AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55123

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55123.t1 MTR_2g037790 94.737 114 6 0 1 114 271 384 5.02e-73 222
MS.gene55123.t1 MTR_2g037790 94.737 114 6 0 1 114 274 387 5.05e-73 222
MS.gene55123.t1 MTR_2g037770 64.035 114 41 0 1 114 269 382 1.63e-47 156
MS.gene55123.t1 MTR_4g127490 62.609 115 41 1 1 113 281 395 1.19e-43 146
MS.gene55123.t1 MTR_4g127490 62.609 115 41 1 1 113 279 393 1.25e-43 146
MS.gene55123.t1 MTR_4g127510 60.000 115 45 1 1 114 268 382 1.01e-40 139
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene55123.t1 AT4G25850 48.649 111 56 1 2 112 272 381 1.88e-30 111
MS.gene55123.t1 AT4G25850 48.649 111 56 1 2 112 374 483 4.86e-30 112
MS.gene55123.t1 AT4G25860 49.107 112 54 2 2 112 267 376 6.49e-30 110
MS.gene55123.t1 AT4G25860 49.107 112 54 2 2 112 273 382 8.03e-30 110
MS.gene55123.t1 AT5G57240 46.847 111 58 1 2 112 267 376 2.21e-28 106
MS.gene55123.t1 AT5G57240 46.847 111 58 1 2 112 267 376 2.21e-28 106
MS.gene55123.t1 AT5G57240 46.847 111 58 1 2 112 267 376 2.21e-28 106
MS.gene55123.t1 AT5G57240 38.235 136 58 2 2 112 267 401 4.12e-23 92.4
MS.gene55123.t1 AT5G57240 38.235 136 58 2 2 112 267 401 4.12e-23 92.4

