AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058084


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058084.t1 MTR_5g096490 96.923 130 4 0 34 163 4 133 3.05e-88 254
MS.gene058084.t1 MTR_5g007240 86.755 151 18 2 14 163 17 166 6.93e-81 236
MS.gene058084.t1 MTR_5g096490 86.755 151 18 2 14 163 17 166 6.93e-81 236
MS.gene058084.t1 MTR_4g051390 42.975 121 67 1 44 162 1 121 4.38e-31 108
MS.gene058084.t1 MTR_1779s0020 42.975 121 67 1 44 162 1 121 6.70e-30 105
MS.gene058084.t1 MTR_2g087550 41.667 120 68 1 45 162 2 121 4.40e-28 103
MS.gene058084.t1 MTR_0002s0780 41.739 115 64 1 51 162 135 249 4.42e-24 94.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058084.t1 AT5G46160 78.030 132 22 1 39 163 41 172 6.31e-67 201
MS.gene058084.t1 AT5G46160 78.030 132 22 1 39 163 42 173 7.20e-67 201
MS.gene058084.t1 AT1G17560 60.131 153 32 3 39 162 43 195 4.06e-53 167
MS.gene058084.t1 AT1G17560 60.131 153 32 3 39 162 20 172 4.20e-53 166
MS.gene058084.t1 ATCG00780 44.628 121 65 1 44 162 1 121 1.40e-32 112

Find 41 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGAAGGTTGTGGACAATTC+TGG 0.240087 5.1:-1757920 MS.gene058084:CDS
GGACAATTCTGGAGCTAAAA+AGG 0.321429 5.1:-1757909 MS.gene058084:CDS
GACAAACAAGGGCAGCCTAT+TGG 0.362318 5.1:-1757686 MS.gene058084:CDS
ACAAACAAGGGCAGCCTATT+GGG 0.366691 5.1:-1757685 MS.gene058084:CDS
GTCAAGATCCTTACCTTAGC+TGG 0.374088 5.1:-1757614 MS.gene058084:CDS
GTGAAGGAAGCACATCCTAA+TGG 0.397241 5.1:-1757821 MS.gene058084:CDS
TGCCTCAACTCATGAGGAAC+TGG 0.420523 5.1:+1757647 None:intergenic
CCGAAAACTCTGGTCCCAAT+AGG 0.444490 5.1:+1757671 None:intergenic
CGCGCGTTGGCAGGGAAGAA+AGG 0.457182 5.1:-1757875 MS.gene058084:CDS
GGGAAGAAAGGAGCAAGATT+AGG 0.462937 5.1:-1757863 MS.gene058084:CDS
ATGTGCATACGCGCGTTGGC+AGG 0.463329 5.1:-1757884 MS.gene058084:CDS
CGTGTTTGACTTGTAAATAG+AGG 0.479650 5.1:+1758414 None:intergenic
TCCTAATGGAAAAGTGAAGA+AGG 0.493277 5.1:-1757807 MS.gene058084:CDS
CTGCCATCACACCTACCCTT+TGG 0.494271 5.1:+1757746 None:intergenic
TAGAGGGAGGGAGTGATTAG+TGG 0.520080 5.1:+1758431 None:intergenic
AACAGTCCTCATCTGTATGA+AGG 0.520727 5.1:+1757943 None:intergenic
ATGCCAAAGGGTAGGTGTGA+TGG 0.533908 5.1:-1757749 MS.gene058084:CDS
CAATATGCCCAGCTAAGGTA+AGG 0.539065 5.1:+1757606 None:intergenic
CATTGCTGCACGAACAACTA+CGG 0.550383 5.1:+1757769 None:intergenic
AGGAACTGGTCCGAAAACTC+TGG 0.550755 5.1:+1757661 None:intergenic
TCAAGATCCTTACCTTAGCT+GGG 0.562147 5.1:-1757613 MS.gene058084:CDS
