AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene70434


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene70434.t1 MTR_3g083080 69.583 240 40 3 1 240 1 207 1.58e-114 327
MS.gene70434.t1 MTR_3g083030 65.289 242 71 5 1 240 1 231 1.33e-103 300
MS.gene70434.t1 MTR_3g083050 52.066 242 80 5 1 240 1 208 1.33e-72 220
MS.gene70434.t1 MTR_3g082340 35.223 247 126 8 1 238 1 222 1.70e-33 120
MS.gene70434.t1 MTR_3g082420 37.826 230 120 9 17 238 7 221 3.53e-32 117
MS.gene70434.t1 MTR_3g086030 50.000 108 46 1 54 161 4 103 1.49e-25 98.2
MS.gene70434.t1 MTR_3g083150 34.568 243 122 7 1 238 1 211 5.30e-25 98.6
MS.gene70434.t1 MTR_3g080680 34.615 208 113 9 39 238 6 198 5.71e-20 84.7
MS.gene70434.t1 MTR_3g083100 46.591 88 38 2 160 238 86 173 6.33e-17 76.3
MS.gene70434.t1 MTR_8g461300 36.416 173 85 10 83 238 34 198 1.34e-16 75.9
MS.gene70434.t1 MTR_4g055800 31.651 218 117 8 27 232 85 282 2.43e-15 73.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 65 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAATTCCGGTTCGGATTTC+AGG 0.202617 3.1:+66260489 None:intergenic
CAGGCCTCCTGTCCCATACT+TGG 0.214136 3.1:+66259720 None:intergenic
CGCCCACACATAAACATAAA+AGG 0.266595 3.1:+66260290 None:intergenic
TTCAGTTCCGGTGGCAATTC+CGG 0.272860 3.1:+66260440 None:intergenic
CAAGTATGGGACAGGAGGCC+TGG 0.285262 3.1:-66259719 MS.gene70434:CDS
TCATATTTCTCTCGCCGTTT+CGG 0.296681 3.1:+66260380 None:intergenic
TCCGGTTCCGACTTCAGTTC+GGG 0.301504 3.1:+66260458 None:intergenic
TCGGGTTCAGGTTGCAATTC+CGG 0.306399 3.1:+66260476 None:intergenic
TCCGACTTCAGTTCGGGTTC+AGG 0.333407 3.1:+66260464 None:intergenic
TTCGGCTGCGACTTCAGTTC+CGG 0.363626 3.1:+66260398 None:intergenic
GCGATTTACGTACAAGAATA+AGG 0.366136 3.1:-66260270 MS.gene70434:CDS
TCCGGTTCCAACTTCAGTTC+CGG 0.379777 3.1:+66260428 None:intergenic
TTCCGGTTCCGACTTCAGTT+CGG 0.385258 3.1:+66260457 None:intergenic
TCGCCAGGGCTAAGCATAGA+AGG 0.414237 3.1:-66260217 MS.gene70434:CDS
TCCTGTCCCATACTTGGGCC+TGG 0.435293 3.1:+66259726 None:intergenic
TTCAGGTTGCAATTCCGGTT+CGG 0.449691 3.1:+66260481 None:intergenic
GAATCACATACATGTTTGTT+CGG 0.450921 3.1:-66260557 MS.gene70434:CDS
AAGTATGGGACAGGAGGCCT+GGG 0.453171 3.1:-66259718 MS.gene70434:CDS
ACCCGAACTGAAGTCGGAAC+CGG 0.459886 3.1:-66260459 MS.gene70434:CDS
GAGTTCAAGGCGAAGATCAT+TGG 0.466501 3.1:+66260012 None:intergenic
TATGTGTTAGGTAGGCTTCA+TGG 0.467600 3.1:+66259673 None:intergenic
TTCAGTTCCGGTGCTAACTC+CGG 0.468654 3.1:+66260410 None:intergenic
CAGGAGGCCTGGGCCACCTG+TGG 0.469194 3.1:-66259708 MS.gene70434:CDS
AGGCCTCCTGTCCCATACTT+GGG 0.473912 3.1:+66259721 None:intergenic
GACTTGACCACAGGTGGCCC+AGG 0.480427 3.1:+66259701 None:intergenic
TGCAGAGGGGAGTGAGTTCA+AGG 0.488921 3.1:+66259999 None:intergenic
ACCGGAACTGAAGTTGGAAC+CGG 0.489325 3.1:-66260429 MS.gene70434:CDS
