AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35545


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35545.t1 MTR_0047s0040 97.279 294 8 0 1 294 143 436 0.0 593
MS.gene35545.t1 MTR_7g114700 58.974 234 90 4 1 233 177 405 6.34e-83 256
MS.gene35545.t1 MTR_1g051810 28.755 233 134 5 3 223 149 361 6.93e-16 77.4
MS.gene35545.t1 MTR_1g066800 28.244 262 120 10 1 206 163 412 2.56e-14 73.2
MS.gene35545.t1 MTR_1g066800 28.244 262 120 10 1 206 158 407 2.56e-14 73.2
MS.gene35545.t1 MTR_7g100790 28.247 308 133 16 1 238 150 439 2.57e-14 73.2
MS.gene35545.t1 MTR_4g087420 26.531 343 186 14 1 285 188 522 5.96e-14 72.4
MS.gene35545.t1 MTR_6g033415 26.531 245 135 9 2 206 150 389 2.49e-13 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35545.t1 AT5G13460 46.815 314 124 13 1 294 153 443 1.23e-72 230
MS.gene35545.t1 AT2G43680 27.885 312 177 12 1 284 365 656 3.36e-17 82.0
MS.gene35545.t1 AT2G43680 27.885 312 177 12 1 284 364 655 3.42e-17 82.0
MS.gene35545.t1 AT2G43680 27.885 312 177 12 1 284 364 655 3.42e-17 82.0
MS.gene35545.t1 AT2G43680 27.885 312 177 12 1 284 364 655 3.42e-17 82.0
MS.gene35545.t1 AT2G43680 27.885 312 177 12 1 284 364 655 3.42e-17 82.0
MS.gene35545.t1 AT3G59690 30.085 236 132 9 1 214 211 435 8.23e-14 72.0
MS.gene35545.t1 AT3G59690 30.085 236 132 9 1 214 211 435 8.23e-14 72.0
MS.gene35545.t1 AT3G52290 28.750 240 127 10 3 206 152 383 2.10e-13 70.5
MS.gene35545.t1 AT5G03960 34.270 178 98 5 55 225 203 368 3.23e-12 66.6
MS.gene35545.t1 AT5G03960 34.270 178 98 5 55 225 204 369 3.33e-12 66.6
MS.gene35545.t1 AT5G03960 34.270 178 98 5 55 225 204 369 3.33e-12 66.6
MS.gene35545.t1 AT5G03040 26.087 253 138 8 2 209 158 406 1.47e-11 65.1
MS.gene35545.t1 AT5G03040 26.087 253 138 8 2 209 158 406 1.47e-11 65.1
MS.gene35545.t1 AT5G03040 26.087 253 138 8 2 209 158 406 1.47e-11 65.1

Find 49 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCTAAAGACAAGATAATT+AGG 0.175455 4.2:+63085468 MS.gene35545:CDS
TCCAAATGGTTGAAGGAAAA+TGG 0.192772 4.2:+63085417 MS.gene35545:CDS
TCTAAAATCGGTGACGAATT+TGG 0.198095 4.2:+63086163 MS.gene35545:CDS
TCCAATCCTTCAACTGGATT+TGG 0.229739 4.2:-63086226 None:intergenic
CAGATAGCTCACTGCCTAAT+TGG 0.230370 4.2:+63086605 MS.gene35545:CDS