CTATGCAATATGCCCAGCTA+AGG 0.565511 5.1:+1757601 None:intergenic
TGTTCGTGCAGCAATGCCAA+AGG 0.568662 5.1:-1757762 MS.gene058084:CDS
GTTAAAATGTCAACTTCCCC+AGG 0.577318 5.1:-1758699 MS.gene058084:intron
TGTGCATACGCGCGTTGGCA+GGG 0.580036 5.1:-1757883 MS.gene058084:CDS
GTGTTTGACTTGTAAATAGA+GGG 0.580442 5.1:+1758415 None:intergenic
GACCAGTTCCTCATGAGTTG+AGG 0.580661 5.1:-1757649 MS.gene058084:CDS
ACAGATGAGGACTGTTCTGA+AGG 0.580846 5.1:-1757936 MS.gene058084:CDS
TTGACTTGTAAATAGAGGGA+GGG 0.582627 5.1:+1758419 None:intergenic
GAGGACTGTTCTGAAGGTTG+TGG 0.589490 5.1:-1757930 MS.gene058084:CDS
GGTGATGTGCATACGCGCGT+TGG 0.592616 5.1:-1757888 MS.gene058084:CDS
GTTCGTGCAGCAATGCCAAA+GGG 0.599925 5.1:-1757761 MS.gene058084:CDS
CCTAATGGAAAAGTGAAGAA+GGG 0.626002 5.1:-1757806 MS.gene058084:CDS
TTCTTCTGCCTCAACTCATG+AGG 0.632900 5.1:+1757641 None:intergenic
TTTGACTTGTAAATAGAGGG+AGG 0.634315 5.1:+1758418 None:intergenic
GTGCAGCAATGCCAAAGGGT+AGG 0.641762 5.1:-1757757 MS.gene058084:CDS
GTTGTGCTTGTTGACAAACA+AGG 0.656177 5.1:-1757698 MS.gene058084:CDS
TATGATACAAGCATCAGTGA+AGG 0.662607 5.1:-1757837 MS.gene058084:CDS
AACGAACCTTCATACAGATG+AGG 0.663831 5.1:-1757949 MS.gene058084:CDS
TTGTGCTTGTTGACAAACAA+GGG 0.669343 5.1:-1757697 MS.gene058084:CDS
GGGTAGGTGTGATGGCAGTG+AGG 0.701393 5.1:-1757741 MS.gene058084:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGCATAAGAAAATAATGTTA+AGG + chr5.1:1758172-1758191 None:intergenic 20.0%
!! TAATATATGAAATTTCAGAG+TGG + chr5.1:1757830-1757849 None:intergenic 20.0%
!!! CAAGAATTTTTATGTTGATA+AGG - chr5.1:1757930-1757949 MS.gene058084:CDS 20.0%
!!! GTTTTAGTAAACTAACAATT+TGG + chr5.1:1757706-1757725 None:intergenic 20.0%
! GTAATAATGAAACTACAACA+TGG + chr5.1:1757728-1757747 None:intergenic 25.0%
! GTTGTAGTTTCATTATTACA+TGG - chr5.1:1757729-1757748 MS.gene058084:CDS 25.0%
!!! AAACATTGATTCTATCCTTT+TGG - chr5.1:1757671-1757690 MS.gene058084:CDS 25.0%
AAAACAGTTATTCTCTTACC+TGG + chr5.1:1757639-1757658 None:intergenic 30.0%
AAACAGTTATTCTCTTACCT+GGG + chr5.1:1757638-1757657 None:intergenic 30.0%
AAGATTACCAATACTGTGTT+TGG + chr5.1:1758197-1758216 None:intergenic 30.0%
TATGTGTAAGAAACTAAGCA+TGG + chr5.1:1758298-1758317 None:intergenic 30.0%
TGTTGAAAAACCAAACTAGT+GGG - chr5.1:1758010-1758029 MS.gene058084:intron 30.0%
! TATTTTTCTCAGGTACATGT+AGG - chr5.1:1758109-1758128 MS.gene058084:intron 30.0%
!! GTGTTTGACTTGTAAATAGA+GGG + chr5.1:1757905-1757924 None:intergenic 30.0%
