AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035214

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035214 MtrunA17_Chr7g0214511 82.333 300 26 5 6 299 9 287 2.01e-165 461
MsaG035214 MtrunA17_Chr1g0174001 57.868 197 61 8 112 299 12 195 1.31e-59 189
MsaG035214 MtrunA17_Chr1g0169521 49.042 261 86 8 56 299 86 316 3.36e-58 189
MsaG035214 MtrunA17_Chr1g0193731 44.681 329 93 14 12 299 15 295 3.41e-57 186
MsaG035214 MtrunA17_Chr1g0169561 48.872 266 86 11 52 299 83 316 6.45e-57 186
MsaG035214 MtrunA17_Chr1g0180581 44.637 289 83 12 11 299 9 220 1.32e-49 164
MsaG035214 MtrunA17_Chr1g0174871 34.981 263 119 12 68 298 42 284 1.36e-20 89.4
MsaG035214 MtrunA17_Chr1g0174861 35.979 189 90 9 84 265 60 224 1.65e-19 85.9
MsaG035214 MtrunA17_Chr1g0180571 76.000 50 12 0 245 294 23 72 6.47e-17 75.9
MsaG035214 MtrunA17_Chr1g0172961 31.641 256 100 13 68 281 42 264 1.90e-13 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAATCACCGTGGCGCTAAA+AGG 0.215611 7:+9079416 MsaT035214.1:CDS
TTCTTGGTGTTGTAGAATAT+TGG 0.276502 7:-9079271 None:intergenic
TCGACGCGGCCACCGTTTCT+TGG 0.295021 7:-9079287 None:intergenic
TTCTGTTCTTGGTAATCATA+AGG 0.363019 7:+9079075 MsaT035214.1:CDS
ATCGCTCCCTTCAAAATTCC+AGG 0.381362 7:+9078924 MsaT035214.1:CDS
CAAAGCATTGAATGGACATA+AGG 0.388435 7:+9079174 MsaT035214.1:CDS
TATATCTCGCGGAGGTTATG+AGG 0.390309 7:+9079372 MsaT035214.1:CDS
AGTACTTTGAACAGTCAATA+TGG 0.393472 7:-9079243 None:intergenic
ATGAAGGTGTTACTGAATTA+CGG 0.397456 7:+9079671 MsaT035214.1:CDS
GCATCATTAGTTGTTGAAGA+TGG 0.413813 7:-9079004 None:intergenic
ACTTCTAACAAAGCATTGAA+TGG 0.414800 7:+9079166 MsaT035214.1:CDS
ATAGCATGATTAGAGATAGA+AGG 0.417064 7:-9079631 None:intergenic
GAAGATGGTGGTGCAGTTTG+TGG 0.454649 7:-9079208 None:intergenic
GAATAGGGTTTGAGTAATCA+AGG 0.456225 7:-9078964 None:intergenic
CATCATTAGTTGTTGAAGAT+GGG 0.456727 7:-9079003 None:intergenic
TTGAGGTTCAAGATTCCTAA+TGG 0.459819 7:+9079574 MsaT035214.1:CDS
AAAGCATTGAATGGACATAA+GGG 0.470952 7:+9079175 MsaT035214.1:CDS
GAATCACCGTGGCGCTAAAA+GGG 0.488695 7:+9079417 MsaT035214.1:CDS
TAATCAAGGAAACGGAAAGA+AGG 0.496330 7:-9078950 None:intergenic
GTCAATATGGCTCTGTTCAA+AGG 0.497478 7:-9079230 None:intergenic
TCTTCAACAACTAATGATGC+TGG 0.499426 7:+9079007 MsaT035214.1:CDS
GGAGCGATGATAAACATCAT+TGG 0.502169 7:-9078909 None:intergenic
GAAGAGAAGAAGATTAATGA+AGG 0.510676 7:+9079655 MsaT035214.1:CDS
TCAAACATCACAAGATTGCA+AGG 0.513757 7:+9079606 MsaT035214.1:CDS
CTCATGTGATGTTTGCAACA+AGG 0.516766 7:+9079138 MsaT035214.1:CDS
TTGGTGTTGTAGAATATTGG+CGG 0.527171 7:-9079268 None:intergenic
AAGATGGTGGTGCAGTTTGT+GGG 0.535375 7:-9079207 None:intergenic
GAAACGGAAAGAAGGGTACC+TGG 0.540917 7:-9078942 None:intergenic
GGTTTGAGTAATCAAGGAAA+CGG 0.550662 7:-9078958 None:intergenic
TTTGGTTCATGATCATGAGA+AGG 0.562074 7:-9078884 None:intergenic
TATTCTACAACACCAAGAAA+CGG 0.562201 7:+9079275 MsaT035214.1:CDS
TAGCCACAACGAAAAGAAGT+TGG 0.564164 7:+9079549 MsaT035214.1:CDS
TCATGATCATGAGAAGGAGA+TGG 0.576941 7:-9078878 None:intergenic
TGGCTCTGTTCAAAGGAAGA+TGG 0.582600 7:-9079223 None:intergenic
AATCAAGGAAACGGAAAGAA+GGG 0.583538 7:-9078949 None:intergenic
TCATCTTCAAAATCATCACT+TGG 0.584649 7:-9079730 None:intergenic
ACAACGTGAAGAAGATCGTA+TGG 0.595118 7:+9079041 MsaT035214.1:CDS
TGATGACGAGAAGAAGAAGA+AGG 0.596781 7:+9079474 MsaT035214.1:CDS
GGCCGCGTCGAAGAAGAAGA+AGG 0.600693 7:+9079299 MsaT035214.1:CDS
ATATCTCGCGGAGGTTATGA+GGG 0.614101 7:+9079373 MsaT035214.1:CDS
CTCCTTCTTCTTCTTCGACG+CGG 0.618622 7:-9079301 None:intergenic
ACGAAAAGAAGTTGGTGTTG+AGG 0.632445 7:+9079557 MsaT035214.1:CDS
GAGAAGAAGAAGAAGGAACA+AGG 0.652931 7:+9079481 MsaT035214.1:CDS
ACTTTGTTGCATATATCTCG+CGG 0.675938 7:+9079361 MsaT035214.1:CDS
CAAGGTGTGTTGCTAACAAG+TGG 0.689736 7:+9079499 MsaT035214.1:CDS
TCTACAACACCAAGAAACGG+TGG 0.723774 7:+9079278 MsaT035214.1:CDS
CTCTGTTCAAAGGAAGATGG+TGG 0.725506 7:-9079220 None:intergenic
TTGTTGCATATATCTCGCGG+AGG 0.742758 7:+9079364 MsaT035214.1:CDS
AATATCGATGTGAATCACCG+TGG 0.797456 7:+9079406 MsaT035214.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 9078863 9079762 9078863 ID=MsaG035214
Chr7 mRNA 9078863 9079762 9078863 ID=MsaT035214.1;Parent=MsaG035214
Chr7 exon 9078863 9079762 9078863 ID=MsaT035214.1.exon1;Parent=MsaT035214.1
Chr7 CDS 9078863 9079762 9078863 ID=cds.MsaT035214.1;Parent=MsaT035214.1
Gene Sequence

