AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene049111


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049111.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene049111.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene049111.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene049111.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene049111.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene049111.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene049111.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene049111.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene049111.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene049111.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene049111.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene049111.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene049111.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene049111.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene049111.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene049111.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene049111.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene049111.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene049111.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene049111.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene049111.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene049111.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene049111.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene049111.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene049111.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene049111.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene049111.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene049111.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene049111.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene049111.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene049111.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene049111.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene049111.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene049111.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene049111.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene049111.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene049111.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene049111.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene049111.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene049111.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene049111.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene049111.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene049111.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene049111.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene049111.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene049111.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 41 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGATTTCTCTAACCAATCTT+TGG 0.224743 4.1:-2794473 None:intergenic
GCCGCTGAAGCTTATCTTGT+TGG 0.348800 4.1:+2794555 MS.gene049111:CDS
TTGAATATCCTTAGGCATAA+TGG 0.349539 4.1:-2794625 None:intergenic
AGCTGATTTCCGAGCGGCTT+TGG 0.356003 4.1:-2794337 None:intergenic
TCACGAAGAGCAACAGTTCC+GGG 0.371586 4.1:-2794399 None:intergenic
CTCACGAAGAGCAACAGTTC+CGG 0.390727 4.1:-2794400 None:intergenic
TTCTTCACTCCTCCGGTGGC+CGG 0.400280 4.1:-2794360 None:intergenic
GAAGCTTCCATTCCAAAGAT+TGG 0.412914 4.1:+2794461 MS.gene049111:CDS
CTTGCAAGTTGAATATCCTT+AGG 0.413826 4.1:-2794633 None:intergenic
AGGATTTCAAAACTGATCTC+AGG 0.429009 4.1:+2794499 MS.gene049111:CDS
GGATTTGCGAGCGGTTTGTT+TGG 0.441284 4.1:-2794280 None:intergenic
AGAGCACTGAGCTTCTAATC+AGG 0.457889 4.1:+2794439 MS.gene049111:CDS
TTGGTGGCGAGTTGTTTCCT+TGG 0.473034 4.1:-2794318 None:intergenic
GGCTTCTTGAAGAGCAGAAA+CGG 0.474881 4.1:-2794535 None:intergenic
TTTCCTTGGAGCTTTGCCTC+CGG 0.476973 4.1:-2794304 None:intergenic
CGGAAATCAGCTCCGGCCAC+CGG 0.487022 4.1:+2794348 MS.gene049111:CDS
CCTTGGAGCTTTGCCTCCGG+TGG 0.489182 4.1:-2794301 None:intergenic
TGATTTCCGAGCGGCTTTGG+TGG 0.495094 4.1:-2794334 None:intergenic
AGCCGCTCGGAAATCAGCTC+CGG 0.498921 4.1:+2794341 MS.gene049111:CDS
CAGTGCTCTTCTGATACTTA+CGG 0.501233 4.1:-2794425 None:intergenic
GTGTGGCTTCTTCACTCCTC+CGG 0.509508 4.1:-2794367 None:intergenic
TCTCTAACCAATCTTTGGAA+TGG 0.520211 4.1:-2794468 None:intergenic
GAGAGTTACCATTATGCCTA+AGG 0.535535 4.1:+2794617 MS.gene049111:CDS
AACTCGCCACCAAAGCCGCT+CGG 0.570459 4.1:+2794328 MS.gene049111:CDS
CCACCGGAGGCAAAGCTCCA+AGG 0.572363 4.1:+2794301 MS.gene049111:CDS
AAGAAGAATCAGAGGCGAGA+GGG 0.597241 4.1:+2794653 MS.gene049111:CDS
TGGCTTCTTCACTCCTCCGG+TGG 0.598450 4.1:-2794364 None:intergenic
AAATCAGCTCCGGCCACCGG+AGG 0.599225 4.1:+2794351 MS.gene049111:CDS
ATTGGTTAGAGAAATCGCTC+AGG 0.600201 4.1:+2794479 MS.gene049111:CDS
AGCATGAATAGCGCAAAGGT+TGG 0.613099 4.1:-2794592 None:intergenic
CAAACCGCTCGCAAATCCAC+CGG 0.629023 4.1:+2794285 MS.gene049111:CDS
GCCTCCGGTGGATTTGCGAG+CGG 0.639769 4.1:-2794289 None:intergenic
ACCGCTCGCAAATCCACCGG+AGG 0.648108 4.1:+2794288 MS.gene049111:CDS
CAAGAAGAATCAGAGGCGAG+AGG 0.648850 4.1:+2794652 MS.gene049111:CDS
AAGCCACACAGATTCCGTCC+CGG 0.653763 4.1:+2794381 MS.gene049111:CDS
TCTTAGCATGAATAGCGCAA+AGG 0.658330 4.1:-2794596 None:intergenic
CAACTTGCAAGAAGAATCAG+AGG 0.660238 4.1:+2794645 MS.gene049111:CDS
ACCAACAAGATAAGCTTCAG+CGG 0.667251 4.1:-2794556 None:intergenic
GAAGAGCAACAGTTCCGGGA+CGG 0.670696 4.1:-2794395 None:intergenic
GTTCCGGGACGGAATCTGTG+TGG 0.693886 4.1:-2794384 None:intergenic
GGCCGGAGCTGATTTCCGAG+CGG 0.718116 4.1:-2794343 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGAATATCCTTAGGCATAA+TGG - chr4.1:2794628-2794647 None:intergenic 30.0%
AGGATTTCAAAACTGATCTC+AGG + chr4.1:2794499-2794518 MS.gene049111:CDS 35.0%
CGATTTCTCTAACCAATCTT+TGG - chr4.1:2794476-2794495 None:intergenic 35.0%
! CTTGCAAGTTGAATATCCTT+AGG - chr4.1:2794636-2794655 None:intergenic 35.0%
! TCTCTAACCAATCTTTGGAA+TGG - chr4.1:2794471-2794490 None:intergenic 35.0%
ACCAACAAGATAAGCTTCAG+CGG - chr4.1:2794559-2794578 None:intergenic 40.0%
ATTGGTTAGAGAAATCGCTC+AGG + chr4.1:2794479-2794498 MS.gene049111:CDS 40.0%
CAACTTGCAAGAAGAATCAG+AGG + chr4.1:2794645-2794664 MS.gene049111:CDS 40.0%
CAGTGCTCTTCTGATACTTA+CGG - chr4.1:2794428-2794447 None:intergenic 40.0%