!!! ACTGTTGTTTTCTACAATCT+AGG + chr5.1:1758223-1758242 None:intergenic 30.0%
!!! ATGCAACAGTTATTTTTCTC+AGG - chr5.1:1758099-1758118 MS.gene058084:intron 30.0%
!!! CATTTTAACTTCCGATGAAA+AGG + chr5.1:1757607-1757626 None:intergenic 30.0%
AACAGTTATTCTCTTACCTG+GGG + chr5.1:1757637-1757656 None:intergenic 35.0%
CCTAATGGAAAAGTGAAGAA+GGG - chr5.1:1758511-1758530 MS.gene058084:intron 35.0%
GTGTTGAAAAACCAAACTAG+TGG - chr5.1:1758009-1758028 MS.gene058084:intron 35.0%
TATGATACAAGCATCAGTGA+AGG - chr5.1:1758480-1758499 MS.gene058084:intron 35.0%
TCCTAATGGAAAAGTGAAGA+AGG - chr5.1:1758510-1758529 MS.gene058084:intron 35.0%
! AGACATTGTTTTCTTCAGGA+AGG + chr5.1:1758332-1758351 None:intergenic 35.0%
! AGGAAGACATTGTTTTCTTC+AGG + chr5.1:1758336-1758355 None:intergenic 35.0%
! TTGCCAATGCTCATGTTTTA+GGG + chr5.1:1757765-1757784 None:intergenic 35.0%
! TTGTGCTTGTTGACAAACAA+GGG - chr5.1:1758620-1758639 MS.gene058084:intron 35.0%
! TTTGCCAATGCTCATGTTTT+AGG + chr5.1:1757766-1757785 None:intergenic 35.0%
!! CGTGTTTGACTTGTAAATAG+AGG + chr5.1:1757906-1757925 None:intergenic 35.0%
!! TTGACTTGTAAATAGAGGGA+GGG + chr5.1:1757901-1757920 None:intergenic 35.0%
!! TTTGACTTGTAAATAGAGGG+AGG + chr5.1:1757902-1757921 None:intergenic 35.0%
!!! CATTGATTCTATCCTTTTGG+TGG - chr5.1:1757674-1757693 MS.gene058084:CDS 35.0%
AACAGTCCTCATCTGTATGA+AGG + chr5.1:1758377-1758396 None:intergenic 40.0%
AACGAACCTTCATACAGATG+AGG - chr5.1:1758368-1758387 MS.gene058084:intron 40.0%
ACATGTATCTTTGCACTGCA+TGG + chr5.1:1758253-1758272 None:intergenic 40.0%
AGAGTGGTTGCAAAATGTAG+TGG + chr5.1:1757814-1757833 None:intergenic 40.0%
ATGCTTGCCAAACACAGTAT+TGG - chr5.1:1758187-1758206 MS.gene058084:intron 40.0%
ATTTGGACATCACCACCAAA+AGG + chr5.1:1757689-1757708 None:intergenic 40.0%
GTTAAAATGTCAACTTCCCC+AGG - chr5.1:1757618-1757637 MS.gene058084:CDS 40.0%
TACATGTAGGAATCAGTTGC+AGG - chr5.1:1758122-1758141 MS.gene058084:intron 40.0%
TCAAGATCCTTACCTTAGCT+GGG - chr5.1:1758704-1758723 MS.gene058084:CDS 40.0%
TTAATCCACCGAACAGAGAA+CGG + chr5.1:1758036-1758055 None:intergenic 40.0%
! GTTGTGCTTGTTGACAAACA+AGG - chr5.1:1758619-1758638 MS.gene058084:intron 40.0%
!! CCCTTCTTCACTTTTCCATT+AGG + chr5.1:1758514-1758533 None:intergenic 40.0%
!! GGACAATTCTGGAGCTAAAA+AGG - chr5.1:1758408-1758427 MS.gene058084:CDS 40.0%
ACAAACAAGGGCAGCCTATT+GGG - chr5.1:1758632-1758651 MS.gene058084:intron 45.0%
ACAGATGAGGACTGTTCTGA+AGG - chr5.1:1758381-1758400 MS.gene058084:intron 45.0%
CAATATGCCCAGCTAAGGTA+AGG + chr5.1:1758714-1758733 None:intergenic 45.0%
