AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene85307

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85307.t1 MTR_2g045020 85.561 187 26 1 1 186 1 187 2.72e-109 310
MS.gene85307.t1 MTR_3g437790 62.766 188 54 5 1 180 1 180 2.18e-66 201
MS.gene85307.t1 MTR_8g022970 46.842 190 81 6 8 186 3 183 3.81e-43 142
MS.gene85307.t1 MTR_3g109930 49.635 137 65 3 35 170 23 156 3.89e-37 127
MS.gene85307.t1 MTR_2g105290 38.272 162 81 6 20 167 5 161 1.26e-18 79.3
MS.gene85307.t1 MTR_7g028448 34.586 133 73 3 36 167 34 153 5.10e-17 74.7
MS.gene85307.t1 MTR_4g036915 34.586 133 73 3 36 167 34 153 5.10e-17 74.7
MS.gene85307.t1 MTR_8g086290 34.884 172 91 7 20 181 10 170 1.70e-14 68.6
MS.gene85307.t1 MTR_5g053390 32.051 156 91 6 21 164 7 159 1.31e-12 64.3
MS.gene85307.t1 MTR_3g052920 31.677 161 85 5 21 164 7 159 5.13e-12 62.8
MS.gene85307.t1 MTR_3g080940 32.394 142 76 6 36 167 31 162 7.54e-12 62.0
MS.gene85307.t1 MTR_8g043650 32.948 173 79 8 8 161 2 156 8.76e-12 62.0
MS.gene85307.t1 MTR_1g105910 31.613 155 87 6 21 161 7 156 1.49e-11 61.6
MS.gene85307.t1 MTR_1g106070 30.864 162 85 7 21 164 7 159 1.96e-11 60.5
MS.gene85307.t1 MTR_1g012570 30.380 158 91 6 21 164 7 159 4.66e-11 60.1
MS.gene85307.t1 MTR_5g055100 30.061 163 79 7 21 161 7 156 4.90e-11 60.1
MS.gene85307.t1 MTR_2g030740 29.697 165 92 7 15 164 4 159 9.38e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene85307.t1 AT5G60440 31.618 136 82 5 36 164 29 160 1.02e-12 65.5
MS.gene85307.t1 AT2G24840 26.882 186 114 6 22 186 65 249 2.20e-12 63.9

