AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99466


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99466.t1 MTR_4g019150 98.020 202 4 0 1 202 1 202 1.04e-144 401
MS.gene99466.t1 MTR_4g019130 74.272 206 44 3 1 202 1 201 3.18e-105 301
MS.gene99466.t1 MTR_7g104650 36.098 205 106 9 10 202 101 292 5.90e-25 99.0
MS.gene99466.t1 MTR_2g054130 33.673 196 99 7 10 202 210 377 3.28e-19 84.7
MS.gene99466.t1 MTR_2g055010 32.642 193 101 6 10 199 210 376 3.01e-18 82.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99466.t1 AT2G37970 69.907 216 50 2 1 202 32 246 1.17e-103 299
MS.gene99466.t1 AT3G10130 35.149 202 112 8 10 202 114 305 1.65e-19 84.7
MS.gene99466.t1 AT5G20140 32.143 196 103 6 10 202 205 373 4.64e-19 84.3
MS.gene99466.t1 AT5G20140 31.351 185 99 5 10 191 205 364 1.05e-17 80.5

Find 43 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCATAATGGGTATGGTATT+TGG 0.221891 4.2:-83318259 None:intergenic
GAGGAAGGTGAGAGGAAATA+TGG 0.245932 4.2:-83317848 MS.gene99466:CDS
GGAGAAGTTGAGGCTGAGTT+TGG 0.256967 4.2:-83317774 MS.gene99466:CDS
GCAAACTATATTGGAGCATT+AGG 0.276290 4.2:-83318088 MS.gene99466:CDS
ACACATCATGTTCATTCAAT+AGG 0.342036 4.2:+83317656 None:intergenic
CTTGGACACTTCCAATGTTT+AGG 0.347372 4.2:-83317697 MS.gene99466:CDS
AAACAAAGATGGTGGGTTCA+TGG 0.371715 4.2:-83318116 MS.gene99466:CDS
GCAGAACCCTTTGTGATAAC+TGG 0.387111 4.2:+83318022 None:intergenic
CACATCATGTTCATTCAATA+GGG 0.408624 4.2:+83317657 None:intergenic
TTGTTTCCTTTGAACTGTGA+TGG 0.417876 4.2:+83318133 None:intergenic
TCACTAGCCTTAGTCACAAC+TGG 0.437262 4.2:+83317977 None:intergenic
GACAGCACCAGTTGTGACTA+AGG 0.455361 4.2:-83317984 MS.gene99466:CDS
TATGGAGTGGTGAAGTTTAG+TGG 0.463832 4.2:-83317830 MS.gene99466:CDS
AGGGTTGTGATAAGAGAGGA+AGG 0.486753 4.2:-83317863 MS.gene99466:CDS
AGGCTGAGTTTGGAGAGAGA+TGG 0.496209 4.2:-83317764 MS.gene99466:CDS
TTCTCGATCCATAATGGGTA+TGG 0.500458 4.2:-83318266 None:intergenic
AGGAGAAGGTGGAGAAGTTG+AGG 0.502041 4.2:-83317784 MS.gene99466:CDS
TGAGAGGGTTGTGATAAGAG+AGG 0.509523 4.2:-83317867 MS.gene99466:CDS
GTGACTAAGGCTAGTGAAGA+AGG 0.510099 4.2:-83317971 MS.gene99466:CDS
TCCAATGTTTAGGACTAATG+AGG 0.518493 4.2:-83317687 MS.gene99466:CDS
TGATAAGAGAGGAAGGTGAG+AGG 0.519680 4.2:-83317856 MS.gene99466:CDS
ACCCTCTCATCAGTAGGCTT+AGG 0.529518 4.2:+83317881 None:intergenic
AGCTAGTGATGAAGTGGTGA+AGG 0.543102 4.2:-83317804 MS.gene99466:CDS
TGAAGTGGTGAAGGAGAAGG+TGG 0.549018 4.2:-83317795 MS.gene99466:CDS
CTAAACATTGGAAGTGTCCA+AGG 0.551702 4.2:+83317698 None:intergenic
TGATGAAGTGGTGAAGGAGA+AGG 0.557865 4.2:-83317798 MS.gene99466:CDS
ACCTAAGCCTACTGATGAGA+GGG 0.571140 4.2:-83317882 MS.gene99466:CDS
ACCTCATTAGTCCTAAACAT+TGG 0.572004 4.2:+83317686 None:intergenic
AGAAGGTGAGAAGAATAAGA+TGG 0.575015 4.2:-83317954 MS.gene99466:CDS