Find 26 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAGTCAAAAGGGGAAAAT+TGG 0.244583 2.2:+49883029 MS.gene55123:CDS
CTCCCAATCTTTGCTCACTA+TGG 0.252137 2.2:-49882948 None:intergenic
TGAGAGAAAGAGAGTCAAAA+GGG 0.401034 2.2:+49883020 MS.gene55123:CDS
AAGCCATAGTGAGCAAAGAT+TGG 0.422393 2.2:+49882945 MS.gene55123:CDS
GATGCAACAGAAGTCATTAC+AGG 0.426868 2.2:+49882504 MS.gene55123:CDS
CAACTGAATCAGTCCATGTT+TGG 0.435715 2.2:+49882909 MS.gene55123:CDS
GCTGATACACAATTATGAAT+AGG 0.438774 2.2:-49883106 None:intergenic
TCCTATTCTCAAGGATGAAA+AGG 0.450048 2.2:+49882536 MS.gene55123:CDS
ATACAGTTATAGTGCTATGA+TGG 0.458426 2.2:-49883134 None:intergenic
AATCTTTGCTCACTATGGCT+TGG 0.464074 2.2:-49882943 None:intergenic
ATGAGAGAAAGAGAGTCAAA+AGG 0.479291 2.2:+49883019 MS.gene55123:CDS
TAAGACACTACAAAATGCTT+AGG 0.503999 2.2:-49883055 None:intergenic
GTGTCTTACAGCAAAGAAGT+AGG 0.518798 2.2:+49883070 MS.gene55123:CDS
AGCCATAGTGAGCAAAGATT+GGG 0.529797 2.2:+49882946 MS.gene55123:CDS
GGCTCAATCCACTCCAAACA+TGG 0.533477 2.2:-49882922 None:intergenic
TACAGTTATAGTGCTATGAT+GGG 0.582117 2.2:-49883133 None:intergenic
GAATCAGTCCATGTTTGGAG+TGG 0.585089 2.2:+49882914 MS.gene55123:CDS
AGAAGCAAAGCAAGTAGTGG+AGG 0.598100 2.2:+49882979 MS.gene55123:CDS
TGTCTTACAGCAAAGAAGTA+GGG 0.612901 2.2:+49883071 MS.gene55123:CDS
GCTACACGCTCCTATTCTCA+AGG 0.614093 2.2:+49882527 MS.gene55123:CDS
GAGAGAAAGAGAGTCAAAAG+GGG 0.622501 2.2:+49883021 MS.gene55123:CDS
TTACAGCAAAGAAGTAGGGT+GGG 0.627243 2.2:+49883075 MS.gene55123:CDS
ATGCAACAGAAGTCATTACA+GGG 0.634742 2.2:+49882505 MS.gene55123:CDS
AAGAGAAGCAAAGCAAGTAG+TGG 0.643248 2.2:+49882976 MS.gene55123:CDS
CAAACATGGACTGATTCAGT+TGG 0.644849 2.2:-49882908 None:intergenic
CTTACAGCAAAGAAGTAGGG+TGG 0.650854 2.2:+49883074 MS.gene55123:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTTTAATTATTTCATTTA+TGG + chr2.2:49882575-49882594 MS.gene55123:intron 10.0%
!! TAACAAATAAAAGCAAATTC+AGG + chr2.2:49882630-49882649 MS.gene55123:intron 20.0%
!! TAATAAACAAAAGAGTTTCA+TGG - chr2.2:49882878-49882897 None:intergenic 20.0%
! AATACTGACACATATAACAA+TGG - chr2.2:49882801-49882820 None:intergenic 25.0%
! AATGATAACAAGAGAGAAAT+TGG - chr2.2:49882602-49882621 None:intergenic 25.0%
! CAAATTGAAGTTGTATCTAA+TGG + chr2.2:49882710-49882729 MS.gene55123:intron 25.0%
!! TCTCTCTTGTTATCATTTAT+AGG + chr2.2:49882605-49882624 MS.gene55123:intron 25.0%
!!! CTTTTGTTTATTAGAGTGTA+TGG + chr2.2:49882885-49882904 MS.gene55123:intron 25.0%
GCTGATACACAATTATGAAT+AGG - chr2.2:49883109-49883128 None:intergenic 30.0%
TAAGACACTACAAAATGCTT+AGG - chr2.2:49883058-49883077 None:intergenic 30.0%
ATGAGAGAAAGAGAGTCAAA+AGG + chr2.2:49883019-49883038 MS.gene55123:CDS 35.0%
ATGCAACAGAAGTCATTACA+GGG + chr2.2:49882505-49882524 MS.gene55123:CDS 35.0%
TCCTATTCTCAAGGATGAAA+AGG + chr2.2:49882536-49882555 MS.gene55123:CDS 35.0%
TGAGAGAAAGAGAGTCAAAA+GGG + chr2.2:49883020-49883039 MS.gene55123:CDS 35.0%
TGTCTTACAGCAAAGAAGTA+GGG + chr2.2:49883071-49883090 MS.gene55123:CDS 35.0%
! ACCTTTTCATCCTTGAGAAT+AGG - chr2.2:49882540-49882559 None:intergenic 35.0%
AAGAGAAGCAAAGCAAGTAG+TGG + chr2.2:49882976-49882995 MS.gene55123:CDS 40.0%
AAGCCATAGTGAGCAAAGAT+TGG + chr2.2:49882945-49882964 MS.gene55123:CDS 40.0%
AATCTTTGCTCACTATGGCT+TGG - chr2.2:49882946-49882965 None:intergenic 40.0%
AGCCATAGTGAGCAAAGATT+GGG + chr2.2:49882946-49882965 MS.gene55123:CDS 40.0%
CAACTGAATCAGTCCATGTT+TGG + chr2.2:49882909-49882928 MS.gene55123:CDS 40.0%
GAGAGAAAGAGAGTCAAAAG+GGG + chr2.2:49883021-49883040 MS.gene55123:CDS 40.0%
GAGAGTCAAAAGGGGAAAAT+TGG + chr2.2:49883029-49883048 MS.gene55123:CDS 40.0%
GATGCAACAGAAGTCATTAC+AGG + chr2.2:49882504-49882523 MS.gene55123:CDS 40.0%
GTGTCTTACAGCAAAGAAGT+AGG + chr2.2:49883070-49883089 MS.gene55123:CDS 40.0%
TTACAGCAAAGAAGTAGGGT+GGG + chr2.2:49883075-49883094 MS.gene55123:CDS 40.0%
! CAAACATGGACTGATTCAGT+TGG - chr2.2:49882911-49882930 None:intergenic 40.0%
AGAAGCAAAGCAAGTAGTGG+AGG + chr2.2:49882979-49882998 MS.gene55123:CDS 45.0%
CTCCCAATCTTTGCTCACTA+TGG - chr2.2:49882951-49882970 None:intergenic 45.0%
CTTACAGCAAAGAAGTAGGG+TGG + chr2.2:49883074-49883093 MS.gene55123:CDS 45.0%
GAATCAGTCCATGTTTGGAG+TGG + chr2.2:49882914-49882933 MS.gene55123:CDS 45.0%
GCTACACGCTCCTATTCTCA+AGG + chr2.2:49882527-49882546 MS.gene55123:CDS 50.0%
GGCTCAATCCACTCCAAACA+TGG - chr2.2:49882925-49882944 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 49882465 49883150 49882465 ID=MS.gene55123
chr2.2 mRNA 49882465 49883150 49882465 ID=MS.gene55123.t1;Parent=MS.gene55123
chr2.2 exon 49882465 49882557 49882465 ID=MS.gene55123.t1.exon1;Parent=MS.gene55123.t1
chr2.2 CDS 49882465 49882557 49882465 ID=cds.MS.gene55123.t1;Parent=MS.gene55123.t1
chr2.2 exon 49882899 49883150 49882899 ID=MS.gene55123.t1.exon2;Parent=MS.gene55123.t1
chr2.2 CDS 49882899 49883150 49882899 ID=cds.MS.gene55123.t1;Parent=MS.gene55123.t1
Gene Sequence

