AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57429

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57429.t1 MTR_8g091370 97.409 193 5 0 1 193 1 193 2.64e-135 386
MS.gene57429.t1 MTR_3g087530 69.540 174 52 1 19 192 29 201 1.27e-84 256
MS.gene57429.t1 MTR_5g087790 57.065 184 74 2 12 192 39 220 1.50e-67 217
MS.gene57429.t1 MTR_3g078770 58.621 174 67 2 23 193 53 224 1.06e-66 215
MS.gene57429.t1 MTR_2g098470 55.738 183 71 3 16 192 32 210 2.13e-63 206
MS.gene57429.t1 MTR_6g460640 47.191 178 90 2 15 192 36 209 2.52e-53 180
MS.gene57429.t1 MTR_6g060600 46.629 178 91 2 15 192 36 209 1.94e-52 177
MS.gene57429.t1 MTR_3g010790 50.000 120 58 1 73 192 1 118 5.92e-37 134
MS.gene57429.t1 MTR_1g024420 40.952 105 51 2 18 114 6 107 1.13e-22 88.2
MS.gene57429.t1 MTR_7g095580 42.188 64 37 0 62 125 1 64 3.88e-15 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57429.t1 AT5G65100 63.590 195 50 3 17 192 33 225 1.72e-78 244
MS.gene57429.t1 AT5G10120 60.591 203 63 4 1 192 1 197 1.93e-75 234
MS.gene57429.t1 AT3G20770 58.696 184 71 3 12 192 39 220 2.05e-69 222
MS.gene57429.t1 AT2G27050 56.831 183 72 3 16 193 43 223 1.19e-67 217
MS.gene57429.t1 AT1G73730 53.005 183 76 2 16 193 20 197 1.50e-62 202
MS.gene57429.t1 AT1G73730 53.005 183 76 2 16 193 32 209 1.64e-62 203
MS.gene57429.t1 AT5G21120 49.444 180 70 4 26 192 52 223 1.67e-46 160
MS.gene57429.t1 AT5G21120 49.444 180 70 4 26 192 52 223 1.67e-46 160
MS.gene57429.t1 AT5G21120 49.444 180 70 4 26 192 59 230 1.90e-46 160

