AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01614

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01614.t1 MTR_2g018030 93.808 323 14 3 1 318 35 356 0.0 587
MS.gene01614.t1 MTR_8g087530 43.774 265 107 6 56 320 117 339 3.15e-56 186
MS.gene01614.t1 MTR_7g072875 38.255 149 83 3 160 304 141 284 6.44e-27 107
MS.gene01614.t1 MTR_7g072630 38.255 149 83 3 160 304 203 346 1.47e-26 107
MS.gene01614.t1 MTR_4g028930 38.509 161 92 2 149 307 227 382 5.60e-26 106
MS.gene01614.t1 MTR_5g075210 34.320 169 82 6 147 305 197 346 4.70e-23 98.2
MS.gene01614.t1 MTR_8g103520 51.613 62 30 0 239 300 224 285 3.42e-16 77.8
MS.gene01614.t1 MTR_0907s0020 41.026 78 42 1 242 319 105 178 1.43e-13 68.6
MS.gene01614.t1 MTR_4g132740 39.683 63 38 0 241 303 83 145 1.25e-11 62.4
MS.gene01614.t1 MTR_4g052040 26.923 130 86 1 180 300 31 160 2.00e-11 62.4
MS.gene01614.t1 MTR_7g105790 42.857 63 36 0 242 304 113 175 3.00e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01614.t1 AT4G18830 35.841 226 120 7 83 304 143 347 3.49e-32 123
MS.gene01614.t1 AT1G06920 65.152 66 23 0 238 303 242 307 4.52e-24 100
MS.gene01614.t1 AT2G30400 61.765 68 26 0 238 305 251 318 2.47e-23 98.6
MS.gene01614.t1 AT5G58360 44.444 90 49 1 221 310 206 294 1.53e-20 90.1
MS.gene01614.t1 AT5G01840 56.452 62 27 0 243 304 202 263 1.41e-19 87.0
MS.gene01614.t1 AT5G19650 46.774 62 33 0 239 300 154 215 1.65e-14 72.0
MS.gene01614.t1 AT2G18500 40.909 66 39 0 238 303 225 290 4.45e-13 69.3
MS.gene01614.t1 AT3G52525 46.032 63 34 0 240 302 67 129 2.29e-12 64.7
MS.gene01614.t1 AT4G04025 41.176 68 40 0 232 299 106 173 6.30e-11 60.8

Find 40 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAAAGGAGGAAGATATTAT+TGG 0.269462 2.2:-66878933 MS.gene01614:CDS
GAGGAAAGCACAACAGGTTT+TGG 0.290055 2.2:-66878802 MS.gene01614:CDS
TGGTTTGATATGAGTCAATA+TGG 0.296873 2.2:-66878165 MS.gene01614:CDS
TTCACCCTTGAAACTTTCTT+TGG 0.300747 2.2:+66878504 None:intergenic
TTTGATATTGGTGGAAAATA+TGG 0.307283 2.2:-66878990 MS.gene01614:CDS
AAAAGGAATATGAAAATATA+AGG 0.317179 2.2:-66878836 MS.gene01614:CDS
ACAAGGTATAGTCAAGTTAA+AGG 0.319980 2.2:-66878949 MS.gene01614:CDS
TAATTATGAGAAGCATAGTT+TGG 0.331902 2.2:-66878577 MS.gene01614:CDS
GATATGAGTCAATATGGTTT+AGG 0.337600 2.2:-66878159 MS.gene01614:CDS
GAAAATATATTCACCAAGAT+TGG 0.341908 2.2:-66878484 MS.gene01614:CDS
ACAGCAAAACTATCTAATTC+TGG 0.358668 2.2:+66878357 None:intergenic
