AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60324

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60324.t1 MTR_4g107170 90.625 256 23 1 1 256 1 255 3.74e-174 480
MS.gene60324.t1 MTR_4g045977 53.710 283 91 3 1 256 1 270 8.86e-97 289
MS.gene60324.t1 MTR_2g049610 44.309 246 100 5 1 243 1 212 9.80e-61 192
MS.gene60324.t1 MTR_2g049630 47.449 196 96 5 1 191 1 194 1.47e-52 175
MS.gene60324.t1 MTR_2g049530 50.617 162 77 3 3 162 5 165 4.26e-48 158
MS.gene60324.t1 MTR_1g115290 61.538 117 43 1 38 152 2 118 3.55e-44 146
MS.gene60324.t1 MTR_6g018920 39.355 155 91 1 1 152 1 155 2.30e-36 132
MS.gene60324.t1 MTR_1g114730 42.581 155 86 1 1 152 1 155 3.08e-36 131
MS.gene60324.t1 MTR_6g005440 38.462 156 93 1 1 153 1 156 3.26e-34 125
MS.gene60324.t1 MTR_6g005450 36.774 155 95 1 1 152 1 155 1.25e-29 114
MS.gene60324.t1 MTR_3g466980 30.882 136 88 4 1 135 1 131 6.96e-14 69.3
MS.gene60324.t1 MTR_3g031240 33.645 107 69 1 1 107 1 105 7.59e-14 68.2
MS.gene60324.t1 MTR_2g016210 28.966 145 92 3 2 138 3 144 8.92e-14 69.3
MS.gene60324.t1 MTR_5g075380 32.075 106 68 3 1 105 1 103 1.97e-11 61.2
MS.gene60324.t1 MTR_3g031100 28.972 107 72 3 1 106 1 104 9.96e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60324.t1 AT5G55690 31.126 151 93 2 1 147 1 144 1.98e-16 77.4
MS.gene60324.t1 AT5G55690 31.126 151 93 2 1 147 1 144 1.98e-16 77.4
MS.gene60324.t1 AT1G22590 35.849 106 64 3 1 105 1 103 6.33e-11 59.7

Find 40 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTACACTTGTAAGGTCTTC+TGG 0.270047 8.2:+18867708 None:intergenic
TCCTGAGATATTTGATGTTA+AGG 0.348371 8.2:-18867643 MS.gene60324:CDS
GTCAACCTGATGAGTTTGTT+TGG 0.385592 8.2:-18867158 MS.gene60324:CDS
AGCCCACTAAGTTGGTTTGA+TGG 0.416723 8.2:+18867348 None:intergenic
ACCATCTCACTTGTATAATC+AGG 0.418843 8.2:+18867297 None:intergenic
GATCAACAAGTTGACTAAGT+TGG 0.422061 8.2:+18867229 None:intergenic
GCAAGGAGTTTACACTTGTA+AGG 0.440354 8.2:+18867700 None:intergenic
AGTTGGTTTGCTGATGAACT+TGG 0.448642 8.2:+18867246 None:intergenic
AGTTGGTTTGATGGTGAACT+AGG 0.459766 8.2:+18867357 None:intergenic
TCTTTCCAAACAAACTCATC+AGG 0.470431 8.2:+18867153 None:intergenic
CTAAAATGTGGATGCCAAGT+TGG 0.479466 8.2:+18867543 None:intergenic
TAAAATGTGGATGCCAAGTT+GGG 0.491000 8.2:+18867544 None:intergenic
GCTTGCTTTATTGTGTATGA+TGG 0.491871 8.2:-18867762 MS.gene60324:CDS
