AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene41757


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41757.t1 MTR_7g086130 89.286 168 17 1 25 191 35 202 1.53e-87 256
MS.gene41757.t1 MTR_7g086130 85.475 179 24 2 15 191 29 207 4.55e-87 255
MS.gene41757.t1 MTR_6g478190 43.750 64 36 0 24 87 37 100 1.92e-13 65.5
MS.gene41757.t1 MTR_5g087450 41.270 63 37 0 25 87 38 100 7.58e-12 62.8
MS.gene41757.t1 MTR_5g087470 37.634 93 49 3 25 108 37 129 8.79e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41757.t1 AT1G54400 41.791 67 39 0 25 91 38 104 1.23e-11 60.8

Find 29 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATCTTCATTGCAATATTT+TGG 0.150093 7.4:+21480209 None:intergenic
TCTGGCATTTGTTCTTCTTC+TGG 0.224256 7.4:+21480110 None:intergenic
ACATATCAGAGTTTGGAATT+TGG 0.240193 7.4:-21480053 MS.gene41757:CDS
TACACAACAGACAACAAGTT+TGG 0.336570 7.4:-21479984 MS.gene41757:CDS
AGAGGTTGCTCTTAAATTCA+TGG 0.354880 7.4:-21479937 MS.gene41757:CDS
GTCCATTTGATGGAACTAAA+TGG 0.359566 7.4:-21480259 MS.gene41757:CDS
ATATCCTCATCTTCAAGTTC+TGG 0.365913 7.4:+21480092 None:intergenic
TTCCATTTAGTTCCATCAAA+TGG 0.385038 7.4:+21480257 None:intergenic
CGAATTCAAATCAACCATCT+TGG 0.396315 7.4:-21480305 MS.gene41757:CDS
TTGTTTACCTTTCCAAGTCT+TGG 0.397452 7.4:+21480785 None:intergenic
AGTGGAGAGCGTCCATTTGA+TGG 0.411520 7.4:-21480269 MS.gene41757:CDS
CCCTCGAGCTGGCCAAGACT+TGG 0.443777 7.4:-21480797 MS.gene41757:CDS
GGTTGTGATAATTGTTGTAA+TGG 0.450646 7.4:-21479916 MS.gene41757:CDS
TCTTCTTCTGGTTCCTCTTG+AGG 0.457813 7.4:+21480122 None:intergenic
CCAAGTCTTGGCCAGCTCGA+GGG 0.483198 7.4:+21480797 None:intergenic
GGTTATTGTAAATTATCTTG+TGG 0.496692 7.4:-21479895 MS.gene41757:CDS
TGCAATGAAGATGCCATTCG+TGG 0.501501 7.4:-21480200 MS.gene41757:CDS
TCCAAGTCTTGGCCAGCTCG+AGG 0.506208 7.4:+21480796 None:intergenic
TATCAGAGTTTGGAATTTGG+AGG 0.521412 7.4:-21480050 MS.gene41757:CDS
TTACTATATACCCCTCGAGC+TGG 0.530421 7.4:-21480808 MS.gene41757:CDS
CAAGTCTTGGCCAGCTCGAG+GGG 0.541674 7.4:+21480798 None:intergenic
TTGCATGAAATTGCCACGAA+TGG 0.562966 7.4:+21480187 None:intergenic
AGCAAAACCGTCATGGCTCA+AGG 0.573165 7.4:-21479867 MS.gene41757:CDS
AATGCCAGAACTTGAAGATG+AGG 0.591611 7.4:-21480096 MS.gene41757:CDS
GAGCTGGCCAAGACTTGGAA+AGG 0.596092 7.4:-21480792 MS.gene41757:intron
AGTTGATCTGATACCTCAAG+AGG 0.599832 7.4:-21480135 MS.gene41757:CDS
TGATTGACCTTGAGCCATGA+CGG 0.602155 7.4:+21479860 None:intergenic
GGATATGAGCAAAACCGTCA+TGG 0.621622 7.4:-21479874 MS.gene41757:CDS
TGATGTAGAAACTACTAGAG+AGG 0.643103 7.4:-21479955 MS.gene41757:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGAAATTGAATTAAACA+AGG + chr7.4:21480199-21480218 None:intergenic 15.0%