TAATTGGTAATTATCATTCA+TGG 0.367760 2.2:+66878109 None:intergenic
GCAAAAGAATGTGTTGTTCT+TGG 0.370662 2.2:+66878693 None:intergenic
GATTAGTAAGGCAGAAGAAA+TGG 0.373351 2.2:-66878265 MS.gene01614:CDS
CTTGGTGTACAAATTGTTCT+TGG 0.377176 2.2:+66878711 None:intergenic
ATCTCATAATCAAAGTATTT+AGG 0.389618 2.2:-66878194 MS.gene01614:CDS
TCAACCTTTGAAACCAATCT+TGG 0.392383 2.2:+66878471 None:intergenic
GAATCTCTAAAATCCTGCTT+TGG 0.398970 2.2:+66878315 None:intergenic
ATTTGAGAGGAAAGCACAAC+AGG 0.409645 2.2:-66878808 MS.gene01614:CDS
GGAAAATATGGTAACAAAAG+TGG 0.450154 2.2:-66878978 MS.gene01614:CDS
TCAAAGTATTTAGGCAGGTA+TGG 0.455774 2.2:-66878185 MS.gene01614:CDS
AGAAGAAATGGAAGAGTTGT+TGG 0.458484 2.2:-66878253 MS.gene01614:CDS
GGAAAAGCATGAAGAGTTGA+AGG 0.459523 2.2:-66878556 MS.gene01614:CDS
AAAGATGAAGAAAGAAATTG+TGG 0.494347 2.2:-66878400 MS.gene01614:CDS
TGAAGAGAAACAGATTAGTA+AGG 0.497006 2.2:-66878277 MS.gene01614:CDS
GGAAACCAAAGAAAGTTTCA+AGG 0.508120 2.2:-66878509 MS.gene01614:CDS
TTCACCAAGATTGGTTTCAA+AGG 0.510346 2.2:-66878475 MS.gene01614:CDS
GTATGAATATGATAGAGAAA+AGG 0.539540 2.2:-66878853 MS.gene01614:CDS
CATAATCAAAGTATTTAGGC+AGG 0.542446 2.2:-66878190 MS.gene01614:CDS
CCACCAATATCAAAACATGA+AGG 0.542576 2.2:+66878999 None:intergenic
ATGTTCATCAAATCCAAAGC+AGG 0.550210 2.2:-66878328 MS.gene01614:CDS
TAAAAGCATTAGAAGAAATG+AGG 0.552124 2.2:-66878437 MS.gene01614:CDS
GAAACCAAAGAAAGTTTCAA+GGG 0.604643 2.2:-66878508 MS.gene01614:CDS
GATGAAGAAAGAAATTGTGG+AGG 0.614642 2.2:-66878397 MS.gene01614:CDS
CCAATATCAAAACATGAAGG+TGG 0.616765 2.2:+66879002 None:intergenic
AAAATGGTGAATGATAAGAA+GGG 0.623597 2.2:-66878894 MS.gene01614:CDS
ATATAAGGAGAAGATTTGAG+AGG 0.626627 2.2:-66878821 MS.gene01614:CDS
AGGTATAGTCAAGTTAAAGG+AGG 0.630076 2.2:-66878946 MS.gene01614:CDS
AACAAAAGTGGAAGAAAACA+AGG 0.640173 2.2:-66878966 MS.gene01614:CDS
GTTAGATCAGAAATGCAATG+CGG 0.769031 2.2:-66878135 MS.gene01614:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAGGAATATGAAAATATA+AGG - chr2.2:66878348-66878367 MS.gene01614:CDS 15.0%
!! TTTAGAAGATCAAAGAAAAA+TGG - chr2.2:66878274-66878293 MS.gene01614:CDS 20.0%
!!! ATCTCATAATCAAAGTATTT+AGG - chr2.2:66878990-66879009 MS.gene01614:CDS 20.0%
! AAAAATGGTGAATGATAAGA+AGG - chr2.2:66878289-66878308 MS.gene01614:CDS 25.0%
! AAAATGGTGAATGATAAGAA+GGG - chr2.2:66878290-66878309 MS.gene01614:CDS 25.0%
