AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57445

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57445.t1 MTR_4g094680 75.641 78 13 1 1 72 75 152 3.60e-35 119
MS.gene57445.t1 MTR_2g036170 83.333 72 6 1 1 72 90 155 4.24e-35 119
MS.gene57445.t1 MTR_4g116300 63.889 72 26 0 1 72 59 130 9.87e-29 102
MS.gene57445.t1 MTR_2g055210 63.889 72 25 1 1 72 155 225 9.90e-26 96.7
MS.gene57445.t1 MTR_4g078170 51.389 72 35 0 1 72 69 140 2.43e-22 85.5
MS.gene57445.t1 MTR_5g007230 50.000 72 36 0 1 72 75 146 6.61e-22 84.3
MS.gene57445.t1 MTR_8g066820 50.000 72 36 0 1 72 87 158 8.41e-22 84.7
MS.gene57445.t1 MTR_5g030130 50.000 72 36 0 1 72 89 160 2.89e-21 83.2
MS.gene57445.t1 MTR_5g030130 50.000 72 36 0 1 72 89 160 3.32e-21 82.0
MS.gene57445.t1 MTR_7g102790 50.000 72 36 0 1 72 64 135 1.57e-20 80.5
MS.gene57445.t1 MTR_1g062160 48.611 72 37 0 1 72 62 133 9.97e-20 78.6
MS.gene57445.t1 MTR_2g084525 40.000 80 40 1 1 72 60 139 1.18e-12 60.5
MS.gene57445.t1 MTR_2g084495 41.250 80 39 1 1 72 60 139 1.82e-12 59.7
MS.gene57445.t1 MTR_2g060500 38.750 80 41 1 1 72 66 145 6.35e-12 57.0
MS.gene57445.t1 MTR_2g060540 38.750 80 41 1 1 72 66 145 1.08e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57445.t1 AT1G31040 79.167 72 14 1 1 72 72 142 2.09e-36 122
MS.gene57445.t1 AT2G12646 62.500 72 27 0 1 72 59 130 1.73e-27 99.8
MS.gene57445.t1 AT2G12646 62.500 72 27 0 1 72 59 130 1.73e-27 99.8
MS.gene57445.t1 AT2G12646 62.500 72 27 0 1 72 56 127 1.94e-27 99.8
MS.gene57445.t1 AT3G60670 59.722 72 29 0 1 72 60 131 9.75e-27 97.4
MS.gene57445.t1 AT1G32700 50.000 72 36 0 1 72 27 98 1.02e-20 80.5
MS.gene57445.t1 AT1G32700 50.000 72 36 0 1 72 66 137 2.33e-20 80.5
MS.gene57445.t1 AT1G21000 51.389 72 35 0 1 72 70 141 3.47e-20 80.5
MS.gene57445.t1 AT1G21000 51.389 72 35 0 1 72 67 138 3.49e-20 80.5
MS.gene57445.t1 AT4G17900 50.685 73 35 1 1 72 88 160 5.50e-20 79.7
MS.gene57445.t1 AT1G76590 51.389 72 35 0 1 72 72 143 7.78e-20 79.7
MS.gene57445.t1 AT4G17900 50.685 73 35 1 1 72 74 146 7.95e-20 79.0
MS.gene57445.t1 AT5G46710 52.055 73 34 1 1 72 82 154 3.99e-19 76.3
MS.gene57445.t1 AT5G46710 52.055 73 34 1 1 72 66 138 4.81e-19 77.0
MS.gene57445.t1 AT5G46710 52.055 73 34 1 1 72 82 154 6.08e-19 77.0
MS.gene57445.t1 AT1G43000 51.389 72 35 0 1 72 63 134 2.78e-18 75.1
MS.gene57445.t1 AT1G43000 51.389 72 35 0 1 72 70 141 2.84e-18 75.1
MS.gene57445.t1 AT2G27930 44.444 81 36 1 1 72 62 142 6.37e-18 73.6
MS.gene57445.t1 AT2G27930 44.444 81 36 1 1 72 62 142 6.37e-18 73.6
MS.gene57445.t1 AT2G01818 50.000 76 32 2 3 72 6 81 1.31e-17 72.0
MS.gene57445.t1 AT2G27930 44.444 81 36 1 1 72 59 139 1.58e-17 72.4
MS.gene57445.t1 AT2G27930 44.444 81 36 1 1 72 59 139 1.58e-17 72.4
MS.gene57445.t1 AT2G27930 44.444 81 36 1 1 72 59 139 1.64e-17 72.0
MS.gene57445.t1 AT2G27930 44.444 81 36 1 1 72 59 139 1.64e-17 72.0
MS.gene57445.t1 AT2G01818 50.000 76 32 2 3 72 70 145 6.95e-17 71.6