ACTGCACCAGTTATCACAAA+GGG 0.579442 4.2:-83318028 MS.gene99466:CDS
TTCAAAGGAAACAAAGATGG+TGG 0.581593 4.2:-83318124 MS.gene99466:CDS
TATGATCCATCACAGTTCAA+AGG 0.581780 4.2:-83318139 MS.gene99466:CDS
CAGTTCAAAGGAAACAAAGA+TGG 0.590535 4.2:-83318127 MS.gene99466:CDS
CACCTAAGCCTACTGATGAG+AGG 0.606748 4.2:-83317883 MS.gene99466:CDS
TCTGATTTCATAGTCATGTG+TGG 0.609011 4.2:+83318195 None:intergenic
GTGACTTCAGCTGCTACAGA+AGG 0.612236 4.2:+83318163 None:intergenic
AGGTGAGAGGAAATATGGAG+TGG 0.613327 4.2:-83317843 MS.gene99466:CDS
TCAAAGGAAACAAAGATGGT+GGG 0.622679 4.2:-83318123 MS.gene99466:CDS
TGGGTAGGTACAATCCACCT+TGG 0.629812 4.2:-83317715 MS.gene99466:CDS
GACTGCACCAGTTATCACAA+AGG 0.644397 4.2:-83318029 MS.gene99466:CDS
TGGTGTAGCTAGTGATGAAG+TGG 0.645460 4.2:-83317810 MS.gene99466:CDS
ATCACAACCCTCTCATCAGT+AGG 0.648561 4.2:+83317875 None:intergenic
AACATTGGAAGTGTCCAAGG+TGG 0.685808 4.2:+83317701 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATGGTTTTAGCAAACTATAT+TGG - chr4.2:83317823-83317842 MS.gene99466:CDS 25.0%
!!! GTTTTTGTCACTTCATATTT+TGG + chr4.2:83317706-83317725 None:intergenic 25.0%
GGTATGGTATTTGGAAAAAT+TGG - chr4.2:83317670-83317689 MS.gene99466:CDS 30.0%
!!! AGAGATGGTTTTAAGGTTAT+TGG - chr4.2:83318171-83318190 MS.gene99466:CDS 30.0%
!!! AGATGGTTTTAAGGTTATTG+GGG - chr4.2:83318173-83318192 MS.gene99466:CDS 30.0%
!!! GAGATGGTTTTAAGGTTATT+GGG - chr4.2:83318172-83318191 MS.gene99466:CDS 30.0%
!!! GTTATTGGGGATTTTTTGTT+GGG - chr4.2:83318186-83318205 MS.gene99466:CDS 30.0%
!!! TTCTTCTGCTTTTTCATACA+TGG + chr4.2:83318016-83318035 None:intergenic 30.0%
ACCTCATTAGTCCTAAACAT+TGG + chr4.2:83318237-83318256 None:intergenic 35.0%
AGAAGGTGAGAAGAATAAGA+TGG - chr4.2:83317966-83317985 MS.gene99466:CDS 35.0%
CAGTTCAAAGGAAACAAAGA+TGG - chr4.2:83317793-83317812 MS.gene99466:CDS 35.0%
TATGATCCATCACAGTTCAA+AGG - chr4.2:83317781-83317800 MS.gene99466:CDS 35.0%
TCAAAGGAAACAAAGATGGT+GGG - chr4.2:83317797-83317816 MS.gene99466:CDS 35.0%
TCTGATTTCATAGTCATGTG+TGG + chr4.2:83317728-83317747 None:intergenic 35.0%
TTCAAAGGAAACAAAGATGG+TGG - chr4.2:83317796-83317815 MS.gene99466:CDS 35.0%
TTGTTTCCTTTGAACTGTGA+TGG + chr4.2:83317790-83317809 None:intergenic 35.0%
! GCAAACTATATTGGAGCATT+AGG - chr4.2:83317832-83317851 MS.gene99466:CDS 35.0%
! TCCAATGTTTAGGACTAATG+AGG - chr4.2:83318233-83318252 MS.gene99466:CDS 35.0%
!! TTTGGAGAGAGATGGTTTTA+AGG - chr4.2:83318164-83318183 MS.gene99466:CDS 35.0%
!!! GGTTATTGGGGATTTTTTGT+TGG - chr4.2:83318185-83318204 MS.gene99466:CDS 35.0%
!!! TCTGCTTTTTCATACATGGA+GGG + chr4.2:83318012-83318031 None:intergenic 35.0%
!!! TTCTGCTTTTTCATACATGG+AGG + chr4.2:83318013-83318032 None:intergenic 35.0%
!!! TTTCAGGTTTTGTGTTCTGA+GGG + chr4.2:83317861-83317880 None:intergenic 35.0%