Find 28 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAGTAGCAATGTTTATATT+TGG 0.182142 2.4:+45411141 None:intergenic
GTTTATATTTGGATGTAAAT+TGG 0.187712 2.4:+45411152 None:intergenic
TGAGGACTTTAAGAATTCTT+TGG 0.239126 2.4:-45411220 MS.gene85307:CDS
GAATAATTCTATTGATGATA+TGG 0.255478 2.4:-45411256 MS.gene85307:CDS
GTGCTTCATATTGAAGCCTT+AGG 0.338858 2.4:+45411370 None:intergenic
TAGAATTATTCCACCAATCA+TGG 0.397833 2.4:+45411268 None:intergenic
TGAAGAAGAGCAGGATACTT+TGG 0.413235 2.4:-45411334 MS.gene85307:CDS
TGCTTCATATTGAAGCCTTA+GGG 0.444644 2.4:+45411371 None:intergenic
GCATAGAACTTGTTCTTGTC+CGG 0.453036 2.4:+45411495 None:intergenic
GAATTCTTTGGAGAGTTTCA+AGG 0.479356 2.4:-45411208 MS.gene85307:CDS
ACGTTGAATGACAGCATCAC+AGG 0.479438 2.4:+45411461 None:intergenic
AATTCTTTGGAGAGTTTCAA+GGG 0.490979 2.4:-45411207 MS.gene85307:CDS
GATGCATGAAATCAAGAAAG+AGG 0.498636 2.4:-45411604 MS.gene85307:CDS
ATCCTCGACCATCATATGTC+CGG 0.509285 2.4:+45411431 None:intergenic
ACATGAATAAGAAAATTGCT+AGG 0.527390 2.4:-45411680 MS.gene85307:CDS
ATGAAATTGCTGAAACCCTA+AGG 0.533334 2.4:-45411386 MS.gene85307:CDS
GGACATATGATGGTCGAGGA+TGG 0.543275 2.4:-45411429 MS.gene85307:CDS
TGCAATCATCGTCAAATCGC+CGG 0.556447 2.4:-45411514 MS.gene85307:CDS
GACATATGATGGTCGAGGAT+GGG 0.560153 2.4:-45411428 MS.gene85307:CDS
CATGAATAAGAAAATTGCTA+GGG 0.586387 2.4:-45411679 MS.gene85307:CDS
CGTTGAATGACAGCATCACA+GGG 0.594896 2.4:+45411462 None:intergenic
GACCGGACATATGATGGTCG+AGG 0.605126 2.4:-45411433 MS.gene85307:CDS
AAGAACAAGTTCTATGCATG+TGG 0.639320 2.4:-45411489 MS.gene85307:CDS
TATGGATTTAGCATCTCTTG+AGG 0.650206 2.4:-45411238 MS.gene85307:CDS
GAACAAAACTCAACAACACA+CGG 0.651271 2.4:-45411635 MS.gene85307:CDS
GCTAGTGAGAGAAAGAACCC+TGG 0.692523 2.4:-45411657 MS.gene85307:CDS
GGAAGCTGTCAAAGTCACTG+AGG 0.723299 2.4:-45411313 MS.gene85307:CDS
GTTGAATGACAGCATCACAG+GGG 0.800398 2.4:+45411463 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTTATATTTGGATGTAAAT+TGG + chr2.4:45411669-45411688 None:intergenic 20.0%
!! TAAGTAGCAATGTTTATATT+TGG + chr2.4:45411680-45411699 None:intergenic 20.0%
!!! GAATAATTCTATTGATGATA+TGG - chr2.4:45411562-45411581 MS.gene85307:CDS 20.0%
!!! ATTTTAATTTCCATGATTGG+TGG - chr2.4:45411540-45411559 MS.gene85307:CDS 25.0%
!!! GTGATTTTAATTTCCATGAT+TGG - chr2.4:45411537-45411556 MS.gene85307:CDS 25.0%
TAGAATTATTCCACCAATCA+TGG + chr2.4:45411553-45411572 None:intergenic 30.0%
! AATTCTTTGGAGAGTTTCAA+GGG - chr2.4:45411611-45411630 MS.gene85307:CDS 30.0%
! TGAGGACTTTAAGAATTCTT+TGG - chr2.4:45411598-45411617 MS.gene85307:CDS 30.0%
AAGAACAAGTTCTATGCATG+TGG - chr2.4:45411329-45411348 MS.gene85307:CDS 35.0%
AGAAAAACTTGAAGAAGAGC+AGG - chr2.4:45411475-45411494 MS.gene85307:CDS 35.0%
ATGAAATTGCTGAAACCCTA+AGG - chr2.4:45411432-45411451 MS.gene85307:CDS 35.0%
GAACAAAACTCAACAACACA+CGG - chr2.4:45411183-45411202 MS.gene85307:CDS 35.0%
GATGCATGAAATCAAGAAAG+AGG - chr2.4:45411214-45411233 MS.gene85307:CDS 35.0%
TATGGATTTAGCATCTCTTG+AGG - chr2.4:45411580-45411599 MS.gene85307:CDS 35.0%
TGCTTCATATTGAAGCCTTA+GGG + chr2.4:45411450-45411469 None:intergenic 35.0%
! CGATGATTGCAGTTTTTGAT+TGG + chr2.4:45411295-45411314 None:intergenic 35.0%
! GAATTCTTTGGAGAGTTTCA+AGG - chr2.4:45411610-45411629 MS.gene85307:CDS 35.0%
!!! TGTTGTTGAGTTTTGTTCCA+GGG + chr2.4:45411181-45411200 None:intergenic 35.0%
GTGCTTCATATTGAAGCCTT+AGG + chr2.4:45411451-45411470 None:intergenic 40.0%
TGAAGAAGAGCAGGATACTT+TGG - chr2.4:45411484-45411503 MS.gene85307:CDS 40.0%
! GCATAGAACTTGTTCTTGTC+CGG + chr2.4:45411326-45411345 None:intergenic 40.0%
! GTCATTCAACGTTTTCTGAC+CGG - chr2.4:45411368-45411387 MS.gene85307:CDS 40.0%
! TTTTCTGACCGGACATATGA+TGG - chr2.4:45411379-45411398 MS.gene85307:CDS 40.0%
!!! GTGTTGTTGAGTTTTGTTCC+AGG + chr2.4:45411182-45411201 None:intergenic 40.0%
ACGTTGAATGACAGCATCAC+AGG + chr2.4:45411360-45411379 None:intergenic 45.0%
ATCCTCGACCATCATATGTC+CGG + chr2.4:45411390-45411409 None:intergenic 45.0%
CGTTGAATGACAGCATCACA+GGG + chr2.4:45411359-45411378 None:intergenic 45.0%
GACATATGATGGTCGAGGAT+GGG - chr2.4:45411390-45411409 MS.gene85307:CDS 45.0%
GAGGAAAAAGAACGCAGACT+CGG - chr2.4:45411233-45411252 MS.gene85307:CDS 45.0%
GTTGAATGACAGCATCACAG+GGG + chr2.4:45411358-45411377 None:intergenic 45.0%
TGCAATCATCGTCAAATCGC+CGG - chr2.4:45411304-45411323 MS.gene85307:CDS 45.0%
GCTAGTGAGAGAAAGAACCC+TGG - chr2.4:45411161-45411180 MS.gene85307:CDS 50.0%
GGAAGCTGTCAAAGTCACTG+AGG - chr2.4:45411505-45411524 MS.gene85307:CDS 50.0%
GGACATATGATGGTCGAGGA+TGG - chr2.4:45411389-45411408 MS.gene85307:CDS 50.0%
GACCGGACATATGATGGTCG+AGG - chr2.4:45411385-45411404 MS.gene85307:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 45411140 45411700 45411140 ID=MS.gene85307
chr2.4 mRNA 45411140 45411700 45411140 ID=MS.gene85307.t1;Parent=MS.gene85307
chr2.4 exon 45411140 45411700 45411140 ID=MS.gene85307.t1.exon1;Parent=MS.gene85307.t1
chr2.4 CDS 45411140 45411700 45411140 ID=cds.MS.gene85307.t1;Parent=MS.gene85307.t1
Gene Sequence

