCAAATAGAGTTGTTATGAATTTTGATTTGAATGAGCGTCCGATGGAAGATGTTGCAGATGAGTGAAACCAATTAGTCTTTCATTTTCTTATTTAGGTGATTAATTTGAACTCATTGTTGTATTTTATTAGGGTCTGTTCAAAGAACTAGAAAGAAACAAGAGCTTTTGAAGAATCAAAGCGGAATGAAATCATGA
Protein sequence

>MS.gene93299.t1

MYECDLCGKRFNSGAALGGHKTSHRSQPQNKKQKHKHAVNKDDKDDEKQKHCCDVCNKVFSSKQALCGHMRCHKRDGKSIHPPTSSSIDLSKYMLPISHQTNKGSKRNIIDDDVAPTLIQVSHDNNHGERKRRKLSCGDMVNETVKEQTVMLTASHVRVNDEIVVIKVKDDSGNKRLKLSSNSEDIVDIDESRETKVKDNNTSIDIEEKKINNEGSVQRTRKKQELLKNQSGMKS