AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88807

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88807.t1 MTR_1g077210 100.000 120 0 0 1 120 57 176 9.95e-82 239
MS.gene88807.t1 MTR_0054s0080 78.333 120 24 1 1 120 57 174 1.68e-63 193
MS.gene88807.t1 MTR_3g109280 79.167 120 23 1 1 120 57 174 5.07e-63 191
MS.gene88807.t1 MTR_1g009030 86.735 98 13 0 1 98 57 154 2.67e-56 174
MS.gene88807.t1 MTR_6g066040 62.500 120 43 1 1 120 57 174 5.72e-48 153
MS.gene88807.t1 MTR_6g066090 59.223 103 40 1 18 120 1 101 2.96e-37 124
MS.gene88807.t1 MTR_5g068640 35.537 121 73 2 1 117 55 174 2.39e-18 77.8
MS.gene88807.t1 MTR_8g106520 35.965 114 66 2 4 117 2 108 6.59e-13 62.0
MS.gene88807.t1 MTR_8g106520 35.897 117 68 2 1 117 55 164 9.58e-13 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88807.t1 AT5G10580 69.841 126 32 1 1 120 57 182 8.59e-57 174
MS.gene88807.t1 AT5G10580 69.841 126 32 1 1 120 57 182 7.28e-56 174
MS.gene88807.t1 AT5G10580 69.841 126 32 1 1 120 57 182 8.79e-56 174
MS.gene88807.t1 AT5G10580 69.841 126 32 1 1 120 57 182 8.79e-56 174
MS.gene88807.t1 AT4G31330 70.161 124 33 2 1 120 57 180 5.97e-54 169
MS.gene88807.t1 AT5G24790 60.163 123 46 1 1 120 57 179 2.76e-38 129
MS.gene88807.t1 AT5G24600 38.542 96 57 1 1 96 55 148 1.89e-13 64.7
MS.gene88807.t1 AT5G24600 38.542 96 57 1 1 96 55 148 2.70e-13 64.3
MS.gene88807.t1 AT3G18215 40.860 93 55 0 4 96 59 151 5.11e-13 63.5