>MS.gene85307

ATGAATAAGAAAATTGCTAGGGCTAGTGAGAGAAAGAACCCTGGAACAAAACTCAACAACACACGGAAGAGAAAGATGCATGAAATCAAGAAAGAGGAAAAAGAACGCAGACTCGGAATTTTCAACAAAGCAATAGAGCTGTCTATTCTATGCCAATCAAAAACTGCAATCATCGTCAAATCGCCGGACAAGAACAAGTTCTATGCATGTGGCTACCCCTGTGATGCTGTCATTCAACGTTTTCTGACCGGACATATGATGGTCGAGGATGGGAAAAAGAAGAAACAAGATGATGAAATTGCTGAAACCCTAAGGCTTCAATATGAAGCACTTCAAGAAAAACTTGAAGAAGAGCAGGATACTTTGGAAGCTGTCAAAGTCACTGAGGCACAAAAGAGTGATTTTAATTTCCATGATTGGTGGAATAATTCTATTGATGATATGGATTTAGCATCTCTTGAGGACTTTAAGAATTCTTTGGAGAGTTTCAAGGGTAATTTACGTTCAGCAAGCGAAGCAGAGAAGTCCAATTTACATCCAAATATAAACATTGCTACTTAA
Protein sequence

>MS.gene85307.t1

MNKKIARASERKNPGTKLNNTRKRKMHEIKKEEKERRLGIFNKAIELSILCQSKTAIIVKSPDKNKFYACGYPCDAVIQRFLTGHMMVEDGKKKKQDDEIAETLRLQYEALQEKLEEEQDTLEAVKVTEAQKSDFNFHDWWNNSIDDMDLASLEDFKNSLESFKGNLRSASEAEKSNLHPNINIAT