! AAAGATGAAGAAAGAAATTG+TGG - chr2.2:66878784-66878803 MS.gene01614:CDS 25.0%
! GAAAATATATTCACCAAGAT+TGG - chr2.2:66878700-66878719 MS.gene01614:CDS 25.0%
! GTATGAATATGATAGAGAAA+AGG - chr2.2:66878331-66878350 MS.gene01614:CDS 25.0%
! TAAAGACTCAAGAAAAACAA+AGG - chr2.2:66878651-66878670 MS.gene01614:CDS 25.0%
! TTAAAGGAGGAAGATATTAT+TGG - chr2.2:66878251-66878270 MS.gene01614:CDS 25.0%
! TTTGATATTGGTGGAAAATA+TGG - chr2.2:66878194-66878213 MS.gene01614:CDS 25.0%
!! TAATTATGAGAAGCATAGTT+TGG - chr2.2:66878607-66878626 MS.gene01614:CDS 25.0%
!!! TAAAAGCATTAGAAGAAATG+AGG - chr2.2:66878747-66878766 MS.gene01614:CDS 25.0%
AACAAAAGTGGAAGAAAACA+AGG - chr2.2:66878218-66878237 MS.gene01614:CDS 30.0%
ACAAGGTATAGTCAAGTTAA+AGG - chr2.2:66878235-66878254 MS.gene01614:CDS 30.0%
ACAGCAAAACTATCTAATTC+TGG + chr2.2:66878830-66878849 None:intergenic 30.0%
ATATAAGGAGAAGATTTGAG+AGG - chr2.2:66878363-66878382 MS.gene01614:CDS 30.0%
GAAACCAAAGAAAGTTTCAA+GGG - chr2.2:66878676-66878695 MS.gene01614:CDS 30.0%
GATATGAGTCAATATGGTTT+AGG - chr2.2:66879025-66879044 MS.gene01614:CDS 30.0%
GGAAAATATGGTAACAAAAG+TGG - chr2.2:66878206-66878225 MS.gene01614:CDS 30.0%
TGAAGAGAAACAGATTAGTA+AGG - chr2.2:66878907-66878926 MS.gene01614:CDS 30.0%
TGGTTTGATATGAGTCAATA+TGG - chr2.2:66879019-66879038 MS.gene01614:CDS 30.0%
! CATAATCAAAGTATTTAGGC+AGG - chr2.2:66878994-66879013 MS.gene01614:CDS 30.0%
AGAAGAAATGGAAGAGTTGT+TGG - chr2.2:66878931-66878950 MS.gene01614:CDS 35.0%
AGACTCAAGAAAAACAAAGG+AGG - chr2.2:66878654-66878673 MS.gene01614:CDS 35.0%
AGGTATAGTCAAGTTAAAGG+AGG - chr2.2:66878238-66878257 MS.gene01614:CDS 35.0%
ATGTTCATCAAATCCAAAGC+AGG - chr2.2:66878856-66878875 MS.gene01614:CDS 35.0%
CCAATATCAAAACATGAAGG+TGG + chr2.2:66878185-66878204 None:intergenic 35.0%
CCACCAATATCAAAACATGA+AGG + chr2.2:66878188-66878207 None:intergenic 35.0%
GATGAAGAAAGAAATTGTGG+AGG - chr2.2:66878787-66878806 MS.gene01614:CDS 35.0%
GATTAGTAAGGCAGAAGAAA+TGG - chr2.2:66878919-66878938 MS.gene01614:CDS 35.0%
GGAAACCAAAGAAAGTTTCA+AGG - chr2.2:66878675-66878694 MS.gene01614:CDS 35.0%
GTTAGATCAGAAATGCAATG+CGG - chr2.2:66879049-66879068 MS.gene01614:CDS 35.0%
TTCACCCTTGAAACTTTCTT+TGG + chr2.2:66878683-66878702 None:intergenic 35.0%
! CTTGGTGTACAAATTGTTCT+TGG + chr2.2:66878476-66878495 None:intergenic 35.0%
! GCAAAAGAATGTGTTGTTCT+TGG + chr2.2:66878494-66878513 None:intergenic 35.0%
! TCAAAGTATTTAGGCAGGTA+TGG - chr2.2:66878999-66879018 MS.gene01614:CDS 35.0%