TCCTTAACATCAAATATCTC+AGG 0.501707 8.2:+18867642 None:intergenic
TCTCCACAAGCCCACTAAGT+TGG 0.502348 8.2:+18867340 None:intergenic
CTTTGAAAATAAGATAGAAA+AGG 0.507369 8.2:-18867616 MS.gene60324:CDS
TTGTAAGAAGTCTGGAGCAA+AGG 0.512867 8.2:-18867784 MS.gene60324:CDS
AACTTGTTGATCTTGATGAC+TGG 0.515181 8.2:-18867218 MS.gene60324:CDS
AGGTCTTCTGGCCATGTCGT+TGG 0.516955 8.2:+18867720 None:intergenic
TCACCATCAAACCAACTTAG+TGG 0.519319 8.2:-18867351 MS.gene60324:CDS
AAACCAACTTAGTGGGCTTG+TGG 0.552156 8.2:-18867343 MS.gene60324:CDS
ATGGTGGATTTCACTAGTCT+TGG 0.561616 8.2:-18867279 MS.gene60324:CDS
ACTTTCAAACAGAGAAAGCA+TGG 0.566683 8.2:-18867831 MS.gene60324:CDS
TCATCCAAGTTACTAAAATG+TGG 0.567439 8.2:+18867531 None:intergenic
TGGTTTGCTGATGAACTTGG+AGG 0.570787 8.2:+18867249 None:intergenic
TCAGTAAGATCTACCCAACT+TGG 0.575658 8.2:-18867557 MS.gene60324:CDS
TATAATCAGGATCAACAACT+TGG 0.576059 8.2:+18867310 None:intergenic
CACCATCAAACCAACTTAGT+GGG 0.576425 8.2:-18867350 MS.gene60324:CDS
AGTGGGCTTGTGGAGAGGAA+TGG 0.577682 8.2:-18867333 MS.gene60324:CDS
ATTCTGATACTCTTGAAGCA+AGG 0.580425 8.2:+18867683 None:intergenic
AACTTAGTGGGCTTGTGGAG+AGG 0.584533 8.2:-18867338 MS.gene60324:CDS
TGATTATACAAGTGAGATGG+TGG 0.591946 8.2:-18867295 MS.gene60324:CDS
ACAAATAGAAACTAGCACCT+TGG 0.593239 8.2:-18867424 MS.gene60324:CDS
TGGTTTGATGGTGAACTAGG+AGG 0.598871 8.2:+18867360 None:intergenic
AAACAAAGATTAACAAAGTG+CGG 0.604618 8.2:-18867590 MS.gene60324:CDS
AATCATCTCACATATATCCA+AGG 0.609547 8.2:+18867407 None:intergenic
TGGATAAATCAATTAGATGA+TGG 0.616770 8.2:-18867198 MS.gene60324:CDS
ATAATGTTGAACCAACGACA+TGG 0.647240 8.2:-18867731 MS.gene60324:CDS
TCCTGATTATACAAGTGAGA+TGG 0.678910 8.2:-18867298 MS.gene60324:CDS
AAGTTGGGTAGATCTTACTG+AGG 0.750378 8.2:+18867559 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTGAAAATAAGATAGAAA+AGG - chr8.2:18867412-18867431 MS.gene60324:CDS 20.0%
! AAACAAAGATTAACAAAGTG+CGG - chr8.2:18867438-18867457 MS.gene60324:CDS 25.0%
! TGGATAAATCAATTAGATGA+TGG - chr8.2:18867830-18867849 MS.gene60324:CDS 25.0%
!! TTTTCAACATGCTAATTTTG+TGG + chr8.2:18867577-18867596 None:intergenic 25.0%
!!! ATGATTGATTTTTCTGATCT+TGG - chr8.2:18867638-18867657 MS.gene60324:CDS 25.0%
AATCATCTCACATATATCCA+AGG + chr8.2:18867624-18867643 None:intergenic 30.0%