!!! TTTTCAGGTTTTGTGTTCTG+AGG + chr4.2:83317862-83317881 None:intergenic 35.0%
ACTGCACCAGTTATCACAAA+GGG - chr4.2:83317892-83317911 MS.gene99466:CDS 40.0%
CTTGGACACTTCCAATGTTT+AGG - chr4.2:83318223-83318242 MS.gene99466:CDS 40.0%
TATGGAGTGGTGAAGTTTAG+TGG - chr4.2:83318090-83318109 MS.gene99466:CDS 40.0%
! GCAGTCATAGCAATCTTTTC+AGG + chr4.2:83317877-83317896 None:intergenic 40.0%
!! AAACAAAGATGGTGGGTTCA+TGG - chr4.2:83317804-83317823 MS.gene99466:CDS 40.0%
!! CTAAACATTGGAAGTGTCCA+AGG + chr4.2:83318225-83318244 None:intergenic 40.0%
!!! TTGGGGATTTTTTGTTGGGT+AGG - chr4.2:83318190-83318209 MS.gene99466:CDS 40.0%
ACCTAAGCCTACTGATGAGA+GGG - chr4.2:83318038-83318057 MS.gene99466:CDS 45.0%
AGCTAGTGATGAAGTGGTGA+AGG - chr4.2:83318116-83318135 MS.gene99466:CDS 45.0%
AGGGTTGTGATAAGAGAGGA+AGG - chr4.2:83318057-83318076 MS.gene99466:CDS 45.0%
AGGTGAGAGGAAATATGGAG+TGG - chr4.2:83318077-83318096 MS.gene99466:CDS 45.0%
ATCACAACCCTCTCATCAGT+AGG + chr4.2:83318048-83318067 None:intergenic 45.0%
GACTGCACCAGTTATCACAA+AGG - chr4.2:83317891-83317910 MS.gene99466:CDS 45.0%
GAGGAAGGTGAGAGGAAATA+TGG - chr4.2:83318072-83318091 MS.gene99466:CDS 45.0%
GCAGAACCCTTTGTGATAAC+TGG + chr4.2:83317901-83317920 None:intergenic 45.0%
GTGACTAAGGCTAGTGAAGA+AGG - chr4.2:83317949-83317968 MS.gene99466:CDS 45.0%
TGAGAGGGTTGTGATAAGAG+AGG - chr4.2:83318053-83318072 MS.gene99466:CDS 45.0%
TGATAAGAGAGGAAGGTGAG+AGG - chr4.2:83318064-83318083 MS.gene99466:CDS 45.0%
TGATGAAGTGGTGAAGGAGA+AGG - chr4.2:83318122-83318141 MS.gene99466:CDS 45.0%
TGGTGTAGCTAGTGATGAAG+TGG - chr4.2:83318110-83318129 MS.gene99466:CDS 45.0%
!! AACATTGGAAGTGTCCAAGG+TGG + chr4.2:83318222-83318241 None:intergenic 45.0%
!! TCACTAGCCTTAGTCACAAC+TGG + chr4.2:83317946-83317965 None:intergenic 45.0%
ACCCTCTCATCAGTAGGCTT+AGG + chr4.2:83318042-83318061 None:intergenic 50.0%
AGGAGAAGGTGGAGAAGTTG+AGG - chr4.2:83318136-83318155 MS.gene99466:CDS 50.0%
AGGCTGAGTTTGGAGAGAGA+TGG - chr4.2:83318156-83318175 MS.gene99466:CDS 50.0%
CACCTAAGCCTACTGATGAG+AGG - chr4.2:83318037-83318056 MS.gene99466:CDS 50.0%
GACAGCACCAGTTGTGACTA+AGG - chr4.2:83317936-83317955 MS.gene99466:CDS 50.0%
GGAGAAGTTGAGGCTGAGTT+TGG - chr4.2:83318146-83318165 MS.gene99466:CDS 50.0%
GTGACTTCAGCTGCTACAGA+AGG + chr4.2:83317760-83317779 None:intergenic 50.0%
TGAAGTGGTGAAGGAGAAGG+TGG - chr4.2:83318125-83318144 MS.gene99466:CDS 50.0%
TGGGTAGGTACAATCCACCT+TGG - chr4.2:83318205-83318224 MS.gene99466:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 83317667 83318275 83317667 ID=MS.gene99466
chr4.2 mRNA 83317667 83318275 83317667 ID=MS.gene99466.t1;Parent=MS.gene99466
chr4.2 exon 83317667 83318275 83317667 ID=MS.gene99466.t1.exon1;Parent=MS.gene99466.t1
chr4.2 CDS 83317667 83318275 83317667 ID=cds.MS.gene99466.t1;Parent=MS.gene99466.t1
Gene Sequence