Find 13 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGCACTGTTAATAGTATA+GGG 0.310183 2.2:+50631901 None:intergenic
CACTTGTGACAGGATTCTTC+AGG 0.345103 2.2:-50631815 MS.gene57445:CDS
CATTGATTGTTCTAATATAC+AGG 0.353712 2.2:-50632304 MS.gene57445:intron
CGTAATTCGATTGGATGATC+TGG 0.385003 2.2:-50632334 MS.gene57445:CDS
TGCATGAGAGAGAACAGAAA+TGG 0.450248 2.2:+50631785 None:intergenic
TTACAACAACGTAATTCGAT+TGG 0.478043 2.2:-50632343 MS.gene57445:CDS
ATGCTTGCTTCACTTGTGAC+AGG 0.483376 2.2:-50631825 MS.gene57445:CDS
TTTCTGTTCTCTCTCATGCA+AGG 0.498493 2.2:-50631782 None:intergenic
GAGAGAGAACAGAAATGGAA+TGG 0.509323 2.2:+50631790 None:intergenic
AGAGAGAACAGAAATGGAAT+GGG 0.519403 2.2:+50631791 None:intergenic
ACTTTGCATGACTTTGATTG+TGG 0.529762 2.2:+50631856 None:intergenic
GTCACAAGTGAAGCAAGCAT+TGG 0.580435 2.2:+50631828 None:intergenic
TCATGATGCTGTAGGTGAGA+AGG 0.582777 2.2:-50632371 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACTAAATTATAGTTATTTAA+AGG - chr2.2:50632013-50632032 MS.gene57445:intron 10.0%
!!! TTTTTTTTTTTTTTTTTGTG+AGG - chr2.2:50632163-50632182 MS.gene57445:intron 10.0%
!! TTTAGTAGCATATATTAAAT+TGG + chr2.2:50631999-50632018 None:intergenic 15.0%
!!! AAGTGATATTTTTAAATCAG+AGG - chr2.2:50632261-50632280 MS.gene57445:intron 20.0%
!!! CGTTTTTTATACATTGTTTT+TGG - chr2.2:50632091-50632110 MS.gene57445:intron 20.0%
! AACAAAGTGAGATTGTTTAT+TGG - chr2.2:50631865-50631884 MS.gene57445:CDS 25.0%
! TTAAAGGAAAATGCTTGTAT+CGG - chr2.2:50632029-50632048 MS.gene57445:intron 25.0%
! TTTGCACTGTTAATAGTATA+GGG + chr2.2:50632242-50632261 None:intergenic 25.0%
!! CATTGATTGTTCTAATATAC+AGG - chr2.2:50631836-50631855 MS.gene57445:CDS 25.0%
!! TTTTGCACTGTTAATAGTAT+AGG + chr2.2:50632243-50632262 None:intergenic 25.0%
!!! AGTTTTTGATTGTGTTGTAT+TGG - chr2.2:50632209-50632228 MS.gene57445:intron 25.0%
TTACAACAACGTAATTCGAT+TGG - chr2.2:50631797-50631816 MS.gene57445:CDS 30.0%
AAACATTAACCAACCCACTT+AGG + chr2.2:50631963-50631982 None:intergenic 35.0%
ACTTTGCATGACTTTGATTG+TGG + chr2.2:50632287-50632306 None:intergenic 35.0%
AGAGAGAACAGAAATGGAAT+GGG + chr2.2:50632352-50632371 None:intergenic 35.0%
GCACATTAGTGTACAAAAGT+TGG - chr2.2:50631922-50631941 MS.gene57445:intron 35.0%
! AGGCACATTTTATGCTTGAT+TGG - chr2.2:50632061-50632080 MS.gene57445:intron 35.0%
! GCTTGTATCGGATTCTTTTT+AGG - chr2.2:50632041-50632060 MS.gene57445:intron 35.0%
CGTAATTCGATTGGATGATC+TGG - chr2.2:50631806-50631825 MS.gene57445:CDS 40.0%
GAGAGAGAACAGAAATGGAA+TGG + chr2.2:50632353-50632372 None:intergenic 40.0%
TGCATGAGAGAGAACAGAAA+TGG + chr2.2:50632358-50632377 None:intergenic 40.0%
TTTCTGTTCTCTCTCATGCA+AGG - chr2.2:50632358-50632377 MS.gene57445:CDS 40.0%
ATGCTTGCTTCACTTGTGAC+AGG - chr2.2:50632315-50632334 MS.gene57445:CDS 45.0%
CACTTGTGACAGGATTCTTC+AGG - chr2.2:50632325-50632344 MS.gene57445:CDS 45.0%
GTCACAAGTGAAGCAAGCAT+TGG + chr2.2:50632315-50632334 None:intergenic 45.0%
TTGCAACCAGTGACCTAAGT+GGG - chr2.2:50631947-50631966 MS.gene57445:intron 45.0%
AACCAACCCACTTAGGTCAC+TGG + chr2.2:50631956-50631975 None:intergenic 50.0%
AACCAGTGACCTAAGTGGGT+TGG - chr2.2:50631951-50631970 MS.gene57445:intron 50.0%
CTTGCAACCAGTGACCTAAG+TGG - chr2.2:50631946-50631965 MS.gene57445:intron 50.0%
! CACTTAGGTCACTGGTTGCA+AGG + chr2.2:50631948-50631967 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 50631783 50632379 50631783 ID=MS.gene57445
chr2.2 mRNA 50631783 50632379 50631783 ID=MS.gene57445.t1;Parent=MS.gene57445
chr2.2 exon 50632305 50632379 50632305 ID=MS.gene57445.t1.exon1;Parent=MS.gene57445.t1
chr2.2 CDS 50632305 50632379 50632305 ID=cds.MS.gene57445.t1;Parent=MS.gene57445.t1
chr2.2 exon 50631783 50631923 50631783 ID=MS.gene57445.t1.exon2;Parent=MS.gene57445.t1
chr2.2 CDS 50631783 50631923 50631783 ID=cds.MS.gene57445.t1;Parent=MS.gene57445.t1
Gene Sequence