TATAATCAGGATCAACAACT+TGG + chr8.2:18867721-18867740 None:intergenic 30.0%
TCATCCAAGTTACTAAAATG+TGG + chr8.2:18867500-18867519 None:intergenic 30.0%
TCCTGAGATATTTGATGTTA+AGG - chr8.2:18867385-18867404 MS.gene60324:CDS 30.0%
TCCTTAACATCAAATATCTC+AGG + chr8.2:18867389-18867408 None:intergenic 30.0%
! GCATTTTGGATGTATTTCAT+AGG + chr8.2:18867161-18867180 None:intergenic 30.0%
! TCTGAATTTTGTAAGAAGTC+TGG - chr8.2:18867236-18867255 MS.gene60324:CDS 30.0%
ACAAATAGAAACTAGCACCT+TGG - chr8.2:18867604-18867623 MS.gene60324:CDS 35.0%
ACCATCTCACTTGTATAATC+AGG + chr8.2:18867734-18867753 None:intergenic 35.0%
ACTTTCAAACAGAGAAAGCA+TGG - chr8.2:18867197-18867216 MS.gene60324:CDS 35.0%
ATAATGTTGAACCAACGACA+TGG - chr8.2:18867297-18867316 MS.gene60324:CDS 35.0%
ATTCTGATACTCTTGAAGCA+AGG + chr8.2:18867348-18867367 None:intergenic 35.0%
TAAAATGTGGATGCCAAGTT+GGG + chr8.2:18867487-18867506 None:intergenic 35.0%
TCCTGATTATACAAGTGAGA+TGG - chr8.2:18867730-18867749 MS.gene60324:CDS 35.0%
TCTTTCCAAACAAACTCATC+AGG + chr8.2:18867878-18867897 None:intergenic 35.0%
TGATTATACAAGTGAGATGG+TGG - chr8.2:18867733-18867752 MS.gene60324:CDS 35.0%
TTTACACTTGTAAGGTCTTC+TGG + chr8.2:18867323-18867342 None:intergenic 35.0%
! GATCAACAAGTTGACTAAGT+TGG + chr8.2:18867802-18867821 None:intergenic 35.0%
! GCTTGCTTTATTGTGTATGA+TGG - chr8.2:18867266-18867285 MS.gene60324:CDS 35.0%
! GTTTGCGAGATTTTGCATTT+TGG + chr8.2:18867175-18867194 None:intergenic 35.0%
!! AACTTGTTGATCTTGATGAC+TGG - chr8.2:18867810-18867829 MS.gene60324:CDS 35.0%
!! GCATCCACATTTTAGTAACT+TGG - chr8.2:18867493-18867512 MS.gene60324:CDS 35.0%
AAGTTGGGTAGATCTTACTG+AGG + chr8.2:18867472-18867491 None:intergenic 40.0%
CACCATCAAACCAACTTAGT+GGG - chr8.2:18867678-18867697 MS.gene60324:CDS 40.0%
CTAAAATGTGGATGCCAAGT+TGG + chr8.2:18867488-18867507 None:intergenic 40.0%
GCAAGGAGTTTACACTTGTA+AGG + chr8.2:18867331-18867350 None:intergenic 40.0%
TCACCATCAAACCAACTTAG+TGG - chr8.2:18867677-18867696 MS.gene60324:CDS 40.0%
TCAGTAAGATCTACCCAACT+TGG - chr8.2:18867471-18867490 MS.gene60324:CDS 40.0%
! GTCAACCTGATGAGTTTGTT+TGG - chr8.2:18867870-18867889 MS.gene60324:CDS 40.0%
! TTGTAAGAAGTCTGGAGCAA+AGG - chr8.2:18867244-18867263 MS.gene60324:CDS 40.0%
!! AGATGATGGTGTTTTGTGCT+GGG - chr8.2:18867844-18867863 MS.gene60324:CDS 40.0%
!! AGTTGGTTTGATGGTGAACT+AGG + chr8.2:18867674-18867693 None:intergenic 40.0%