>MS.gene99466

ATGGGTATGGTATTTGGAAAAATTGGTGTAGAGACACCAAAATATGAAGTGACAAAAACCACACATGACTATGAAATCAGAATATATGCACCTTCTGTAGCAGCTGAAGTCACATATGATCCATCACAGTTCAAAGGAAACAAAGATGGTGGGTTCATGGTTTTAGCAAACTATATTGGAGCATTAGGTAACCCTCAGAACACAAAACCTGAAAAGATTGCTATGACTGCACCAGTTATCACAAAGGGTTCTGCAGAGAAGATTGCTATGACAGCACCAGTTGTGACTAAGGCTAGTGAAGAAGGTGAGAAGAATAAGATGGTGACTATGCAGTTTATTTTGCCCTCCATGTATGAAAAAGCAGAAGAAGCACCTAAGCCTACTGATGAGAGGGTTGTGATAAGAGAGGAAGGTGAGAGGAAATATGGAGTGGTGAAGTTTAGTGGTGTAGCTAGTGATGAAGTGGTGAAGGAGAAGGTGGAGAAGTTGAGGCTGAGTTTGGAGAGAGATGGTTTTAAGGTTATTGGGGATTTTTTGTTGGGTAGGTACAATCCACCTTGGACACTTCCAATGTTTAGGACTAATGAGGTTATGATCCCTATTGAATGA

Protein sequence

>MS.gene99466.t1

MGMVFGKIGVETPKYEVTKTTHDYEIRIYAPSVAAEVTYDPSQFKGNKDGGFMVLANYIGALGNPQNTKPEKIAMTAPVITKGSAEKIAMTAPVVTKASEEGEKNKMVTMQFILPSMYEKAEEAPKPTDERVVIREEGERKYGVVKFSGVASDEVVKEKVEKLRLSLERDGFKVIGDFLLGRYNPPWTLPMFRTNEVMIPIE