>MS.gene55123

ATGAAGGATAGAAAAAATGGTAAAGTTACAGTGATATATGATGCAACAGAAGTCATTACAGGGCTACACGCTCCTATTCTCAAGGATGAAAAGGTACTAAAATCAATTCACTTTTTAATTATTTCATTTATGGACCAATTTCTCTCTTGTTATCATTTATAGGACTAACAAATAAAAGCAAATTCAGGTACATACAAACAAATCAAACATTTAAATTTATGTAGTGTATTATAGCACTAACACTTCAAATTGAAGTTGTATCTAATGGCAATGACACGTGATTATATTCAATAAATTTATTTTTTGAAATTATTATAATGTGTCGATGACGTGCCATTGTTATATGTGTCAGTATTATATGAATTAAACTTTTTATTTAAGTAATTAAGTGACATGTTTTGCTGAATGTGCCATGAAACTCTTTTGTTTATTAGAGTGTATGGCCAACTGAATCAGTCCATGTTTGGAGTGGATTGAGCCAAGCCATAGTGAGCAAAGATTGGGAGAAAGCAAGAGAAGCAAAGCAAGTAGTGGAGGAGAGACAAAGAGAGCTCATGAGAGAAAGAGAGTCAAAAGGGGAAAATTGGATTCCTAAGCATTTTGTAGTGTCTTACAGCAAAGAAGTAGGGTGGGACTGTACACCTATTCATAATTGTGTATCAGCTGCTCCCATCATAGCACTATAA
Protein sequence

>MS.gene55123.t1

MKDRKNGKVTVIYDATEVITGLHAPILKDEKSVWPTESVHVWSGLSQAIVSKDWEKAREAKQVVEERQRELMRERESKGENWIPKHFVVSYSKEVGWDCTPIHNCVSAAPIIAL