>MS.gene57445

GTGAGAAGGTATGTTTACAACAACGTAATTCGATTGGATGATCTGGAAAAGCTCATTGATTGTTCTAATATACAGGTTAGACAACAAAGTGAGATTGTTTATTGGTTTATACTTCAAAAATCAAAATTGAGATCATTAAGCACATTAGTGTACAAAAGTTGGCCTTGCAACCAGTGACCTAAGTGGGTTGGTTAATGTTTAAACTATAATTAACCAATTTAATATATGCTACTAAATTATAGTTATTTAAAGGAAAATGCTTGTATCGGATTCTTTTTAGGCACATTTTATGCTTGATTGGAACTCTTCGTTTTTTATACATTGTTTTTGGCTTCTTCAATAAAAAAAAATATTAATATAGATAATATGTCAAAATTGTATTTTTTTTTTTTTTTTTGTGAGGAACTTAGTATGTCAAAATATTAAAGTTTTTGATTGTGTTGTATTGGATTGCAGCCCTATACTATTAACAGTGCAAAAGTGATATTTTTAAATCAGAGGCCACAATCAAAGTCATGCAAAGTTACAACCAATGCTTGCTTCACTTGTGACAGGATTCTTCAGGACCCATTCCATTTCTGTTCTCTCTCATGCAAG
Protein sequence

>MS.gene57445.t1

VRRYVYNNVIRLDDLEKLIDCSNIQPYTINSAKVIFLNQRPQSKSCKVTTNACFTCDRILQDPFHFCSLSCK