Find 33 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGATTCCCTCTTGAAAT+AGG 0.244472 4.3:-9932332 MS.gene57429:CDS
AAATGCATATATGATGAAAT+TGG 0.270352 4.3:+9932428 None:intergenic
CTTTCTGAAGAACCTGTTAC+TGG 0.287865 4.3:+9932566 None:intergenic
TTCCCTTGAGCTTCTGTAGC+AGG 0.356757 4.3:+9932753 None:intergenic
GACTTGCAAGATACTACTTT+AGG 0.357446 4.3:-9932398 MS.gene57429:CDS
GCTCCTCCATGGTGGCCTAA+TGG 0.358229 4.3:-9932305 MS.gene57429:CDS
CTTCAGAAAGCTTGCGTGAA+TGG 0.389051 4.3:-9932553 MS.gene57429:CDS
TGAGCTTCTGTAGCAGGATT+CGG 0.390190 4.3:+9932759 None:intergenic
GAGGGATGATGGGAAGTGTT+TGG 0.401632 4.3:+9932484 None:intergenic
ATTCCCTCTTGAAATAGGTT+TGG 0.405477 4.3:-9932327 MS.gene57429:CDS
GAGAAAGGAAAACCAGTAAC+AGG 0.433253 4.3:-9932578 MS.gene57429:CDS
CACTACTGTTCTGTTCCATT+AGG 0.452335 4.3:+9932290 None:intergenic
TACGGTATTGTGCCAGAGAA+AGG 0.473904 4.3:-9932593 MS.gene57429:CDS
CTACAGAAGCTCAAGGGAAA+AGG 0.474169 4.3:-9932749 MS.gene57429:CDS
CTTTGAAAATCAACAAGAGT+TGG 0.476438 4.3:-9932462 MS.gene57429:CDS
TCAAGAGGGAATCTTCTTTG+TGG 0.478086 4.3:+9932338 None:intergenic
TAATCTTCATCATGTATTTG+AGG 0.479390 4.3:+9932645 None:intergenic
AAATAGGTTTGGCTCCTCCA+TGG 0.512934 4.3:-9932316 MS.gene57429:CDS
AGAGGGAATCTTCTTTGTGG+TGG 0.566976 4.3:+9932341 None:intergenic
CAAATTCAGTCAAAATGCAC+CGG 0.585132 4.3:-9932516 MS.gene57429:CDS
ATGACAATATGCAAAGCTCA+AGG 0.586274 4.3:-9932623 MS.gene57429:CDS
CAGAAAGCTTGCGTGAATGG+TGG 0.590210 4.3:-9932550 MS.gene57429:CDS
TCTGTTCCATTAGGCCACCA+TGG 0.598249 4.3:+9932299 None:intergenic
CAAAAGATGAGGCATCAAGA+AGG 0.600880 4.3:-9932697 MS.gene57429:CDS
AAGTGTTTGGAAACTGCATC+CGG 0.603092 4.3:+9932497 None:intergenic
CTAATGGAACAGAACAGTAG+TGG 0.606818 4.3:-9932289 None:intergenic
AATCCTGCTACAGAAGCTCA+AGG 0.613828 4.3:-9932756 MS.gene57429:CDS
GGAGCCAAACCTATTTCAAG+AGG 0.626663 4.3:+9932323 None:intergenic
ATCCTGCTACAGAAGCTCAA+GGG 0.643091 4.3:-9932755 MS.gene57429:CDS
TAGGTTTGGCTCCTCCATGG+TGG 0.654293 4.3:-9932313 MS.gene57429:CDS
AAACCAACAAGCAAAAGATG+AGG 0.678086 4.3:-9932708 MS.gene57429:CDS
GAGCCAAACCTATTTCAAGA+GGG 0.689251 4.3:+9932324 None:intergenic
GTTCCATTAGGCCACCATGG+AGG 0.728866 4.3:+9932302 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATGCATATATGATGAAAT+TGG + chr4.3:9932718-9932737 None:intergenic 20.0%
! TAATCTTCATCATGTATTTG+AGG + chr4.3:9932501-9932520 None:intergenic 25.0%
!! TTCTTCTTTTTGTTGATCAA+AGG + chr4.3:9932323-9932342 None:intergenic 25.0%
! CTTTGAAAATCAACAAGAGT+TGG - chr4.3:9932681-9932700 MS.gene57429:CDS 30.0%
!!! ACTCTTGTTGATTTTCAAAG+AGG + chr4.3:9932681-9932700 None:intergenic 30.0%
!!! CTCTTGTTGATTTTCAAAGA+GGG + chr4.3:9932680-9932699 None:intergenic 30.0%
AAACCAACAAGCAAAAGATG+AGG - chr4.3:9932435-9932454 MS.gene57429:CDS 35.0%
AGAAGATTCCCTCTTGAAAT+AGG - chr4.3:9932811-9932830 MS.gene57429:CDS 35.0%
ATGACAATATGCAAAGCTCA+AGG - chr4.3:9932520-9932539 MS.gene57429:CDS 35.0%
ATTCCCTCTTGAAATAGGTT+TGG - chr4.3:9932816-9932835 MS.gene57429:CDS 35.0%
CAAATTCAGTCAAAATGCAC+CGG - chr4.3:9932627-9932646 MS.gene57429:CDS 35.0%
GACTTGCAAGATACTACTTT+AGG - chr4.3:9932745-9932764 MS.gene57429:CDS 35.0%
! GATTTTCAAAGAGGGATGAT+GGG + chr4.3:9932672-9932691 None:intergenic 35.0%
! TGATTTTCAAAGAGGGATGA+TGG + chr4.3:9932673-9932692 None:intergenic 35.0%
!! AAAGCTCAAGGTTTTGTCTA+CGG - chr4.3:9932532-9932551 MS.gene57429:CDS 35.0%
AAGTGTTTGGAAACTGCATC+CGG + chr4.3:9932649-9932668 None:intergenic 40.0%
GAGAAAGGAAAACCAGTAAC+AGG - chr4.3:9932565-9932584 MS.gene57429:CDS 40.0%
GAGCCAAACCTATTTCAAGA+GGG + chr4.3:9932822-9932841 None:intergenic 40.0%
TCAAGAGGGAATCTTCTTTG+TGG + chr4.3:9932808-9932827 None:intergenic 40.0%
! ATGCCTCATCTTTTGCTTGT+TGG + chr4.3:9932441-9932460 None:intergenic 40.0%
! CAAAAGATGAGGCATCAAGA+AGG - chr4.3:9932446-9932465 MS.gene57429:CDS 40.0%
! CTTTCTGAAGAACCTGTTAC+TGG + chr4.3:9932580-9932599 None:intergenic 40.0%
!!! GTTACTGGTTTTCCTTTCTC+TGG + chr4.3:9932565-9932584 None:intergenic 40.0%
AATCCTGCTACAGAAGCTCA+AGG - chr4.3:9932387-9932406 MS.gene57429:CDS 45.0%
AGAGGGAATCTTCTTTGTGG+TGG + chr4.3:9932805-9932824 None:intergenic 45.0%
ATCCTGCTACAGAAGCTCAA+GGG - chr4.3:9932388-9932407 MS.gene57429:CDS 45.0%
CTACAGAAGCTCAAGGGAAA+AGG - chr4.3:9932394-9932413 MS.gene57429:CDS 45.0%
CTTCAGAAAGCTTGCGTGAA+TGG - chr4.3:9932590-9932609 MS.gene57429:CDS 45.0%
GGAGCCAAACCTATTTCAAG+AGG + chr4.3:9932823-9932842 None:intergenic 45.0%
TACGGTATTGTGCCAGAGAA+AGG - chr4.3:9932550-9932569 MS.gene57429:CDS 45.0%
TGAGCTTCTGTAGCAGGATT+CGG + chr4.3:9932387-9932406 None:intergenic 45.0%
! AAATAGGTTTGGCTCCTCCA+TGG - chr4.3:9932827-9932846 MS.gene57429:CDS 45.0%
CAGAAAGCTTGCGTGAATGG+TGG - chr4.3:9932593-9932612 MS.gene57429:CDS 50.0%
TCTGTTCCATTAGGCCACCA+TGG + chr4.3:9932847-9932866 None:intergenic 50.0%
TTCCCTTGAGCTTCTGTAGC+AGG + chr4.3:9932393-9932412 None:intergenic 50.0%
! ACGAGCTGAAAAAGCGCATG+TGG - chr4.3:9932356-9932375 MS.gene57429:CDS 50.0%
! GCTGAAAAAGCGCATGTGGA+AGG - chr4.3:9932360-9932379 MS.gene57429:CDS 50.0%
!! GAGGGATGATGGGAAGTGTT+TGG + chr4.3:9932662-9932681 None:intergenic 50.0%
GTTCCATTAGGCCACCATGG+AGG + chr4.3:9932844-9932863 None:intergenic 55.0%
! TAGGTTTGGCTCCTCCATGG+TGG - chr4.3:9932830-9932849 MS.gene57429:CDS 55.0%
GCTCCTCCATGGTGGCCTAA+TGG - chr4.3:9932838-9932857 MS.gene57429:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 9932292 9932873 9932292 ID=MS.gene57429
chr4.3 mRNA 9932292 9932873 9932292 ID=MS.gene57429.t1;Parent=MS.gene57429
chr4.3 exon 9932292 9932873 9932292 ID=MS.gene57429.t1.exon1;Parent=MS.gene57429.t1
chr4.3 CDS 9932292 9932873 9932292 ID=cds.MS.gene57429.t1;Parent=MS.gene57429.t1
Gene Sequence