!! TCATGTATCTAAATTATATA+TGG - chr7.4:21480172-21480191 MS.gene41757:CDS 15.0%
!! TGATGATCAATAAATTTATT+AGG + chr7.4:21480010-21480029 None:intergenic 15.0%
!!! ACATTGTTTTTGTTAAATTT+AGG + chr7.4:21480276-21480295 None:intergenic 15.0%
!!! CATTGTTTTTGTTAAATTTA+GGG + chr7.4:21480275-21480294 None:intergenic 15.0%
!! CAAAGATTTGTGAAATAAAA+TGG - chr7.4:21480039-21480058 MS.gene41757:CDS 20.0%
!!! CAATAAATTTATTAGGTTGA+AGG + chr7.4:21480003-21480022 None:intergenic 20.0%
!!! CATTTTATTTCACAAATCTT+TGG + chr7.4:21480041-21480060 None:intergenic 20.0%
! GAAAAATACATATCAGAGTT+TGG - chr7.4:21480628-21480647 MS.gene41757:intron 25.0%
! GGTTATTGTAAATTATCTTG+TGG - chr7.4:21480793-21480812 MS.gene41757:CDS 25.0%
!!! ATTTTGATCCTGTTTTTAAG+TGG - chr7.4:21480095-21480114 MS.gene41757:CDS 25.0%
GGAATTAAACCTACTAATGA+AGG + chr7.4:21479982-21480001 None:intergenic 30.0%
GGTTGTGATAATTGTTGTAA+TGG - chr7.4:21480772-21480791 MS.gene41757:intron 30.0%
TTATCACCAAAAAACCAAGA+TGG + chr7.4:21480400-21480419 None:intergenic 30.0%
TTCAAATTTGCCTTAAGAGT+TGG + chr7.4:21479949-21479968 None:intergenic 30.0%
! ACATATCAGAGTTTGGAATT+TGG - chr7.4:21480635-21480654 MS.gene41757:intron 30.0%
! CTTTATTTGAGAGTTATGAG+GGG - chr7.4:21480322-21480341 MS.gene41757:CDS 30.0%
! GCATCTTCATTGCAATATTT+TGG + chr7.4:21480482-21480501 None:intergenic 30.0%
! TTCCATTTAGTTCCATCAAA+TGG + chr7.4:21480434-21480453 None:intergenic 30.0%
!! GCTTTATTTGAGAGTTATGA+GGG - chr7.4:21480321-21480340 MS.gene41757:CDS 30.0%
!!! AATCAACCATCTTGGTTTTT+TGG - chr7.4:21480391-21480410 MS.gene41757:intron 30.0%
!!! GGGGTTATTAATTTGTTTTC+AGG - chr7.4:21480341-21480360 MS.gene41757:intron 30.0%
!!! GGTATCAGATCAACTTTTTT+TGG + chr7.4:21480548-21480567 None:intergenic 30.0%
!!! TAGACTTTTTTCACAGACTA+GGG - chr7.4:21480299-21480318 MS.gene41757:CDS 30.0%
!!! TTAGACTTTTTTCACAGACT+AGG - chr7.4:21480298-21480317 MS.gene41757:CDS 30.0%
AAAGCAAACATGCACATAAC+CGG - chr7.4:21480062-21480081 MS.gene41757:CDS 35.0%
AAGACTTGGAAAGGTAAACA+AGG - chr7.4:21479905-21479924 MS.gene41757:CDS 35.0%
AGAGGTTGCTCTTAAATTCA+TGG - chr7.4:21480751-21480770 MS.gene41757:intron 35.0%
ATACATGAAATTCACATGCC+TGG + chr7.4:21480160-21480179 None:intergenic 35.0%
CGAATTCAAATCAACCATCT+TGG - chr7.4:21480383-21480402 MS.gene41757:intron 35.0%
GATCAAAATCCTCATAAGAC+CGG + chr7.4:21480084-21480103 None:intergenic 35.0%
GTCCATTTGATGGAACTAAA+TGG - chr7.4:21480429-21480448 MS.gene41757:intron 35.0%
TACACAACAGACAACAAGTT+TGG - chr7.4:21480704-21480723 MS.gene41757:intron 35.0%
TAGCTCATAACCAACTCTTA+AGG - chr7.4:21479936-21479955 MS.gene41757:CDS 35.0%
TGATGTAGAAACTACTAGAG+AGG - chr7.4:21480733-21480752 MS.gene41757:intron 35.0%
TTGTTTACCTTTCCAAGTCT+TGG + chr7.4:21479906-21479925 None:intergenic 35.0%
