AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67194

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67194.t1 MTR_1g074990 97.333 150 4 0 1 150 101 250 1.17e-98 297
MS.gene67194.t1 MTR_1g075095 89.333 150 16 0 1 150 103 252 2.45e-89 273
MS.gene67194.t1 MTR_1g075030 86.000 150 21 0 1 150 103 252 1.98e-85 263
MS.gene67194.t1 MTR_1g075230 83.333 150 25 0 1 150 101 250 2.67e-74 234
MS.gene67194.t1 MTR_1g074950 66.667 150 50 0 1 150 102 251 1.54e-62 203
MS.gene67194.t1 MTR_1g040360 37.086 151 88 2 1 150 106 250 1.85e-28 109
MS.gene67194.t1 MTR_3g075450 37.671 146 89 1 1 146 108 251 7.95e-25 99.4
MS.gene67194.t1 MTR_8g089660 35.417 144 88 3 1 142 101 241 9.48e-17 76.3
MS.gene67194.t1 MTR_1g075153 37.405 131 65 3 12 138 108 225 9.60e-17 76.3
MS.gene67194.t1 MTR_7g032660 38.406 138 83 1 11 148 118 253 1.99e-16 75.5
MS.gene67194.t1 MTR_1g075180 29.197 137 79 4 7 138 80 203 1.88e-13 67.0
MS.gene67194.t1 MTR_1g075170 31.818 132 77 2 9 138 109 229 9.20e-13 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67194.t1 AT3G01680 36.486 148 81 2 9 147 116 259 7.13e-23 94.0
MS.gene67194.t1 AT3G01670 31.538 130 79 3 14 142 261 381 3.24e-11 60.5
MS.gene67194.t1 AT3G01670 31.538 130 79 3 14 142 237 357 3.26e-11 60.5