>MsaT035214.1

ATGTATTCTTCATCTCCATCTCCTTCTCATGATCATGAACCAAAAACCAATGATGTTTATCATCGCTCCCTTCAAAATTCCAGGTACCCTTCTTTCCGTTTCCTTGATTACTCAAACCCTATTCAGAATGAACTCAAAAACCCATCTTCAACAACTAATGATGCTGGAAAACAACAGAACAACGTGAAGAAGATCGTATGGTTTTTTTCTTATTCTGTTCTTGGTAATCATAAGGATGTTGAAAAACAGAACAAACATACATACTCATACTCATACTCATGTGATGTTTGCAACAAGGTTTTTACTTCTAACAAAGCATTGAATGGACATAAGGGTGTTATTCACCCACAAACTGCACCACCATCTTCCTTTGAACAGAGCCATATTGACTGTTCAAAGTACTTGCCGCCAATATTCTACAACACCAAGAAACGGTGGCCGCGTCGAAGAAGAAGAAGGAGATATATGAACATTGATGATGATGTGATTGCTGCTGAAACTTTGTTGCATATATCTCGCGGAGGTTATGAGGGATCATCTGTCAATATCGATGTGAATCACCGTGGCGCTAAAAGGGAAAAAATTTCTTGCAATATGATGGATGATGATGATGATGACGAGAAGAAGAAGAAGGAACAAGGTGTGTTGCTAACAAGTGGTGATATTGATGAAACATTGAAAGATAATAGCCACAACGAAAAGAAGTTGGTGTTGAGGTTCAAGATTCCTAATGGCAAGATTTTTCAAACATCACAAGATTGCAAGGAACCTTCTATCTCTAATCATGCTATTGAAGAGAAGAAGATTAATGAAGGTGTTACTGAATTACGGTCAAAAGTTGTGAAGAATTTTGATTTGAAAGAGCTTCCAAGTGATGATTTTGAAGATGAAACTAATTAG
Protein sequence

>MsaT035214.1

MYSSSPSPSHDHEPKTNDVYHRSLQNSRYPSFRFLDYSNPIQNELKNPSSTTNDAGKQQNNVKKIVWFFSYSVLGNHKDVEKQNKHTYSYSYSCDVCNKVFTSNKALNGHKGVIHPQTAPPSSFEQSHIDCSKYLPPIFYNTKKRWPRRRRRRRYMNIDDDVIAAETLLHISRGGYEGSSVNIDVNHRGAKREKISCNMMDDDDDDEKKKKEQGVLLTSGDIDETLKDNSHNEKKLVLRFKIPNGKIFQTSQDCKEPSISNHAIEEKKINEGVTELRSKVVKNFDLKELPSDDFEDETN*