!! GAATCTCTAAAATCCTGCTT+TGG + chr2.2:66878872-66878891 None:intergenic 35.0%
!! TCAACCTTTGAAACCAATCT+TGG + chr2.2:66878716-66878735 None:intergenic 35.0%
!! TTCACCAAGATTGGTTTCAA+AGG - chr2.2:66878709-66878728 MS.gene01614:CDS 35.0%
!!! CCACCTTCATGTTTTGATAT+TGG - chr2.2:66878182-66878201 MS.gene01614:CDS 35.0%
!!! CCTTCATGTTTTGATATTGG+TGG - chr2.2:66878185-66878204 MS.gene01614:CDS 35.0%
! ATTTGAGAGGAAAGCACAAC+AGG - chr2.2:66878376-66878395 MS.gene01614:CDS 40.0%
! GGAAAAGCATGAAGAGTTGA+AGG - chr2.2:66878628-66878647 MS.gene01614:CDS 40.0%
!! GAGGAAAGCACAACAGGTTT+TGG - chr2.2:66878382-66878401 MS.gene01614:CDS 45.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 66878122 66879084 66878122 ID=MS.gene01614
chr2.2 mRNA 66878122 66879084 66878122 ID=MS.gene01614.t1;Parent=MS.gene01614
chr2.2 exon 66878122 66879084 66878122 ID=MS.gene01614.t1.exon1;Parent=MS.gene01614.t1
chr2.2 CDS 66878122 66879084 66878122 ID=cds.MS.gene01614.t1;Parent=MS.gene01614.t1
Gene Sequence

>MS.gene01614

ATGAGAATCAATTCAGATTCAAATCATGCAAAACTGAAGCAGAAAGAAAAGAAGAATACTCCACCTTCATGTTTTGATATTGGTGGAAAATATGGTAACAAAAGTGGAAGAAAACAAGGTATAGTCAAGTTAAAGGAGGAAGATATTATTGGTTTAGAAGATCAAAGAAAAATGGTGAATGATAAGAAGGGTTTGATGAAGATTGATGAGTATGAATATGATAGAGAAAAGGAATATGAAAATATAAGGAGAAGATTTGAGAGGAAAGCACAACAGGTTTTGGAAGAACAATTATTGAAATTAGAAAGAGAAGCAAAAGAAGTAGAAGATGTTAAATTTGAATATGAATCTCCAAGAACAATTTGTACACCAAGAACAACACATTCTTTTGCTTCTTCTATTGCAGATTCGACGAAGAATTCTTCTAGCTTAAGAAATATTCGTTTTGAGAAAAGTGAGATTGCATCATCTCAGAAGAAACAAAGTAATTATGAGAAGCATAGTTTGGAAAAGCATGAAGAGTTGAAGGTAAAGACTCAAGAAAAACAAAGGAGGAAACCAAAGAAAGTTTCAAGGGTGAAAATATATTCACCAAGATTGGTTTCAAAGGTTGAAATATGCAGAATAAAAGCATTAGAAGAAATGAGGAACAAAGCAAAACAAAAGATGAAGAAAGAAATTGTGGAGGAAATTATTAGTACTAAACCAGAATTAGATAGTTTTGCTGTGATTAAATGTTCATCAAATCCAAAGCAGGATTTTAGAGATTCAATGATTGAGATGATTGAAGAGAAACAGATTAGTAAGGCAGAAGAAATGGAAGAGTTGTTGGCATGTTATTTGACTTTGAATGCTGATGAGTATCATGATCTCATAATCAAAGTATTTAGGCAGGTATGGTTTGATATGAGTCAATATGGTTTAGGTGTTAGATCAGAAATGCAATGCGGTTTCCATGAATGA
Protein sequence

>MS.gene01614.t1

MRINSDSNHAKLKQKEKKNTPPSCFDIGGKYGNKSGRKQGIVKLKEEDIIGLEDQRKMVNDKKGLMKIDEYEYDREKEYENIRRRFERKAQQVLEEQLLKLEREAKEVEDVKFEYESPRTICTPRTTHSFASSIADSTKNSSSLRNIRFEKSEIASSQKKQSNYEKHSLEKHEELKVKTQEKQRRKPKKVSRVKIYSPRLVSKVEICRIKALEEMRNKAKQKMKKEIVEEIISTKPELDSFAVIKCSSNPKQDFRDSMIEMIEEKQISKAEEMEELLACYLTLNADEYHDLIIKVFRQVWFDMSQYGLGVRSEMQCGFHE