! ATATCCTCATCTTCAAGTTC+TGG + chr7.4:21480599-21480618 None:intergenic 35.0%
! TATCAGAGTTTGGAATTTGG+AGG - chr7.4:21480638-21480657 MS.gene41757:intron 35.0%
!! GGCTTTATTTGAGAGTTATG+AGG - chr7.4:21480320-21480339 MS.gene41757:CDS 35.0%
!!! CTTGGTTTTTTGGTGATAAG+TGG - chr7.4:21480401-21480420 MS.gene41757:intron 35.0%
AATGCCAGAACTTGAAGATG+AGG - chr7.4:21480592-21480611 MS.gene41757:intron 40.0%
AGTTGATCTGATACCTCAAG+AGG - chr7.4:21480553-21480572 MS.gene41757:intron 40.0%
TCTCTACGCCACTTAAAAAC+AGG + chr7.4:21480106-21480125 None:intergenic 40.0%
TCTGGCATTTGTTCTTCTTC+TGG + chr7.4:21480581-21480600 None:intergenic 40.0%
TTGCATGAAATTGCCACGAA+TGG + chr7.4:21480504-21480523 None:intergenic 40.0%
! AACCTACTAATGAAGGCACA+AGG + chr7.4:21479975-21479994 None:intergenic 40.0%
! ACCTACTAATGAAGGCACAA+GGG + chr7.4:21479974-21479993 None:intergenic 40.0%
ACCATTGAGCTTCATCTTCC+AGG - chr7.4:21480139-21480158 MS.gene41757:CDS 45.0%
GGATATGAGCAAAACCGTCA+TGG - chr7.4:21480814-21480833 MS.gene41757:CDS 45.0%
TGATTGACCTTGAGCCATGA+CGG + chr7.4:21480831-21480850 None:intergenic 45.0%
TGCAATGAAGATGCCATTCG+TGG - chr7.4:21480488-21480507 MS.gene41757:intron 45.0%
TTACTATATACCCCTCGAGC+TGG - chr7.4:21479880-21479899 MS.gene41757:CDS 45.0%
! GATGAAGCTCAATGGTGTCA+CGG + chr7.4:21480135-21480154 None:intergenic 45.0%
! TGCACATAACCGGTCTTATG+AGG - chr7.4:21480072-21480091 MS.gene41757:CDS 45.0%
!! TCTTCTTCTGGTTCCTCTTG+AGG + chr7.4:21480569-21480588 None:intergenic 45.0%
AGCAAAACCGTCATGGCTCA+AGG - chr7.4:21480821-21480840 MS.gene41757:CDS 50.0%
GCCCTTGTGCCTTCATTAGT+AGG - chr7.4:21479970-21479989 MS.gene41757:CDS 50.0%
GCCTGGAAGATGAAGCTCAA+TGG + chr7.4:21480143-21480162 None:intergenic 50.0%
!! AGTGGAGAGCGTCCATTTGA+TGG - chr7.4:21480419-21480438 MS.gene41757:intron 50.0%
GAGCTGGCCAAGACTTGGAA+AGG - chr7.4:21479896-21479915 MS.gene41757:CDS 55.0%
CAAGTCTTGGCCAGCTCGAG+GGG + chr7.4:21479893-21479912 None:intergenic 60.0%
CCAAGTCTTGGCCAGCTCGA+GGG + chr7.4:21479894-21479913 None:intergenic 60.0%
TCCAAGTCTTGGCCAGCTCG+AGG + chr7.4:21479895-21479914 None:intergenic 60.0%
CCCTCGAGCTGGCCAAGACT+TGG - chr7.4:21479891-21479910 MS.gene41757:CDS 65.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 21479845 21480865 21479845 ID=MS.gene41757
chr7.4 mRNA 21479845 21480865 21479845 ID=MS.gene41757.t1;Parent=MS.gene41757
chr7.4 exon 21480793 21480865 21480793 ID=MS.gene41757.t1.exon1;Parent=MS.gene41757.t1
chr7.4 CDS 21480793 21480865 21480793 ID=cds.MS.gene41757.t1;Parent=MS.gene41757.t1
chr7.4 exon 21479845 21480347 21479845 ID=MS.gene41757.t1.exon2;Parent=MS.gene41757.t1
chr7.4 CDS 21479845 21480347 21479845 ID=cds.MS.gene41757.t1;Parent=MS.gene41757.t1
Gene Sequence