CATTGCTGCACGAACAACTA+CGG + chr5.1:1758551-1758570 None:intergenic 45.0%
CTATGCAATATGCCCAGCTA+AGG + chr5.1:1758719-1758738 None:intergenic 45.0%
CTGAAGGTTGTGGACAATTC+TGG - chr5.1:1758397-1758416 MS.gene058084:CDS 45.0%
GCTCCCTAAAACATGAGCAT+TGG - chr5.1:1757759-1757778 MS.gene058084:CDS 45.0%
GGGAAGAAAGGAGCAAGATT+AGG - chr5.1:1758454-1758473 MS.gene058084:intron 45.0%
GGTTCGTTGTTGCTGCAAAA+AGG + chr5.1:1758356-1758375 None:intergenic 45.0%
GTCAAGATCCTTACCTTAGC+TGG - chr5.1:1758703-1758722 MS.gene058084:CDS 45.0%
GTGACGTGGTAAATAGACCA+GGG + chr5.1:1758069-1758088 None:intergenic 45.0%
TGACGTGGTAAATAGACCAG+GGG + chr5.1:1758068-1758087 None:intergenic 45.0%
TGTGACGTGGTAAATAGACC+AGG + chr5.1:1758070-1758089 None:intergenic 45.0%
TTAGTGGCACAAGTGCAAAC+TGG + chr5.1:1757873-1757892 None:intergenic 45.0%
TTCTTCTGCCTCAACTCATG+AGG + chr5.1:1758679-1758698 None:intergenic 45.0%
! CCTATTGGGACCAGAGTTTT+CGG - chr5.1:1758646-1758665 MS.gene058084:intron 45.0%
! GTGAAGGAAGCACATCCTAA+TGG - chr5.1:1758496-1758515 MS.gene058084:intron 45.0%
!! TAATAAAAATATTTATTAAG+TGG + chr5.1:1757967-1757986 None:intergenic 5.0%
AGGAACTGGTCCGAAAACTC+TGG + chr5.1:1758659-1758678 None:intergenic 50.0%
ATGCCAAAGGGTAGGTGTGA+TGG - chr5.1:1758568-1758587 MS.gene058084:intron 50.0%
CCGAAAACTCTGGTCCCAAT+AGG + chr5.1:1758649-1758668 None:intergenic 50.0%
GACAAACAAGGGCAGCCTAT+TGG - chr5.1:1758631-1758650 MS.gene058084:intron 50.0%
GACCAGTTCCTCATGAGTTG+AGG - chr5.1:1758668-1758687 MS.gene058084:intron 50.0%
GCATGTCATCTCATGTGACG+TGG + chr5.1:1758083-1758102 None:intergenic 50.0%
GGATTAAGCAACAGTTCCCC+TGG - chr5.1:1758049-1758068 MS.gene058084:intron 50.0%
GTTCGTGCAGCAATGCCAAA+GGG - chr5.1:1758556-1758575 MS.gene058084:intron 50.0%
TAGAGGGAGGGAGTGATTAG+TGG + chr5.1:1757889-1757908 None:intergenic 50.0%
TGCCTCAACTCATGAGGAAC+TGG + chr5.1:1758673-1758692 None:intergenic 50.0%
TGTTCGTGCAGCAATGCCAA+AGG - chr5.1:1758555-1758574 MS.gene058084:intron 50.0%
!! GAGGACTGTTCTGAAGGTTG+TGG - chr5.1:1758387-1758406 MS.gene058084:intron 50.0%
CAGAGAACGGCCCACTAGTT+TGG + chr5.1:1758023-1758042 None:intergenic 55.0%
CTGCCATCACACCTACCCTT+TGG + chr5.1:1758574-1758593 None:intergenic 55.0%
GTGCAGCAATGCCAAAGGGT+AGG - chr5.1:1758560-1758579 MS.gene058084:intron 55.0%
! CTAGTGGGCCGTTCTCTGTT+CGG - chr5.1:1758025-1758044 MS.gene058084:intron 55.0%
GGGTAGGTGTGATGGCAGTG+AGG - chr5.1:1758576-1758595 MS.gene058084:intron 60.0%