Find 31 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCTTGAGTATGGAGATTTC+TGG 0.121043 1.2:+57798383 MS.gene67194:CDS
AAAACATCGCAATGAAATTT+TGG 0.167607 1.2:+57798498 MS.gene67194:CDS
AATTCCCAGTTGATGTATAT+TGG 0.204655 1.2:+57798638 MS.gene67194:CDS
CTTGATTATGCCTAATGATT+TGG 0.255438 1.2:-57798440 None:intergenic
TCCAGCTCTTGCACCAGCTT+TGG 0.314260 1.2:+57798612 MS.gene67194:CDS
ATTCCCAGTTGATGTATATT+GGG 0.322317 1.2:+57798639 MS.gene67194:CDS
ATAACCCAATATACATCAAC+TGG 0.359445 1.2:-57798643 None:intergenic
AAAACCTGTCAAACTATTCA+TGG 0.362097 1.2:+57798326 MS.gene67194:CDS
GAACCACTTGCCAAATCATT+AGG 0.438307 1.2:+57798430 MS.gene67194:CDS
TGGCAAGTGGTTCTGTTGGT+TGG 0.443588 1.2:-57798420 None:intergenic
GGAGCTCAACAATTTGATCA+AGG 0.463664 1.2:+57798519 MS.gene67194:CDS
TCCAAAGCTGGTGCAAGAGC+TGG 0.468376 1.2:-57798613 None:intergenic
AACTATTCATGGGTTGCAAA+AGG 0.472460 1.2:+57798337 MS.gene67194:CDS
CATTGAAATCATCATTGAGT+TGG 0.474539 1.2:+57798555 MS.gene67194:CDS
CAACCCATGAATAGTTTGAC+AGG 0.478125 1.2:-57798330 None:intergenic
TTGTAAGCTATTTCCTCACC+TGG 0.482226 1.2:-57798283 None:intergenic
ACAATTTGATCAAGGCAACT+TGG 0.492049 1.2:+57798527 MS.gene67194:CDS
ACTGGGAATTGTTCCAAAGC+TGG 0.521352 1.2:-57798625 None:intergenic
CTGAGTAACAATTGCAACAA+TGG 0.523241 1.2:-57798671 None:intergenic
ATGCCTAATGATTTGGCAAG+TGG 0.539047 1.2:-57798433 None:intergenic
GATTTGGCAAGTGGTTCTGT+TGG 0.544476 1.2:-57798424 None:intergenic
CAGATGTCATGCAAGGCACC+AGG 0.546738 1.2:+57798265 None:intergenic
AAACCTGTCAAACTATTCAT+GGG 0.575469 1.2:+57798327 MS.gene67194:CDS
GCCTCAGGCTTCGAAAGTTG+AGG 0.585790 1.2:-57798469 None:intergenic
GCCAGAAATCTCCATACTCA+AGG 0.592198 1.2:-57798384 None:intergenic
TCCTCAACTTTCGAAGCCTG+AGG 0.596055 1.2:+57798468 MS.gene67194:CDS
GTCATGCAAGGCACCAGGTG+AGG 0.600067 1.2:+57798270 MS.gene67194:CDS
CAACTCGCGTCATGACATCA+AGG 0.608552 1.2:+57798585 MS.gene67194:CDS
CCAGAAATCTCCATACTCAA+GGG 0.637724 1.2:-57798383 None:intergenic
ATGATGGCAGATGTCATGCA+AGG 0.660192 1.2:+57798258 None:intergenic
TAACCCAATATACATCAACT+GGG 0.665391 1.2:-57798642 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACATCGCAATGAAATTT+TGG + chr1.2:57798498-57798517 MS.gene67194:CDS 25.0%
!!! AATAGTTTGACAGGTTTTTT+AGG - chr1.2:57798324-57798343 None:intergenic 25.0%
AAAACCTGTCAAACTATTCA+TGG + chr1.2:57798326-57798345 MS.gene67194:CDS 30.0%
AAACCTGTCAAACTATTCAT+GGG + chr1.2:57798327-57798346 MS.gene67194:CDS 30.0%
ATAACCCAATATACATCAAC+TGG - chr1.2:57798646-57798665 None:intergenic 30.0%
CATTGAAATCATCATTGAGT+TGG + chr1.2:57798555-57798574 MS.gene67194:CDS 30.0%
CTTGATTATGCCTAATGATT+TGG - chr1.2:57798443-57798462 None:intergenic 30.0%
TAACCCAATATACATCAACT+GGG - chr1.2:57798645-57798664 None:intergenic 30.0%
! AATTCCCAGTTGATGTATAT+TGG + chr1.2:57798638-57798657 MS.gene67194:CDS 30.0%
! ATTCCCAGTTGATGTATATT+GGG + chr1.2:57798639-57798658 MS.gene67194:CDS 30.0%
ACAATTTGATCAAGGCAACT+TGG + chr1.2:57798527-57798546 MS.gene67194:CDS 35.0%
CTGAGTAACAATTGCAACAA+TGG - chr1.2:57798674-57798693 None:intergenic 35.0%
! AACTATTCATGGGTTGCAAA+AGG + chr1.2:57798337-57798356 MS.gene67194:CDS 35.0%
CAACCCATGAATAGTTTGAC+AGG - chr1.2:57798333-57798352 None:intergenic 40.0%
CCAGAAATCTCCATACTCAA+GGG - chr1.2:57798386-57798405 None:intergenic 40.0%
GAACCACTTGCCAAATCATT+AGG + chr1.2:57798430-57798449 MS.gene67194:CDS 40.0%
GGAGCTCAACAATTTGATCA+AGG + chr1.2:57798519-57798538 MS.gene67194:CDS 40.0%
! ATGCCTAATGATTTGGCAAG+TGG - chr1.2:57798436-57798455 None:intergenic 40.0%
! TTGTAAGCTATTTCCTCACC+TGG - chr1.2:57798286-57798305 None:intergenic 40.0%
!!! CGATGTTTTTTCAATGCCTC+AGG - chr1.2:57798487-57798506 None:intergenic 40.0%
ACTGGGAATTGTTCCAAAGC+TGG - chr1.2:57798628-57798647 None:intergenic 45.0%
CCCTTGAGTATGGAGATTTC+TGG + chr1.2:57798383-57798402 MS.gene67194:CDS 45.0%
GCCAGAAATCTCCATACTCA+AGG - chr1.2:57798387-57798406 None:intergenic 45.0%
! GATTTGGCAAGTGGTTCTGT+TGG - chr1.2:57798427-57798446 None:intergenic 45.0%
!! TCTGCTTTTGCCCTTGAGTA+TGG + chr1.2:57798373-57798392 MS.gene67194:CDS 45.0%
CAACTCGCGTCATGACATCA+AGG + chr1.2:57798585-57798604 MS.gene67194:CDS 50.0%
TCCTCAACTTTCGAAGCCTG+AGG + chr1.2:57798468-57798487 MS.gene67194:CDS 50.0%
! TGGCAAGTGGTTCTGTTGGT+TGG - chr1.2:57798423-57798442 None:intergenic 50.0%
GCCTCAGGCTTCGAAAGTTG+AGG - chr1.2:57798472-57798491 None:intergenic 55.0%
TCCAAAGCTGGTGCAAGAGC+TGG - chr1.2:57798616-57798635 None:intergenic 55.0%
TCCAGCTCTTGCACCAGCTT+TGG + chr1.2:57798612-57798631 MS.gene67194:CDS 55.0%
! GTCATGCAAGGCACCAGGTG+AGG + chr1.2:57798270-57798289 MS.gene67194:CDS 60.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 57798268 57798720 57798268 ID=MS.gene67194
chr1.2 mRNA 57798268 57798720 57798268 ID=MS.gene67194.t1;Parent=MS.gene67194
chr1.2 exon 57798268 57798720 57798268 ID=MS.gene67194.t1.exon1;Parent=MS.gene67194.t1
chr1.2 CDS 57798268 57798720 57798268 ID=cds.MS.gene67194.t1;Parent=MS.gene67194.t1
Gene Sequence

>MS.gene67194

ATGTCATGCAAGGCACCAGGTGAGGAAATAGCTTACAAAACAACATTAGCAATCCTAAAAAACCTGTCAAACTATTCATGGGTTGCAAAAGGAGTGCTTACTCTTTCTGCTTTTGCCCTTGAGTATGGAGATTTCTGGCTGTTATCACAGAACCAACCAACAGAACCACTTGCCAAATCATTAGGCATAATCAAGAGAGTTCCTCAACTTTCGAAGCCTGAGGCATTGAAAAAACATCGCAATGAAATTTTGGAGCTCAACAATTTGATCAAGGCAACTTGGCAAGTCATTGAAATCATCATTGAGTTGGAAAGACTCAACTCGCGTCATGACATCAAGGAAGTTCCAGCTCTTGCACCAGCTTTGGAACAATTCCCAGTTGATGTATATTGGGTTATCATCACCATTGTTGCAATTGTTACTCAGTTTGAATGTCTCACTACTAATTCGTAA
Protein sequence

>MS.gene67194.t1

MSCKAPGEEIAYKTTLAILKNLSNYSWVAKGVLTLSAFALEYGDFWLLSQNQPTEPLAKSLGIIKRVPQLSKPEALKKHRNEILELNNLIKATWQVIEIIIELERLNSRHDIKEVPALAPALEQFPVDVYWVIITIVAIVTQFECLTTNS