>MS.gene41757

ATGACGGAAGAGTATTATTCAAACACAAATGCAAATTACTATATACCCCTCGAGCTGGCCAAGACTTGGAAAGGTAAACAAGGAATAATTCTAGCTCATAACCAACTCTTAAGGCAAATTTGAAAGCCCTTGTGCCTTCATTAGTAGGTTTAATTCCTTCAACCTAATAAATTTATTGATCATCAATCACACACCAAAGATTTGTGAAATAAAATGGAAAGCAAACATGCACATAACCGGTCTTATGAGGATTTTGATCCTGTTTTTAAGTGGCGTAGAGAACAAGACCGTGACACCATTGAGCTTCATCTTCCAGGCATGTGAATTTCATGTATCTAAATTATATATGGACCTTGTTTAATTCAATTTCATTTACTTTGTCATTTTGTGTATACTCGTGTTAACAAAATGATTTGTTTATTTTTGTCCCTAAATTTAACAAAAACAATGTGTTTAGACTTTTTTCACAGACTAGGGCTTTATTTGAGAGTTATGAGGGGTTATTAATTTGTTTTCAGGTTTTAAGAGAGAGCAAATACGAATTCAAATCAACCATCTTGGTTTTTTGGTGATAAGTGGAGAGCGTCCATTTGATGGAACTAAATGGAAACGTTTCAAGAAAGAATTTGAACTTCCAAAATATTGCAATGAAGATGCCATTCGTGGCAATTTCATGCAAAACATTCTTTCAGTAGTATTGCCAAAAAAAGTTGATCTGATACCTCAAGAGGAACCAGAAGAAGAACAAATGCCAGAACTTGAAGATGAGGATATATATCAAGAGAAAAATACATATCAGAGTTTGGAATTTGGAGGAAGAAATAGAGAAGCAGAGATTGAAAAACTATCAGAATATAATTACACAACAGACAACAAGTTTGGAGAAAATGATGTAGAAACTACTAGAGAGGTTGCTCTTAAATTCATGGTTGTGATAATTGTTGTAATGGTTATTGTAAATTATCTTGTGGATATGAGCAAAACCGTCATGGCTCAAGGTCAATCATATTTTCAAAATTAG

Protein sequence

>MS.gene41757.t1

MTEEYYSNTNANYYIPLELAKTWKGFKREQIRIQINHLGFLVISGERPFDGTKWKRFKKEFELPKYCNEDAIRGNFMQNILSVVLPKKVDLIPQEEPEEEQMPELEDEDIYQEKNTYQSLEFGGRNREAEIEKLSEYNYTTDNKFGENDVETTREVALKFMVVIIVVMVIVNYLVDMSKTVMAQGQSYFQN