TCCAGGCCCAAGTATGGGAC+AGG 0.489866 3.1:-66259727 MS.gene70434:CDS
GGCTCAGATTCAACAAGATA+AGG 0.491800 3.1:-66260249 MS.gene70434:CDS
GAAAATTATAGCAGGGCTGT+TGG 0.493991 3.1:+66259748 None:intergenic
ATAAGGATATTAGAATCGCC+AGG 0.505840 3.1:-66260232 MS.gene70434:CDS
TCATCGCAGCAATCCGTGGC+AGG 0.518220 3.1:+66260524 None:intergenic
ATTGCCACCGGAACTGAAGT+TGG 0.518984 3.1:-66260435 MS.gene70434:CDS
AACTGAAGTCGCAGCCGAAA+CGG 0.523556 3.1:-66260394 MS.gene70434:CDS
TGGGCCTGGAAAATTATAGC+AGG 0.523864 3.1:+66259740 None:intergenic
CAAGTACAATGCTGAGAACC+AGG 0.527031 3.1:-66259963 MS.gene70434:intron
AACGGCGAGAGAAATATGAA+TGG 0.532868 3.1:-66260376 MS.gene70434:CDS
GCGCCTTCTATGCTTAGCCC+TGG 0.537473 3.1:+66260214 None:intergenic
AAGATCATTGGTTAAGTCGA+TGG 0.537635 3.1:+66260024 None:intergenic
ACGGCGAGAGAAATATGAAT+GGG 0.545074 3.1:-66260375 MS.gene70434:CDS
CTGACATTGTGAAGACAACC+TGG 0.546641 3.1:-66259832 MS.gene70434:CDS
GAAGTGCCTGAAATCCGAAC+CGG 0.551355 3.1:-66260495 MS.gene70434:CDS
CGGCGTCATCCGACCTGCCA+CGG 0.552704 3.1:-66260537 MS.gene70434:CDS
GTGAAGACAACCTGGAGACC+TGG 0.554795 3.1:-66259824 MS.gene70434:CDS
ATACATACGACCAGGTCTCC+AGG 0.556794 3.1:+66259814 None:intergenic
GTCTAATGCAAACTTGCAGA+GGG 0.557076 3.1:+66259985 None:intergenic
ACGGATTGCTGCGATGAAAG+AGG 0.563989 3.1:-66260518 MS.gene70434:CDS
CGGATTGCTGCGATGAAAGA+GGG 0.569780 3.1:-66260517 MS.gene70434:CDS
ACCTGAACCCGAACTGAAGT+CGG 0.580010 3.1:-66260465 MS.gene70434:CDS
ATTATAGCAGGGCTGTTGGA+AGG 0.580406 3.1:+66259752 None:intergenic
CGCAGCAATCCGTGGCAGGT+CGG 0.581919 3.1:+66260528 None:intergenic
AGATCATTGGTTAAGTCGAT+GGG 0.582159 3.1:+66260025 None:intergenic
ATGGCACACGACTTGACCAC+AGG 0.585274 3.1:+66259692 None:intergenic
GTCGGAACCGGAATTGCCAC+CGG 0.601982 3.1:-66260447 MS.gene70434:CDS
TGTCTAATGCAAACTTGCAG+AGG 0.606673 3.1:+66259984 None:intergenic
TCTTTCATCGCAGCAATCCG+TGG 0.614163 3.1:+66260520 None:intergenic
GTTGGAACCGGAGTTAGCAC+CGG 0.614360 3.1:-66260417 MS.gene70434:CDS
GGTTCCAACTTCAGTTCCGG+TGG 0.621297 3.1:+66260431 None:intergenic
AGGCCCAAGTATGGGACAGG+AGG 0.621879 3.1:-66259724 MS.gene70434:CDS
TGATGATGTATGTGTTAGGT+AGG 0.637118 3.1:+66259665 None:intergenic
GGGCCTGGAAAATTATAGCA+GGG 0.644489 3.1:+66259741 None:intergenic
GCACACGACTTGACCACAGG+TGG 0.646887 3.1:+66259695 None:intergenic
TAAGGATATTAGAATCGCCA+GGG 0.647318 3.1:-66260231 MS.gene70434:CDS
GTAATGTAATACATACGACC+AGG 0.698620 3.1:+66259806 None:intergenic
TCTAATGCAAACTTGCAGAG+GGG 0.755777 3.1:+66259986 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ACTAATTTTTCTCATGATTT+AGG - chr3.1:66260372-66260391 MS.gene70434:CDS 20.0%
! TTCTTGTAATTTATTGAACC+TGG + chr3.1:66260303-66260322 None:intergenic 25.0%
GAATCACATACATGTTTGTT+CGG - chr3.1:66259688-66259707 MS.gene70434:CDS 30.0%
! AAGCCTTTTATGTTTATGTG+TGG - chr3.1:66259952-66259971 MS.gene70434:intron 30.0%