TAATTCCAAGACCTTGCTTT+TGG 0.317035 4.2:-63086397 None:intergenic
CACTAAGCTTGCCTCTATTA+AGG 0.318000 4.2:-63086495 None:intergenic
TATTCTTTCTCTCTTAATAA+TGG 0.318278 4.2:-63085684 None:intergenic
GAACTTTGTCTATCCCAATT+AGG 0.328904 4.2:-63086619 None:intergenic
GCCATGTATGCCGGAGTTGC+CGG 0.349143 4.2:-63086331 None:intergenic
AAAATCAAGCAGGACTATAA+AGG 0.350189 4.2:+63086567 MS.gene35545:CDS
TCCTTGCACAAATCTTTGAT+TGG 0.374460 4.2:-63085391 None:intergenic
TTCTAAAGACAAGATAATTA+GGG 0.386905 4.2:+63085469 MS.gene35545:CDS
GGTGATTCCAATCCTTCAAC+TGG 0.395148 4.2:-63086232 None:intergenic
GTATCATTAGCTTCATTTGA+AGG 0.398734 4.2:-63086641 None:intergenic
CCGGAGAGCTTGAAAATGAT+TGG 0.404332 4.2:-63086312 None:intergenic
TACAGCTCACATTCTAAAAT+CGG 0.405037 4.2:+63086151 MS.gene35545:CDS
TAAAACTAGGAGATCTTTGT+TGG 0.405800 4.2:-63086525 None:intergenic
AGATAGCTCACTGCCTAATT+GGG 0.412832 4.2:+63086606 MS.gene35545:CDS
CCAAATGGTTGAAGGAAAAT+GGG 0.421909 4.2:+63085418 MS.gene35545:CDS
TCAGAAAGAAGTAAAGTGAA+TGG 0.437880 4.2:+63086049 MS.gene35545:CDS
TCCAAATCCAGTTGAAGGAT+TGG 0.443208 4.2:+63086225 MS.gene35545:CDS
GTTCACCAAAAGCAAGGTCT+TGG 0.448573 4.2:+63086392 MS.gene35545:CDS
CTTAATAGAGGCAAGCTTAG+TGG 0.449370 4.2:+63086496 MS.gene35545:CDS
GAATTTCTTGAAAATAGTAT+TGG 0.453636 4.2:-63086253 None:intergenic
CAAAATCCAAATCCAGTTGA+AGG 0.460055 4.2:+63086220 MS.gene35545:CDS
GAGGTACTGGCTGGAGCAAT+GGG 0.470588 4.2:+63086078 MS.gene35545:CDS
CACAGGAGGAAGTGTTCAAT+AGG 0.472141 4.2:+63086283 MS.gene35545:CDS
TCCGGCAACTCCGGCATACA+TGG 0.476116 4.2:+63086330 MS.gene35545:CDS
GAAGTAAAGTGAATGGAAGA+TGG 0.476780 4.2:+63086056 MS.gene35545:CDS
AACAGTGAAGTCCTTAATAG+AGG 0.490528 4.2:+63086484 MS.gene35545:CDS
GGAGGTACTGGCTGGAGCAA+TGG 0.509178 4.2:+63086077 MS.gene35545:CDS
TTCAAGCTCTCCGGCAACTC+CGG 0.516297 4.2:+63086321 MS.gene35545:CDS
GGATGACAGTACTTTATTGA+AGG 0.531553 4.2:+63085625 MS.gene35545:CDS
CAGTACTTTATTGAAGGAAG+AGG 0.539274 4.2:+63085631 MS.gene35545:CDS
ACTCAAACAGTCAAAGAAAG+TGG 0.539967 4.2:+63085603 MS.gene35545:CDS
AGGAGACTCCAAATGGTTGA+AGG 0.541413 4.2:+63085410 MS.gene35545:CDS
TGAATGGAAGATGGAGGTAC+TGG 0.544699 4.2:+63086065 MS.gene35545:CDS
TCAGTAGCAGCCATGTATGC+CGG 0.554373 4.2:-63086340 None:intergenic
TTGTGCAAGGAGACTCCAAA+TGG 0.554466 4.2:+63085403 MS.gene35545:CDS
TGGAAGATGGAGGTACTGGC+TGG 0.555626 4.2:+63086069 MS.gene35545:CDS
AAAATCGGTGACGAATTTGG+AGG 0.576765 4.2:+63086166 MS.gene35545:CDS
ACTGAAATACCCTTAAAACT+AGG 0.588800 4.2:-63086538 None:intergenic
CTCAAACAGTCAAAGAAAGT+GGG 0.591986 4.2:+63085604 MS.gene35545:CDS
CAGTGCCTATAAAATCAAGC+AGG 0.595648 4.2:+63086557 MS.gene35545:CDS
GTAAAGTGAATGGAAGATGG+AGG 0.607160 4.2:+63086059 MS.gene35545:CDS
TCCAATCAAAGATTTGTGCA+AGG 0.626481 4.2:+63085390 MS.gene35545:CDS
CAACAAGTTCACCAAAAGCA+AGG 0.636655 4.2:+63086386 MS.gene35545:CDS
ATTGAACACTTCCTCCTGTG+AGG 0.674211 4.2:-63086280 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCAAAAATATATAAGAGTT+AGG - chr4.2:63085741-63085760 None:intergenic 15.0%
!!! ATAAATTTCTCATTTTTAGA+TGG + chr4.2:63085580-63085599 MS.gene35545:intron 15.0%
!! GAATTTCTTGAAAATAGTAT+TGG - chr4.2:63086256-63086275 None:intergenic 20.0%
!! TAATTATGTGTTTATAGCAT+TGG + chr4.2:63085803-63085822 MS.gene35545:intron 20.0%
!! TATTCTTTCTCTCTTAATAA+TGG - chr4.2:63085687-63085706 None:intergenic 20.0%
!! TTATGACAAAAGATAAAACA+AGG + chr4.2:63085861-63085880 MS.gene35545:intron 20.0%
!!! TTCTAAAGACAAGATAATTA+GGG + chr4.2:63085469-63085488 MS.gene35545:CDS 20.0%
!!! ATTGATAACTTTTTCTTGCA+AGG - chr4.2:63086451-63086470 None:intergenic 25.0%
!!! GTTCTAAAGACAAGATAATT+AGG + chr4.2:63085468-63085487 MS.gene35545:CDS 25.0%
!!! TTCGTTGTTTTGTACAATTA+CGG + chr4.2:63085760-63085779 MS.gene35545:intron 25.0%
AAAATCAAGCAGGACTATAA+AGG + chr4.2:63086567-63086586 MS.gene35545:CDS 30.0%
ACTGAAATACCCTTAAAACT+AGG - chr4.2:63086541-63086560 None:intergenic 30.0%
TAAAACTAGGAGATCTTTGT+TGG - chr4.2:63086528-63086547 None:intergenic 30.0%
TCAGAAAGAAGTAAAGTGAA+TGG + chr4.2:63086049-63086068 MS.gene35545:CDS 30.0%
! ATAGTCCTGCTTGATTTTAT+AGG - chr4.2:63086565-63086584 None:intergenic 30.0%
!! TACAGCTCACATTCTAAAAT+CGG + chr4.2:63086151-63086170 MS.gene35545:CDS 30.0%
!!! ACAAAGATCTCCTAGTTTTA+AGG + chr4.2:63086528-63086547 MS.gene35545:CDS 30.0%
!!! CAAAGATCTCCTAGTTTTAA+GGG + chr4.2:63086529-63086548 MS.gene35545:CDS 30.0%
AACAGTGAAGTCCTTAATAG+AGG + chr4.2:63086484-63086503 MS.gene35545:CDS 35.0%
AACTTATACAAACCCTACAG+AGG + chr4.2:63086017-63086036 MS.gene35545:intron 35.0%
AAGCATTTGAGAGACTGTTT+CGG - chr4.2:63085952-63085971 None:intergenic 35.0%
ACTCAAACAGTCAAAGAAAG+TGG + chr4.2:63085603-63085622 MS.gene35545:CDS 35.0%
CAAAATCCAAATCCAGTTGA+AGG + chr4.2:63086220-63086239 MS.gene35545:CDS 35.0%
CAGTACTTTATTGAAGGAAG+AGG + chr4.2:63085631-63085650 MS.gene35545:CDS 35.0%
CCAAATGGTTGAAGGAAAAT+GGG + chr4.2:63085418-63085437 MS.gene35545:CDS 35.0%
CTCAAACAGTCAAAGAAAGT+GGG + chr4.2:63085604-63085623 MS.gene35545:CDS 35.0%
GAACTTTGTCTATCCCAATT+AGG - chr4.2:63086622-63086641 None:intergenic 35.0%
GAAGTAAAGTGAATGGAAGA+TGG + chr4.2:63086056-63086075 MS.gene35545:CDS 35.0%
GGATAGCTTATGAAAACAAC+CGG - chr4.2:63085910-63085929 None:intergenic 35.0%
GGATGACAGTACTTTATTGA+AGG + chr4.2:63085625-63085644 MS.gene35545:CDS 35.0%
TAAGTTAGTTCGAGAACACT+TGG - chr4.2:63086003-63086022 None:intergenic 35.0%
TCCAAATGGTTGAAGGAAAA+TGG + chr4.2:63085417-63085436 MS.gene35545:CDS 35.0%
TCCAATCAAAGATTTGTGCA+AGG + chr4.2:63085390-63085409 MS.gene35545:CDS 35.0%
TCCTTGCACAAATCTTTGAT+TGG - chr4.2:63085394-63085413 None:intergenic 35.0%
! CAAGAAATTCTTTTCCTCAC+AGG + chr4.2:63086266-63086285 MS.gene35545:CDS 35.0%
! TAATTCCAAGACCTTGCTTT+TGG - chr4.2:63086400-63086419 None:intergenic 35.0%
! TCTAAAATCGGTGACGAATT+TGG + chr4.2:63086163-63086182 MS.gene35545:CDS 35.0%
!! GTTGTTTTCATAAGCTATCC+TGG + chr4.2:63085910-63085929 MS.gene35545:intron 35.0%
!!! ACTTTTTCGATTTAAGCTGC+CGG + chr4.2:63085888-63085907 MS.gene35545:intron 35.0%
AAAATCGGTGACGAATTTGG+AGG + chr4.2:63086166-63086185 MS.gene35545:CDS 40.0%
AGATAGCTCACTGCCTAATT+GGG + chr4.2:63086606-63086625 MS.gene35545:CDS 40.0%
AGCATTTGAGAGACTGTTTC+GGG - chr4.2:63085951-63085970 None:intergenic 40.0%
ATTAAGCTGTTTACCCAAGC+AGG - chr4.2:63085787-63085806 None:intergenic 40.0%
CAACAAGTTCACCAAAAGCA+AGG + chr4.2:63086386-63086405 MS.gene35545:CDS 40.0%
CACTAAGCTTGCCTCTATTA+AGG - chr4.2:63086498-63086517 None:intergenic 40.0%
CAGTGCCTATAAAATCAAGC+AGG + chr4.2:63086557-63086576 MS.gene35545:CDS 40.0%
CTGTTTCGGGGAAAATACTT+CGG - chr4.2:63085938-63085957 None:intergenic 40.0%
CTTAATAGAGGCAAGCTTAG+TGG + chr4.2:63086496-63086515 MS.gene35545:CDS 40.0%
GTAAAGTGAATGGAAGATGG+AGG + chr4.2:63086059-63086078 MS.gene35545:CDS 40.0%
TCCAAATCCAGTTGAAGGAT+TGG + chr4.2:63086225-63086244 MS.gene35545:CDS 40.0%
TCCAATCCTTCAACTGGATT+TGG - chr4.2:63086229-63086248 None:intergenic 40.0%
! CCCATTTTCCTTCAACCATT+TGG - chr4.2:63085421-63085440 None:intergenic 40.0%
! GAAATTCTTTTCCTCACAGG+AGG + chr4.2:63086269-63086288 MS.gene35545:CDS 40.0%
!! CCAATCATTTTCAAGCTCTC+CGG + chr4.2:63086312-63086331 MS.gene35545:CDS 40.0%
AGGAGACTCCAAATGGTTGA+AGG + chr4.2:63085410-63085429 MS.gene35545:CDS 45.0%
ATTGAACACTTCCTCCTGTG+AGG - chr4.2:63086283-63086302 None:intergenic 45.0%
CAGATAGCTCACTGCCTAAT+TGG + chr4.2:63086605-63086624 MS.gene35545:CDS 45.0%
CCGGAGAGCTTGAAAATGAT+TGG - chr4.2:63086315-63086334 None:intergenic 45.0%
GCATTTGAGAGACTGTTTCG+GGG - chr4.2:63085950-63085969 None:intergenic 45.0%
GGTGATTCCAATCCTTCAAC+TGG - chr4.2:63086235-63086254 None:intergenic 45.0%
GTACAATTACGGTCCTGCTT+GGG + chr4.2:63085771-63085790 MS.gene35545:intron 45.0%
GTTCACCAAAAGCAAGGTCT+TGG + chr4.2:63086392-63086411 MS.gene35545:CDS 45.0%
TGTACAATTACGGTCCTGCT+TGG + chr4.2:63085770-63085789 MS.gene35545:intron 45.0%
TTGTGCAAGGAGACTCCAAA+TGG + chr4.2:63085403-63085422 MS.gene35545:CDS 45.0%
! TGAATGGAAGATGGAGGTAC+TGG + chr4.2:63086065-63086084 MS.gene35545:CDS 45.0%
!! CACAGGAGGAAGTGTTCAAT+AGG + chr4.2:63086283-63086302 MS.gene35545:CDS 45.0%
TCAGTAGCAGCCATGTATGC+CGG - chr4.2:63086343-63086362 None:intergenic 50.0%
TGACTCTGCTGACCTCTGTA+GGG - chr4.2:63086032-63086051 None:intergenic 50.0%
CTGACTCTGCTGACCTCTGT+AGG - chr4.2:63086033-63086052 None:intergenic 55.0%
TTCAAGCTCTCCGGCAACTC+CGG + chr4.2:63086321-63086340 MS.gene35545:CDS 55.0%
!! GAGGTACTGGCTGGAGCAAT+GGG + chr4.2:63086078-63086097 MS.gene35545:CDS 55.0%
!! GGGGAAAATACTTCGGTGCC+AGG - chr4.2:63085931-63085950 None:intergenic 55.0%
!! TGGAAGATGGAGGTACTGGC+TGG + chr4.2:63086069-63086088 MS.gene35545:CDS 55.0%
GCCATGTATGCCGGAGTTGC+CGG - chr4.2:63086334-63086353 None:intergenic 60.0%
TCCGGCAACTCCGGCATACA+TGG + chr4.2:63086330-63086349 MS.gene35545:CDS 60.0%
!! GGAGGTACTGGCTGGAGCAA+TGG + chr4.2:63086077-63086096 MS.gene35545:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 63085353 63086651 63085353 ID=MS.gene35545
chr4.2 mRNA 63085353 63086651 63085353 ID=MS.gene35545.t1;Parent=MS.gene35545
chr4.2 exon 63085353 63085490 63085353 ID=MS.gene35545.t1.exon1;Parent=MS.gene35545.t1
chr4.2 CDS 63085353 63085490 63085353 ID=cds.MS.gene35545.t1;Parent=MS.gene35545.t1
chr4.2 exon 63085599 63085730 63085599 ID=MS.gene35545.t1.exon2;Parent=MS.gene35545.t1
chr4.2 CDS 63085599 63085730 63085599 ID=cds.MS.gene35545.t1;Parent=MS.gene35545.t1
chr4.2 exon 63086037 63086651 63086037 ID=MS.gene35545.t1.exon3;Parent=MS.gene35545.t1
chr4.2 CDS 63086037 63086651 63086037 ID=cds.MS.gene35545.t1;Parent=MS.gene35545.t1
Gene Sequence

>MS.gene35545

ATGAATACTCTGAAGAGCTTGCAGTCAATTGTAAGTATCCAATCAAAGATTTGTGCAAGGAGACTCCAAATGGTTGAAGGAAAATGGGATTATTTTGAAGATGAAGAGATGCATTGTTCTAAAGACAAGATAATTAGGGTGAGACAATTTATGATTCAATGCATAGTTCAAACATAAATATCAATTGTTTTGTAGCTGTTATTCTTGTAGAATTTATGATTTGAAACATAAATTTCTCATTTTTAGATGGACTCAAACAGTCAAAGAAAGTGGGATGACAGTACTTTATTGAAGGAAGAGGTAGATGCTTCTTGCATGATCAAGAAAGAAGCCATTATTAAGAGAGAAAGAATAAAAGAATACACATTTAATCATAGAGTAAGCTCCTAACTCTTATATATTTTTGATTCGTTGTTTTGTACAATTACGGTCCTGCTTGGGTAAACAGCTTAATTATGTGTTTATAGCATTGGCATTAAACATATAAACACTTACATGTAAGCTTATTTTATGACAAAAGATAAAACAAGGTTAAACTTTTTCGATTTAAGCTGCCGGTTGTTTTCATAAGCTATCCTGGCACCGAAGTATTTTCCCCGAAACAGTCTCTCAAATGCTTATGTCGATGCTTTTTCAGTAGATAAGTACCAAGTGTTCTCGAACTAACTTATACAAACCCTACAGAGGTCAGCAGAGTCAGAAAGAAGTAAAGTGAATGGAAGATGGAGGTACTGGCTGGAGCAATGGGTAGATACACAACTTTCTAAAAGCAAAGAACTTGAAGATTTAGACTCAGTTTACAGCTCACATTCTAAAATCGGTGACGAATTTGGAGGAAGACAACTTAAGCTGAGAAATACTACTAGACAAAATCCAAATCCAGTTGAAGGATTGGAATCACCAATACTATTTTCAAGAAATTCTTTTCCTCACAGGAGGAAGTGTTCAATAGGAGAAGACCAATCATTTTCAAGCTCTCCGGCAACTCCGGCATACATGGCTGCTACTGAATCAGCAAAAGCAAAAGCAAGATCAACAAGTTCACCAAAAGCAAGGTCTTGGAATTATGACATGAACTCTGATAGCTATTTATCACCTTGCAAGAAAAAGTTATCAATTGTTTCATCTGTTAACAGTGAAGTCCTTAATAGAGGCAAGCTTAGTGGTTGTAACCAACAAAGATCTCCTAGTTTTAAGGGTATTTCAGTGCCTATAAAATCAAGCAGGACTATAAAGGATCTCAGTATTAATTCAGATAGCTCACTGCCTAATTGGGATAGACAAAGTTCCTTCAAATGA

Protein sequence

>MS.gene35545.t1

MNTLKSLQSIVSIQSKICARRLQMVEGKWDYFEDEEMHCSKDKIIRMDSNSQRKWDDSTLLKEEVDASCMIKKEAIIKRERIKEYTFNHRRSAESERSKVNGRWRYWLEQWVDTQLSKSKELEDLDSVYSSHSKIGDEFGGRQLKLRNTTRQNPNPVEGLESPILFSRNSFPHRRKCSIGEDQSFSSSPATPAYMAATESAKAKARSTSSPKARSWNYDMNSDSYLSPCKKKLSIVSSVNSEVLNRGKLSGCNQQRSPSFKGISVPIKSSRTIKDLSINSDSSLPNWDRQSSFK