!! AGTTGGTTTGCTGATGAACT+TGG + chr8.2:18867785-18867804 None:intergenic 40.0%
!! ATGGTGGATTTCACTAGTCT+TGG - chr8.2:18867749-18867768 MS.gene60324:CDS 40.0%
!! TAGATGATGGTGTTTTGTGC+TGG - chr8.2:18867843-18867862 MS.gene60324:CDS 40.0%
!! AAACCAACTTAGTGGGCTTG+TGG - chr8.2:18867685-18867704 MS.gene60324:CDS 45.0%
!! AGCCCACTAAGTTGGTTTGA+TGG + chr8.2:18867683-18867702 None:intergenic 45.0%
!! TGGTTTGATGGTGAACTAGG+AGG + chr8.2:18867671-18867690 None:intergenic 45.0%
!! TGGTTTGCTGATGAACTTGG+AGG + chr8.2:18867782-18867801 None:intergenic 45.0%
TCTCCACAAGCCCACTAAGT+TGG + chr8.2:18867691-18867710 None:intergenic 50.0%
!! AACTTAGTGGGCTTGTGGAG+AGG - chr8.2:18867690-18867709 MS.gene60324:CDS 50.0%
AGGTCTTCTGGCCATGTCGT+TGG + chr8.2:18867311-18867330 None:intergenic 55.0%
! AGTGGGCTTGTGGAGAGGAA+TGG - chr8.2:18867695-18867714 MS.gene60324:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 18867140 18867910 18867140 ID=MS.gene60324
chr8.2 mRNA 18867140 18867910 18867140 ID=MS.gene60324.t1;Parent=MS.gene60324
chr8.2 exon 18867140 18867910 18867140 ID=MS.gene60324.t1.exon1;Parent=MS.gene60324.t1
chr8.2 CDS 18867140 18867910 18867140 ID=cds.MS.gene60324.t1;Parent=MS.gene60324.t1
Gene Sequence

>MS.gene60324

ATGGGTCGCGCAAAAATACCTATGAAATACATCCAAAATGCAAAATCTCGCAAACTAACTTTCAAACAGAGAAAGCATGGATTAGAAAAGAAAATTTCTGAATTTTGTAAGAAGTCTGGAGCAAAGGCTTGCTTTATTGTGTATGATGGTGATCATAATAATGTTGAACCAACGACATGGCCAGAAGACCTTACAAGTGTAAACTCCTTGCTTCAAGAGTATCAGAATCAAAAGATTGAGAAAACTCCTGAGATATTTGATGTTAAGGACTACTTTGAAAATAAGATAGAAAAGGTTGAAACAAAGATTAACAAAGTGCGGAGAGATATCCTCAGTAAGATCTACCCAACTTGGCATCCACATTTTAGTAACTTGGATGAGAATCAACTCAGAGACTTCATTGCTACAATAAATGCTAAGATTCAAGCTTGCAACCACAAAATTAGCATGTTGAAAAACATGCAACAAATAGAAACTAGCACCTTGGATATATGTGAGATGATTGATTTTTCTGATCTTGGTGATTTTCCTCCTAGTTCACCATCAAACCAACTTAGTGGGCTTGTGGAGAGGAATGGCCAAGTTGTTGATCCTGATTATACAAGTGAGATGGTGGATTTCACTAGTCTTGGTGATTTGCCTCCAAGTTCATCAGCAAACCAACTTAGTCAACTTGTTGATCTTGATGACTGGATAAATCAATTAGATGATGGTGTTTTGTGCTGGGATTGTCAACCTGATGAGTTTGTTTGGAAAGATCTTTCTTTTTAA
Protein sequence

>MS.gene60324.t1

MGRAKIPMKYIQNAKSRKLTFKQRKHGLEKKISEFCKKSGAKACFIVYDGDHNNVEPTTWPEDLTSVNSLLQEYQNQKIEKTPEIFDVKDYFENKIEKVETKINKVRRDILSKIYPTWHPHFSNLDENQLRDFIATINAKIQACNHKISMLKNMQQIETSTLDICEMIDFSDLGDFPPSSPSNQLSGLVERNGQVVDPDYTSEMVDFTSLGDLPPSSSANQLSQLVDLDDWINQLDDGVLCWDCQPDEFVWKDLSF