! AGCCTTTTATGTTTATGTGT+GGG - chr3.1:66259953-66259972 MS.gene70434:intron 30.0%
!!! CAATGTAGATTTGCTTTTTC+TGG + chr3.1:66260190-66260209 None:intergenic 30.0%
!!! TTCTTGTTTTTGTGCTTGAA+AGG + chr3.1:66260464-66260483 None:intergenic 30.0%
ATAAGGATATTAGAATCGCC+AGG - chr3.1:66260013-66260032 MS.gene70434:CDS 35.0%
GCGATTTACGTACAAGAATA+AGG - chr3.1:66259975-66259994 MS.gene70434:CDS 35.0%
GTAATGTAATACATACGACC+AGG + chr3.1:66260442-66260461 None:intergenic 35.0%
TAAGGATATTAGAATCGCCA+GGG - chr3.1:66260014-66260033 MS.gene70434:CDS 35.0%
TAGATAGATGCGTTACTGAT+AGG + chr3.1:66260065-66260084 None:intergenic 35.0%
! AAGATCATTGGTTAAGTCGA+TGG + chr3.1:66260224-66260243 None:intergenic 35.0%
! AGATCATTGGTTAAGTCGAT+GGG + chr3.1:66260223-66260242 None:intergenic 35.0%
!!! TGTAGATTTGCTTTTTCTGG+AGG + chr3.1:66260187-66260206 None:intergenic 35.0%
AACGGCGAGAGAAATATGAA+TGG - chr3.1:66259869-66259888 MS.gene70434:intron 40.0%
ACGGCGAGAGAAATATGAAT+GGG - chr3.1:66259870-66259889 MS.gene70434:intron 40.0%
CGCCCACACATAAACATAAA+AGG + chr3.1:66259958-66259977 None:intergenic 40.0%
GAAAATTATAGCAGGGCTGT+TGG + chr3.1:66260500-66260519 None:intergenic 40.0%
GGCTCAGATTCAACAAGATA+AGG - chr3.1:66259996-66260015 MS.gene70434:CDS 40.0%
GTCTAATGCAAACTTGCAGA+GGG + chr3.1:66260263-66260282 None:intergenic 40.0%
TCATATTTCTCTCGCCGTTT+CGG + chr3.1:66259868-66259887 None:intergenic 40.0%
TCTAATGCAAACTTGCAGAG+GGG + chr3.1:66260262-66260281 None:intergenic 40.0%
TGTCTAATGCAAACTTGCAG+AGG + chr3.1:66260264-66260283 None:intergenic 40.0%
! AATTTTCCAGGCCCAAGTAT+GGG - chr3.1:66260513-66260532 MS.gene70434:CDS 40.0%
! TAATTTTCCAGGCCCAAGTA+TGG - chr3.1:66260512-66260531 MS.gene70434:CDS 40.0%
ATTATAGCAGGGCTGTTGGA+AGG + chr3.1:66260496-66260515 None:intergenic 45.0%
CAAGTACAATGCTGAGAACC+AGG - chr3.1:66260282-66260301 MS.gene70434:CDS 45.0%
CTGACATTGTGAAGACAACC+TGG - chr3.1:66260413-66260432 MS.gene70434:CDS 45.0%
GAGTTCAAGGCGAAGATCAT+TGG + chr3.1:66260236-66260255 None:intergenic 45.0%
GGGCCTGGAAAATTATAGCA+GGG + chr3.1:66260507-66260526 None:intergenic 45.0%
TGGGCCTGGAAAATTATAGC+AGG + chr3.1:66260508-66260527 None:intergenic 45.0%
! CAGCCCTGCTATAATTTTCC+AGG - chr3.1:66260501-66260520 MS.gene70434:CDS 45.0%
!! TTCAGGTTGCAATTCCGGTT+CGG + chr3.1:66259767-66259786 None:intergenic 45.0%
AACTGAAGTCGCAGCCGAAA+CGG - chr3.1:66259851-66259870 MS.gene70434:CDS 50.0%
ACCGGAACTGAAGTTGGAAC+CGG - chr3.1:66259816-66259835 MS.gene70434:CDS 50.0%
ACCTGAACCCGAACTGAAGT+CGG - chr3.1:66259780-66259799 MS.gene70434:CDS 50.0%
ATACATACGACCAGGTCTCC+AGG + chr3.1:66260434-66260453 None:intergenic 50.0%
ATTGCCACCGGAACTGAAGT+TGG - chr3.1:66259810-66259829 MS.gene70434:CDS 50.0%
CGGATTGCTGCGATGAAAGA+GGG - chr3.1:66259728-66259747 MS.gene70434:CDS 50.0%
TCCGGTTCCAACTTCAGTTC+CGG + chr3.1:66259820-66259839 None:intergenic 50.0%