Find 21 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCTCAATGATTCCATTTA+TGG 0.062471 1.3:+55457590 MS.gene88807:CDS
TGAATATTTGTCTGAGCTTT+TGG 0.189699 1.3:+55457772 MS.gene88807:CDS
TGGAGCTCATAGTGAATTTA+TGG 0.212693 1.3:+55457610 MS.gene88807:CDS
AACCCTACGTAATCTAATAA+TGG 0.254699 1.3:+55457484 MS.gene88807:CDS
TTCACTATGAGCTCCATAAA+TGG 0.279592 1.3:-55457603 None:intergenic
CATCTTGTGGTGTGCAAATA+AGG 0.279736 1.3:-55457724 None:intergenic
TCTGTCACACATTGTCCATT+AGG 0.321977 1.3:+55457681 MS.gene88807:CDS
AATAATGGGATCAACACTTA+TGG 0.371912 1.3:+55457499 MS.gene88807:CDS
CATTCTACTCTCAGCTGGTT+TGG 0.383869 1.3:+55457532 MS.gene88807:CDS
ACCCTACGTAATCTAATAAT+GGG 0.403558 1.3:+55457485 MS.gene88807:CDS
AAAAGCTCAGACAAATATTC+AGG 0.422507 1.3:-55457770 None:intergenic
ATGAGAATAAGAATATAGTT+AGG 0.446792 1.3:-55457655 None:intergenic
TGCAAATAAGGATGCTCACT+TGG 0.496404 1.3:-55457712 None:intergenic
TCCCATTATTAGATTACGTA+GGG 0.517944 1.3:-55457486 None:intergenic
ACATCCATTCTACTCTCAGC+TGG 0.523277 1.3:+55457527 MS.gene88807:CDS
CAAACCAGCTGAGAGTAGAA+TGG 0.570136 1.3:-55457531 None:intergenic
GCATAGGACAAGACATCTTG+TGG 0.640111 1.3:-55457737 None:intergenic
CCATAAATGGAATCATTGAG+AGG 0.651845 1.3:-55457590 None:intergenic
TACGTAGGGTTTGAACAGCT+AGG 0.661798 1.3:-55457472 None:intergenic
ATCCCATTATTAGATTACGT+AGG 0.669460 1.3:-55457487 None:intergenic
TTCAGGTGTGATGACAGCAT+AGG 0.682375 1.3:-55457753 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGAGAATAAGAATATAGTT+AGG - chr1.3:55457658-55457677 None:intergenic 20.0%
AAAAGCTCAGACAAATATTC+AGG - chr1.3:55457773-55457792 None:intergenic 30.0%
AACCCTACGTAATCTAATAA+TGG + chr1.3:55457484-55457503 MS.gene88807:CDS 30.0%
ACCCTACGTAATCTAATAAT+GGG + chr1.3:55457485-55457504 MS.gene88807:CDS 30.0%
ATCCCATTATTAGATTACGT+AGG - chr1.3:55457490-55457509 None:intergenic 30.0%
TCCCATTATTAGATTACGTA+GGG - chr1.3:55457489-55457508 None:intergenic 30.0%
! AATAATGGGATCAACACTTA+TGG + chr1.3:55457499-55457518 MS.gene88807:CDS 30.0%
! TGAATATTTGTCTGAGCTTT+TGG + chr1.3:55457772-55457791 MS.gene88807:CDS 30.0%
!! TAGGAGTGTGACATATTTTA+GGG - chr1.3:55457639-55457658 None:intergenic 30.0%
!! TTAGGAGTGTGACATATTTT+AGG - chr1.3:55457640-55457659 None:intergenic 30.0%
CACTTGGTTGAAAAACCTAA+TGG - chr1.3:55457699-55457718 None:intergenic 35.0%
CCATAAATGGAATCATTGAG+AGG - chr1.3:55457593-55457612 None:intergenic 35.0%
CCTCTCAATGATTCCATTTA+TGG + chr1.3:55457590-55457609 MS.gene88807:CDS 35.0%
TGGAGCTCATAGTGAATTTA+TGG + chr1.3:55457610-55457629 MS.gene88807:CDS 35.0%
TTCACTATGAGCTCCATAAA+TGG - chr1.3:55457606-55457625 None:intergenic 35.0%
CATCTTGTGGTGTGCAAATA+AGG - chr1.3:55457727-55457746 None:intergenic 40.0%
TCTGTCACACATTGTCCATT+AGG + chr1.3:55457681-55457700 MS.gene88807:CDS 40.0%
TGCAAATAAGGATGCTCACT+TGG - chr1.3:55457715-55457734 None:intergenic 40.0%
! TTGTCTGAGCTTTTGGACAA+AGG + chr1.3:55457779-55457798 MS.gene88807:CDS 40.0%
ACATCCATTCTACTCTCAGC+TGG + chr1.3:55457527-55457546 MS.gene88807:CDS 45.0%
CAAACCAGCTGAGAGTAGAA+TGG - chr1.3:55457534-55457553 None:intergenic 45.0%
CATTCTACTCTCAGCTGGTT+TGG + chr1.3:55457532-55457551 MS.gene88807:CDS 45.0%
GCATAGGACAAGACATCTTG+TGG - chr1.3:55457740-55457759 None:intergenic 45.0%
TACGTAGGGTTTGAACAGCT+AGG - chr1.3:55457475-55457494 None:intergenic 45.0%
TTCAGGTGTGATGACAGCAT+AGG - chr1.3:55457756-55457775 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 55457452 55457812 55457452 ID=MS.gene88807
chr1.3 mRNA 55457452 55457812 55457452 ID=MS.gene88807.t1;Parent=MS.gene88807
chr1.3 exon 55457452 55457812 55457452 ID=MS.gene88807.t1.exon1;Parent=MS.gene88807.t1
chr1.3 CDS 55457452 55457812 55457452 ID=cds.MS.gene88807.t1;Parent=MS.gene88807.t1
Gene Sequence

>MS.gene88807

GACATTGAAAAGAAGAACATCCTAGCTGTTCAAACCCTACGTAATCTAATAATGGGATCAACACTTATGGCAACTACATCCATTCTACTCTCAGCTGGTTTGGCAGCAGTCATAAGCAGCACATACAGTGTGAAGAAGCCTCTCAATGATTCCATTTATGGAGCTCATAGTGAATTTATGGTAGCCCTAAAATATGTCACACTCCTAACTATATTCTTATTCTCATTTTTCTGTCACACATTGTCCATTAGGTTTTTCAACCAAGTGAGCATCCTTATTTGCACACCACAAGATGTCTTGTCCTATGCTGTCATCACACCTGAATATTTGTCTGAGCTTTTGGACAAAGGAATTGTTTTGA
Protein sequence

>MS.gene88807.t1

DIEKKNILAVQTLRNLIMGSTLMATTSILLSAGLAAVISSTYSVKKPLNDSIYGAHSEFMVALKYVTLLTIFLFSFFCHTLSIRFFNQVSILICTPQDVLSYAVITPEYLSELLDKGIVL