>MS.gene57429

ATGGTGGAGATAACAGAAGAAAACGAGTCCTTTGATCAACAAAAAGAAGAAGAAATCGACTATGACGAGCTGAAAAAGCGCATGTGGAAGGACCGAATCCTGCTACAGAAGCTCAAGGGAAAAGGTAAAAAAGATGATCAACAAAACCAACAAGCAAAAGATGAGGCATCAAGAAGGAAAAAAATGTCAAGAGCACAAGATTCGATCCTCAAATACATGATGAAGATTATGACAATATGCAAAGCTCAAGGTTTTGTCTACGGTATTGTGCCAGAGAAAGGAAAACCAGTAACAGGTTCTTCAGAAAGCTTGCGTGAATGGTGGAAAGAACAAGTCAAATTCAGTCAAAATGCACCGGATGCAGTTTCCAAACACTTCCCATCATCCCTCTTTGAAAATCAACAAGAGTTGGAATTATTAGATCCAATTTCATCATATATGCATTTACTTTATGACTTGCAAGATACTACTTTAGGTTCTCTTCTTTCAGCTCTAATGCAACACTGTGTACCACCACAAAGAAGATTCCCTCTTGAAATAGGTTTGGCTCCTCCATGGTGGCCTAATGGAACAGAACAGTAG
Protein sequence

>MS.gene57429.t1

MVEITEENESFDQQKEEEIDYDELKKRMWKDRILLQKLKGKGKKDDQQNQQAKDEASRRKKMSRAQDSILKYMMKIMTICKAQGFVYGIVPEKGKPVTGSSESLREWWKEQVKFSQNAPDAVSKHFPSSLFENQQELELLDPISSYMHLLYDLQDTTLGSLLSALMQHCVPPQRRFPLEIGLAPPWWPNGTEQ