GGTGATGTGCATACGCGCGT+TGG - chr5.1:1758429-1758448 MS.gene058084:CDS 60.0%
! ATGTGCATACGCGCGTTGGC+AGG - chr5.1:1758433-1758452 MS.gene058084:CDS 60.0%
! TGTGCATACGCGCGTTGGCA+GGG - chr5.1:1758434-1758453 MS.gene058084:CDS 60.0%
GTGGGCCGTTCTCTGTTCGG+TGG - chr5.1:1758028-1758047 MS.gene058084:intron 65.0%
! CGCGCGTTGGCAGGGAAGAA+AGG - chr5.1:1758442-1758461 MS.gene058084:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 1757601 1758738 1757601 ID=MS.gene058084
chr5.1 mRNA 1757601 1758738 1757601 ID=MS.gene058084.t1;Parent=MS.gene058084
chr5.1 exon 1758700 1758738 1758700 ID=MS.gene058084.t1.exon1;Parent=MS.gene058084.t1
chr5.1 CDS 1758700 1758738 1758700 ID=cds.MS.gene058084.t1;Parent=MS.gene058084.t1
chr5.1 exon 1758388 1758465 1758388 ID=MS.gene058084.t1.exon2;Parent=MS.gene058084.t1
chr5.1 CDS 1758388 1758465 1758388 ID=cds.MS.gene058084.t1;Parent=MS.gene058084.t1
chr5.1 exon 1757601 1757975 1757601 ID=MS.gene058084.t1.exon3;Parent=MS.gene058084.t1
chr5.1 CDS 1757601 1757975 1757601 ID=cds.MS.gene058084.t1;Parent=MS.gene058084.t1
Gene Sequence

>MS.gene058084

ATGCCTTTTCATCGGAAGTTAAAATGTCAACTTCCCCAGGTAAGAGAATAACTGTTTTCTATGTCTTGCAAAACATTGATTCTATCCTTTTGGTGGTGATGTCCAAATTGTTAGTTTACTAAAACCATGTTGTAGTTTCATTATTACATGGTCATTTTGCTCCCTAAAACATGAGCATTGGCAAACTGTTGCTTTTGCAGTAAATTGAAACCACTACATTTTGCAACCACTCTGAAATTTCATATATTAAGCTGCATGACTCTATCTTGCCAGTTTGCACTTGTGCCACTAATCACTCCCTCCCTCTATTTACAAGTCAAACACGAGCTCAAGAATTTTTATGTTGATAAGGTGATACTTTATCCACTTAATAAATATTTTTATTAACTTGTTAGTTTTTTGTTTCATGTGTTGAAAAACCAAACTAGTGGGCCGTTCTCTGTTCGGTGGATTAAGCAACAGTTCCCCTGGTCTATTTACCACGTCACATGAGATGACATGCAACAGTTATTTTTCTCAGGTACATGTAGGAATCAGTTGCAGGATCATGTTTCAATTATTATAATTTCCTTAACATTATTTTCTTATGCTTGCCAAACACAGTATTGGTAATCTTAAACCTAGATTGTAGAAAACAACAGTAATTTTTCCATGCAGTGCAAAGATACATGTGTTCTTAAAATGAGTCACAAATCCATGCTTAGTTTCTTACACATATTGTTATGATTCCTTCCTGAAGAAAACAATGTCTTCCTTTTTGCAGCAACAACGAACCTTCATACAGATGAGGACTGTTCTGAAGGTTGTGGACAATTCTGGAGCTAAAAAGGTGATGTGCATACGCGCGTTGGCAGGGAAGAAAGGAGCAAGATTAGGTGATATGATACAAGCATCAGTGAAGGAAGCACATCCTAATGGAAAAGTGAAGAAGGGAGCTGTTGTATTTGCCGTAGTTGTTCGTGCAGCAATGCCAAAGGGTAGGTGTGATGGCAGTGAGGTCAAGTTTGACGACAATGCTGTTGTGCTTGTTGACAAACAAGGGCAGCCTATTGGGACCAGAGTTTTCGGACCAGTTCCTCATGAGTTGAGGCAGAAGAAGCATGTCAAGATCCTTACCTTAGCTGGGCATATTGCATAG

Protein sequence

>MS.gene058084.t1

MPFHRKLKCQLPQFALVPLITPSLYLQVKHELKNFYVDKQQRTFIQMRTVLKVVDNSGAKKVMCIRALAGKKGARLGDMIQASVKEAHPNGKVKKGAVVFAVVVRAAMPKGRCDGSEVKFDDNAVVLVDKQGQPIGTRVFGPVPHELRQKKHVKILTLAGHIA