GAAGCTTCCATTCCAAAGAT+TGG + chr4.1:2794461-2794480 MS.gene049111:CDS 40.0%
GAGAGTTACCATTATGCCTA+AGG + chr4.1:2794617-2794636 MS.gene049111:CDS 40.0%
TCTTAGCATGAATAGCGCAA+AGG - chr4.1:2794599-2794618 None:intergenic 40.0%
AAGAAGAATCAGAGGCGAGA+GGG + chr4.1:2794653-2794672 MS.gene049111:CDS 45.0%
AGCATGAATAGCGCAAAGGT+TGG - chr4.1:2794595-2794614 None:intergenic 45.0%
GGCTTCTTGAAGAGCAGAAA+CGG - chr4.1:2794538-2794557 None:intergenic 45.0%
!! AGAGCACTGAGCTTCTAATC+AGG + chr4.1:2794439-2794458 MS.gene049111:CDS 45.0%
CAAGAAGAATCAGAGGCGAG+AGG + chr4.1:2794652-2794671 MS.gene049111:CDS 50.0%
CTCACGAAGAGCAACAGTTC+CGG - chr4.1:2794403-2794422 None:intergenic 50.0%
GCCGCTGAAGCTTATCTTGT+TGG + chr4.1:2794555-2794574 MS.gene049111:CDS 50.0%
TCACGAAGAGCAACAGTTCC+GGG - chr4.1:2794402-2794421 None:intergenic 50.0%
TTTCCTTGGAGCTTTGCCTC+CGG - chr4.1:2794307-2794326 None:intergenic 50.0%
! GGATTTGCGAGCGGTTTGTT+TGG - chr4.1:2794283-2794302 None:intergenic 50.0%
!! TTGGTGGCGAGTTGTTTCCT+TGG - chr4.1:2794321-2794340 None:intergenic 50.0%
AAGCCACACAGATTCCGTCC+CGG + chr4.1:2794381-2794400 MS.gene049111:CDS 55.0%
CAAACCGCTCGCAAATCCAC+CGG + chr4.1:2794285-2794304 MS.gene049111:CDS 55.0%
GAAGAGCAACAGTTCCGGGA+CGG - chr4.1:2794398-2794417 None:intergenic 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.1:2794370-2794389 None:intergenic 55.0%
! AGCTGATTTCCGAGCGGCTT+TGG - chr4.1:2794340-2794359 None:intergenic 55.0%
! TGATTTCCGAGCGGCTTTGG+TGG - chr4.1:2794337-2794356 None:intergenic 55.0%
AACTCGCCACCAAAGCCGCT+CGG + chr4.1:2794328-2794347 MS.gene049111:CDS 60.0%
AGCCGCTCGGAAATCAGCTC+CGG + chr4.1:2794341-2794360 MS.gene049111:CDS 60.0%
GTTCCGGGACGGAATCTGTG+TGG - chr4.1:2794387-2794406 None:intergenic 60.0%
TGGCTTCTTCACTCCTCCGG+TGG - chr4.1:2794367-2794386 None:intergenic 60.0%
TTCTTCACTCCTCCGGTGGC+CGG - chr4.1:2794363-2794382 None:intergenic 60.0%
AAATCAGCTCCGGCCACCGG+AGG + chr4.1:2794351-2794370 MS.gene049111:CDS 65.0%
ACCGCTCGCAAATCCACCGG+AGG + chr4.1:2794288-2794307 MS.gene049111:CDS 65.0%
CCACCGGAGGCAAAGCTCCA+AGG + chr4.1:2794301-2794320 MS.gene049111:CDS 65.0%
CCTTGGAGCTTTGCCTCCGG+TGG - chr4.1:2794304-2794323 None:intergenic 65.0%
CGGAAATCAGCTCCGGCCAC+CGG + chr4.1:2794348-2794367 MS.gene049111:CDS 65.0%
! GCCTCCGGTGGATTTGCGAG+CGG - chr4.1:2794292-2794311 None:intergenic 65.0%
! GGCCGGAGCTGATTTCCGAG+CGG - chr4.1:2794346-2794365 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 2794270 2794680 2794270 ID=MS.gene049111
chr4.1 mRNA 2794270 2794680 2794270 ID=MS.gene049111.t1;Parent=MS.gene049111
chr4.1 exon 2794270 2794680 2794270 ID=MS.gene049111.t1.exon1;Parent=MS.gene049111.t1
chr4.1 CDS 2794270 2794680 2794270 ID=cds.MS.gene049111.t1;Parent=MS.gene049111.t1
Gene Sequence

>MS.gene049111

ATGGCTCGTACCAAACAAACCGCTCGCAAATCCACCGGAGGCAAAGCTCCAAGGAAACAACTCGCCACCAAAGCCGCTCGGAAATCAGCTCCGGCCACCGGAGGAGTGAAGAAGCCACACAGATTCCGTCCCGGAACTGTTGCTCTTCGTGAGATCCGTAAGTATCAGAAGAGCACTGAGCTTCTAATCAGGAAGCTTCCATTCCAAAGATTGGTTAGAGAAATCGCTCAGGATTTCAAAACTGATCTCAGGTTTCAGAGTAGCGCCGTTTCTGCTCTTCAAGAAGCCGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACCAACCTTTGCGCTATTCATGCTAAGAGAGTTACCATTATGCCTAAGGATATTCAACTTGCAAGAAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene049111.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA