AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene38057

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene38057.t1 AT5G22250 58.484 277 108 4 1 270 1 277 5.71e-111 322
MS.gene38057.t1 AT3G44260 54.815 270 117 3 5 270 11 279 6.29e-103 301
MS.gene38057.t1 AT5G10960 45.926 270 142 4 2 270 1 267 4.54e-83 251
MS.gene38057.t1 AT2G32070 47.328 262 133 4 11 270 10 268 2.56e-80 243
MS.gene38057.t1 AT1G80780 45.977 261 137 4 11 270 10 267 2.98e-78 238
MS.gene38057.t1 AT1G80780 45.977 261 137 4 11 270 10 267 2.98e-78 238
MS.gene38057.t1 AT1G80780 45.977 261 137 4 11 270 10 267 3.86e-78 238
MS.gene38057.t1 AT1G15920 45.421 273 137 6 5 269 8 276 5.54e-74 228
MS.gene38057.t1 AT1G15920 45.421 273 137 6 5 269 8 276 5.54e-74 228
MS.gene38057.t1 AT1G61470 37.860 243 132 7 12 249 1 229 2.61e-42 146
MS.gene38057.t1 AT1G06450 33.077 260 158 7 12 268 8 254 1.25e-36 133
MS.gene38057.t1 AT1G27820 34.400 250 139 9 9 249 2 235 1.98e-34 126
MS.gene38057.t1 AT3G44240 34.061 229 138 6 26 252 2 219 1.19e-33 122
MS.gene38057.t1 AT1G27890 33.884 242 139 8 15 249 3 230 4.18e-32 120

Find 58 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTACTCTAATGCACTTTA+TGG 0.122182 5.1:+77757901 MS.gene38057:CDS
TTCCACAGTGCGTATGATTT+TGG 0.151783 5.1:+77757766 MS.gene38057:CDS
CTCAATGGACACTGAATTTC+CGG 0.194539 5.1:+77757399 MS.gene38057:CDS
AATTGTATCCCCACACTTTA+CGG 0.267621 5.1:-77757324 None:intergenic
CAAGTAACTGTATTGCTCAT+TGG 0.320243 5.1:-77757461 None:intergenic
TCAGATCGGCCTCACTTTAT+CGG 0.325888 5.1:+77757513 MS.gene38057:CDS
TCAGTGACTTTAACGTCAAC+AGG 0.344553 5.1:+77757593 MS.gene38057:CDS
AAGTAACTGTATTGCTCATT+GGG 0.348772 5.1:-77757460 None:intergenic
ATGAGAACAGTCGCTACATC+TGG 0.354062 5.1:+77757560 MS.gene38057:CDS
TATTGACATGCTCCGCCATC+AGG 0.356139 5.1:+77757636 MS.gene38057:CDS
TTCTTTCGCAACACTGTTCA+AGG 0.358495 5.1:+77757667 MS.gene38057:CDS
CACACTTTACGGATCATGAT+TGG 0.401574 5.1:-77757313 None:intergenic
TAAATACAATTTCATCTCAA+TGG 0.417841 5.1:+77757384 MS.gene38057:CDS
GTGGGTGAATGGACGATTCC+CGG 0.418644 5.1:-77757418 None:intergenic
AACTGTCGGATCCAGCTTGA+TGG 0.430459 5.1:-77757978 None:intergenic
GCTACGCTGATGCGGTGGTC+TGG 0.430872 5.1:+77757709 MS.gene38057:CDS
AAGCACGCTGGAGCAATATT+CGG 0.436886 5.1:+77758063 MS.gene38057:CDS
CGAGTATTCTTCAAGTGGAT+CGG 0.453450 5.1:+77757941 MS.gene38057:CDS
AACTGTATTGCTCATTGGGT+TGG 0.457601 5.1:-77757456 None:intergenic
TTGGAGGCGACGACGGATTG+TGG 0.464331 5.1:-77757437 None:intergenic
TGTATTGCTCATTGGGTTGG+AGG 0.469216 5.1:-77757453 None:intergenic
ATTCAATATCATTCGTCAGT+TGG 0.476456 5.1:+77757357 MS.gene38057:CDS
CTTCAAGTGGATCGGGCCAT+TGG 0.478735 5.1:+77757949 MS.gene38057:CDS
TGGAGGCGACGACGGATTGT+GGG 0.482460 5.1:-77757436 None:intergenic
TCAATGGACACTGAATTTCC+GGG 0.489187 5.1:+77757400 MS.gene38057:CDS
GAGTATTCTTCAAGTGGATC+GGG 0.498516 5.1:+77757942 MS.gene38057:CDS
AATATCATTCGTCAGTTGGT+TGG 0.513084 5.1:+77757361 MS.gene38057:CDS
TGAGCAATACAGTTACTTGA+AGG 0.514649 5.1:+77757465 MS.gene38057:CDS
ATTGGTAAGTGCCATCAAGC+TGG 0.527440 5.1:+77757967 MS.gene38057:CDS
CTCACTTTATCGGATGGAAT+CGG 0.544364 5.1:+77757523 MS.gene38057:CDS
ATCGGCCTCACTTTATCGGA+TGG 0.548760 5.1:+77757517 MS.gene38057:CDS
GACTGCAATGATAATGATGA+AGG 0.560933 5.1:+77757273 None:intergenic
GACGACGGATTGTGGGTGAA+TGG 0.565974 5.1:-77757429 None:intergenic
CAATAGAGTCTTTGTTGTGG+AGG 0.573010 5.1:-77757618 None:intergenic
CATTGGGTTGGAGGCGACGA+CGG 0.576634 5.1:-77757444 None:intergenic
AATCATGATCCGTAAAGTGT+GGG 0.578633 5.1:+77757315 MS.gene38057:CDS
AGTTGCGAGTATTCTTCAAG+TGG 0.590018 5.1:+77757936 MS.gene38057:CDS
CAATCATGATCCGTAAAGTG+TGG 0.590475 5.1:+77757314 MS.gene38057:CDS
TGAGAACAGTCGCTACATCT+GGG 0.592809 5.1:+77757561 MS.gene38057:CDS
TAGCGACTGTTCTCATCATG+AGG 0.601877 5.1:-77757553 None:intergenic
TTTCAACAACTCAGTGACAT+GGG 0.602278 5.1:+77757738 MS.gene38057:CDS
ATTGACATGCTCCGCCATCA+GGG 0.602416 5.1:+77757637 MS.gene38057:CDS
TACTCTAATGCACTTTATGG+CGG 0.605426 5.1:+77757904 MS.gene38057:CDS
AGCTTGATGGCACTTACCAA+TGG 0.623590 5.1:-77757965 None:intergenic
CAGTGACTTTAACGTCAACA+GGG 0.627854 5.1:+77757594 MS.gene38057:CDS
TGTCAATAGAGTCTTTGTTG+TGG 0.637942 5.1:-77757621 None:intergenic
GCTCTCAATATCATTCAGAT+CGG 0.649260 5.1:+77757499 MS.gene38057:CDS
CATAAAGTGCATTAGAGTAG+CGG 0.649775 5.1:-77757900 None:intergenic
GACTGTTCTCATCATGAGGG+AGG 0.654467 5.1:-77757549 None:intergenic
CGATTCCATCCGATAAAGTG+AGG 0.659497 5.1:-77757522 None:intergenic
GATATTGAGAGCGTCAACGT+TGG 0.662239 5.1:-77757488 None:intergenic
ATCATGATCCGTAAAGTGTG+GGG 0.662913 5.1:+77757316 MS.gene38057:CDS
AGCGACTGTTCTCATCATGA+GGG 0.665310 5.1:-77757552 None:intergenic
ATCCAAAATCATACGCACTG+TGG 0.668840 5.1:-77757768 None:intergenic
GAAAGAAGTCGATACCCTGA+TGG 0.672581 5.1:-77757651 None:intergenic
CTGCGACGTCAACAAACTGT+CGG 0.689188 5.1:-77757992 None:intergenic
AGAAGTCGATACCCTGATGG+CGG 0.694888 5.1:-77757648 None:intergenic
ATCTGGTGAAAATCTTAACG+CGG 0.715080 5.1:+77757791 MS.gene38057:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAATACAATTTCATCTCAA+TGG + chr5.1:77757384-77757403 MS.gene38057:CDS 20.0%
!!! CATGTTTTGAGAAAATTATT+TGG + chr5.1:77757847-77757866 MS.gene38057:CDS 20.0%
AAGTAACTGTATTGCTCATT+GGG - chr5.1:77757463-77757482 None:intergenic 30.0%
ATTCAATATCATTCGTCAGT+TGG + chr5.1:77757357-77757376 MS.gene38057:CDS 30.0%
!!! ATCATGATTGGTTTTGAACT+AGG - chr5.1:77757304-77757323 None:intergenic 30.0%
AAAAACTCTTTCAAGCTACG+AGG - chr5.1:77757826-77757845 None:intergenic 35.0%
AATATCATTCGTCAGTTGGT+TGG + chr5.1:77757361-77757380 MS.gene38057:CDS 35.0%
AATCATGATCCGTAAAGTGT+GGG + chr5.1:77757315-77757334 MS.gene38057:CDS 35.0%
AATTGTATCCCCACACTTTA+CGG - chr5.1:77757327-77757346 None:intergenic 35.0%
ATCTGGTGAAAATCTTAACG+CGG + chr5.1:77757791-77757810 MS.gene38057:CDS 35.0%
CAAGTAACTGTATTGCTCAT+TGG - chr5.1:77757464-77757483 None:intergenic 35.0%
CATAAAGTGCATTAGAGTAG+CGG - chr5.1:77757903-77757922 None:intergenic 35.0%
GCTCTCAATATCATTCAGAT+CGG + chr5.1:77757499-77757518 MS.gene38057:CDS 35.0%
TACTCTAATGCACTTTATGG+CGG + chr5.1:77757904-77757923 MS.gene38057:CDS 35.0%
TGAGCAATACAGTTACTTGA+AGG + chr5.1:77757465-77757484 MS.gene38057:CDS 35.0%
TGTCAATAGAGTCTTTGTTG+TGG - chr5.1:77757624-77757643 None:intergenic 35.0%
TTTCAACAACTCAGTGACAT+GGG + chr5.1:77757738-77757757 MS.gene38057:CDS 35.0%
! TGCGTATGATTTTGGATATC+TGG + chr5.1:77757774-77757793 MS.gene38057:CDS 35.0%
! TTTTCAACAACTCAGTGACA+TGG + chr5.1:77757737-77757756 MS.gene38057:CDS 35.0%
AACTGTATTGCTCATTGGGT+TGG - chr5.1:77757459-77757478 None:intergenic 40.0%
AGTTGCGAGTATTCTTCAAG+TGG + chr5.1:77757936-77757955 MS.gene38057:CDS 40.0%
ATCATGATCCGTAAAGTGTG+GGG + chr5.1:77757316-77757335 MS.gene38057:CDS 40.0%
ATCCAAAATCATACGCACTG+TGG - chr5.1:77757771-77757790 None:intergenic 40.0%
CAATCATGATCCGTAAAGTG+TGG + chr5.1:77757314-77757333 MS.gene38057:CDS 40.0%
CACACTTTACGGATCATGAT+TGG - chr5.1:77757316-77757335 None:intergenic 40.0%
CAGTGACTTTAACGTCAACA+GGG + chr5.1:77757594-77757613 MS.gene38057:CDS 40.0%
CGAGTATTCTTCAAGTGGAT+CGG + chr5.1:77757941-77757960 MS.gene38057:CDS 40.0%
CGCTACTCTAATGCACTTTA+TGG + chr5.1:77757901-77757920 MS.gene38057:CDS 40.0%
CTCAATGGACACTGAATTTC+CGG + chr5.1:77757399-77757418 MS.gene38057:CDS 40.0%
CTCACTTTATCGGATGGAAT+CGG + chr5.1:77757523-77757542 MS.gene38057:CDS 40.0%
GAGTATTCTTCAAGTGGATC+GGG + chr5.1:77757942-77757961 MS.gene38057:CDS 40.0%
TCAATGGACACTGAATTTCC+GGG + chr5.1:77757400-77757419 MS.gene38057:CDS 40.0%
TCAGTGACTTTAACGTCAAC+AGG + chr5.1:77757593-77757612 MS.gene38057:CDS 40.0%
TTCTTTCGCAACACTGTTCA+AGG + chr5.1:77757667-77757686 MS.gene38057:CDS 40.0%
! AATGAAGTCAAAAAGCACGC+TGG + chr5.1:77758051-77758070 MS.gene38057:CDS 40.0%
! CAATAGAGTCTTTGTTGTGG+AGG - chr5.1:77757621-77757640 None:intergenic 40.0%
! TTCATTTTGCTACGCTGATG+CGG + chr5.1:77757701-77757720 MS.gene38057:CDS 40.0%
! TTCCACAGTGCGTATGATTT+TGG + chr5.1:77757766-77757785 MS.gene38057:CDS 40.0%
AAGCACGCTGGAGCAATATT+CGG + chr5.1:77758063-77758082 MS.gene38057:CDS 45.0%
AGCGACTGTTCTCATCATGA+GGG - chr5.1:77757555-77757574 None:intergenic 45.0%
ATGAGAACAGTCGCTACATC+TGG + chr5.1:77757560-77757579 MS.gene38057:CDS 45.0%
ATTGGTAAGTGCCATCAAGC+TGG + chr5.1:77757967-77757986 MS.gene38057:CDS 45.0%
CGATTCCATCCGATAAAGTG+AGG - chr5.1:77757525-77757544 None:intergenic 45.0%
GAAAGAAGTCGATACCCTGA+TGG - chr5.1:77757654-77757673 None:intergenic 45.0%
TAGCGACTGTTCTCATCATG+AGG - chr5.1:77757556-77757575 None:intergenic 45.0%
TCAGATCGGCCTCACTTTAT+CGG + chr5.1:77757513-77757532 MS.gene38057:CDS 45.0%
TGAGAACAGTCGCTACATCT+GGG + chr5.1:77757561-77757580 MS.gene38057:CDS 45.0%
! AGCTTGATGGCACTTACCAA+TGG - chr5.1:77757968-77757987 None:intergenic 45.0%
! GTCGCAGACTTTTCACAAGA+TGG + chr5.1:77758008-77758027 MS.gene38057:CDS 45.0%
!! GATATTGAGAGCGTCAACGT+TGG - chr5.1:77757491-77757510 None:intergenic 45.0%
!! TGTATTGCTCATTGGGTTGG+AGG - chr5.1:77757456-77757475 None:intergenic 45.0%
AACTGTCGGATCCAGCTTGA+TGG - chr5.1:77757981-77758000 None:intergenic 50.0%
AGAAGTCGATACCCTGATGG+CGG - chr5.1:77757651-77757670 None:intergenic 50.0%
ATCGGCCTCACTTTATCGGA+TGG + chr5.1:77757517-77757536 MS.gene38057:CDS 50.0%
ATTGACATGCTCCGCCATCA+GGG + chr5.1:77757637-77757656 MS.gene38057:CDS 50.0%
CTGCGACGTCAACAAACTGT+CGG - chr5.1:77757995-77758014 None:intergenic 50.0%
GACTGTTCTCATCATGAGGG+AGG - chr5.1:77757552-77757571 None:intergenic 50.0%
TATTGACATGCTCCGCCATC+AGG + chr5.1:77757636-77757655 MS.gene38057:CDS 50.0%
! ATTTTGCTACGCTGATGCGG+TGG + chr5.1:77757704-77757723 MS.gene38057:CDS 50.0%
CTTCAAGTGGATCGGGCCAT+TGG + chr5.1:77757949-77757968 MS.gene38057:CDS 55.0%
GTGGGTGAATGGACGATTCC+CGG - chr5.1:77757421-77757440 None:intergenic 55.0%
!! GACGACGGATTGTGGGTGAA+TGG - chr5.1:77757432-77757451 None:intergenic 55.0%
!! CATTGGGTTGGAGGCGACGA+CGG - chr5.1:77757447-77757466 None:intergenic 60.0%
!! TGGAGGCGACGACGGATTGT+GGG - chr5.1:77757439-77757458 None:intergenic 60.0%
!! TTGGAGGCGACGACGGATTG+TGG - chr5.1:77757440-77757459 None:intergenic 60.0%
GCTACGCTGATGCGGTGGTC+TGG + chr5.1:77757709-77757728 MS.gene38057:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 77757286 77758104 77757286 ID=MS.gene38057
chr5.1 mRNA 77757286 77758104 77757286 ID=MS.gene38057.t1;Parent=MS.gene38057
chr5.1 exon 77757286 77758104 77757286 ID=MS.gene38057.t1.exon1;Parent=MS.gene38057.t1
chr5.1 CDS 77757286 77758104 77757286 ID=cds.MS.gene38057.t1;Parent=MS.gene38057.t1
Gene Sequence

>MS.gene38057

ATGATGAAGGAAGAGCCTAGTTCAAAACCAATCATGATCCGTAAAGTGTGGGGATACAATTTGTTTTATGAATTCAATATCATTCGTCAGTTGGTTGGTAAATACAATTTCATCTCAATGGACACTGAATTTCCGGGAATCGTCCATTCACCCACAATCCGTCGTCGCCTCCAACCCAATGAGCAATACAGTTACTTGAAGGCCAACGTTGACGCTCTCAATATCATTCAGATCGGCCTCACTTTATCGGATGGAATCGGTAACCTCCCTCATGATGAGAACAGTCGCTACATCTGGGAATTTAATTTCAGTGACTTTAACGTCAACAGGGACCTCCACAACAAAGACTCTATTGACATGCTCCGCCATCAGGGTATCGACTTCTTTCGCAACACTGTTCAAGGTGTAGACTCGTTTCATTTTGCTACGCTGATGCGGTGGTCTGGACTGCTTTTCAACAACTCAGTGACATGGGTGACATTCCACAGTGCGTATGATTTTGGATATCTGGTGAAAATCTTAACGCGGCATTATCTTCCTCGTAGCTTGAAAGAGTTTTTGCATGTTTTGAGAAAATTATTTGGAAGAAACGTGTATGATATAAAGTATATGATCCGCTACTCTAATGCACTTTATGGCGGTCTCGAGCAAGTTGCGAGTATTCTTCAAGTGGATCGGGCCATTGGTAAGTGCCATCAAGCTGGATCCGACAGTTTGTTGACGTCGCAGACTTTTCACAAGATGGTGAACACATATTTTATCAACAATGAAGTCAAAAAGCACGCTGGAGCAATATTCGGATTAGAAGTCACATCTTGA
Protein sequence

>MS.gene38057.t1

MMKEEPSSKPIMIRKVWGYNLFYEFNIIRQLVGKYNFISMDTEFPGIVHSPTIRRRLQPNEQYSYLKANVDALNIIQIGLTLSDGIGNLPHDENSRYIWEFNFSDFNVNRDLHNKDSIDMLRHQGIDFFRNTVQGVDSFHFATLMRWSGLLFNNSVTWVTFHSAYDFGYLVKILTRHYLPRSLKEFLHVLRKLFGRNVYDIKYMIRYSNALYGGLEQVASILQVDRAIGKCHQAGSDSLLTSQTFHKMVNTYFINNEVKKHAGAIFGLEVTS