TCTTTCATCGCAGCAATCCG+TGG + chr3.1:66259728-66259747 None:intergenic 50.0%
TTCAGTTCCGGTGGCAATTC+CGG + chr3.1:66259808-66259827 None:intergenic 50.0%
TTCCGGTTCCGACTTCAGTT+CGG + chr3.1:66259791-66259810 None:intergenic 50.0%
! ACGGATTGCTGCGATGAAAG+AGG - chr3.1:66259727-66259746 MS.gene70434:CDS 50.0%
! GAAGTGCCTGAAATCCGAAC+CGG - chr3.1:66259750-66259769 MS.gene70434:CDS 50.0%
! TTCAGTTCCGGTGCTAACTC+CGG + chr3.1:66259838-66259857 None:intergenic 50.0%
!! GCAATTCCGGTTCGGATTTC+AGG + chr3.1:66259759-66259778 None:intergenic 50.0%
!! TCGGGTTCAGGTTGCAATTC+CGG + chr3.1:66259772-66259791 None:intergenic 50.0%
!!! TGCTTTTTCTGGAGGAGCGA+TGG + chr3.1:66260179-66260198 None:intergenic 50.0%
AAGTATGGGACAGGAGGCCT+GGG - chr3.1:66260527-66260546 MS.gene70434:CDS 55.0%
ACCCGAACTGAAGTCGGAAC+CGG - chr3.1:66259786-66259805 MS.gene70434:CDS 55.0%
AGGCCTCCTGTCCCATACTT+GGG + chr3.1:66260527-66260546 None:intergenic 55.0%
ATGGCACACGACTTGACCAC+AGG + chr3.1:66260556-66260575 None:intergenic 55.0%
GGTTCCAACTTCAGTTCCGG+TGG + chr3.1:66259817-66259836 None:intergenic 55.0%
GTGAAGACAACCTGGAGACC+TGG - chr3.1:66260421-66260440 MS.gene70434:CDS 55.0%
GTTGGAACCGGAGTTAGCAC+CGG - chr3.1:66259828-66259847 MS.gene70434:CDS 55.0%
TCCGGTTCCGACTTCAGTTC+GGG + chr3.1:66259790-66259809 None:intergenic 55.0%
TCGCCAGGGCTAAGCATAGA+AGG - chr3.1:66260028-66260047 MS.gene70434:CDS 55.0%
TGCAGAGGGGAGTGAGTTCA+AGG + chr3.1:66260249-66260268 None:intergenic 55.0%
TTCGGCTGCGACTTCAGTTC+CGG + chr3.1:66259850-66259869 None:intergenic 55.0%
! TCCGACTTCAGTTCGGGTTC+AGG + chr3.1:66259784-66259803 None:intergenic 55.0%
AGGCCCAAGTATGGGACAGG+AGG - chr3.1:66260521-66260540 MS.gene70434:CDS 60.0%
CAAGTATGGGACAGGAGGCC+TGG - chr3.1:66260526-66260545 MS.gene70434:CDS 60.0%
CAGGCCTCCTGTCCCATACT+TGG + chr3.1:66260528-66260547 None:intergenic 60.0%
GCACACGACTTGACCACAGG+TGG + chr3.1:66260553-66260572 None:intergenic 60.0%
GCGCCTTCTATGCTTAGCCC+TGG + chr3.1:66260034-66260053 None:intergenic 60.0%
GTCGGAACCGGAATTGCCAC+CGG - chr3.1:66259798-66259817 MS.gene70434:CDS 60.0%
TCATCGCAGCAATCCGTGGC+AGG + chr3.1:66259724-66259743 None:intergenic 60.0%
TCCAGGCCCAAGTATGGGAC+AGG - chr3.1:66260518-66260537 MS.gene70434:CDS 60.0%
TCCTGTCCCATACTTGGGCC+TGG + chr3.1:66260522-66260541 None:intergenic 60.0%
CGCAGCAATCCGTGGCAGGT+CGG + chr3.1:66259720-66259739 None:intergenic 65.0%
GACTTGACCACAGGTGGCCC+AGG + chr3.1:66260547-66260566 None:intergenic 65.0%
CGGCGTCATCCGACCTGCCA+CGG - chr3.1:66259708-66259727 MS.gene70434:CDS 70.0%
CAGGAGGCCTGGGCCACCTG+TGG - chr3.1:66260537-66260556 MS.gene70434:CDS 75.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 66259679 66260588 66259679 ID=MS.gene70434
chr3.1 mRNA 66259679 66260588 66259679 ID=MS.gene70434.t1;Parent=MS.gene70434
chr3.1 exon 66260199 66260588 66260199 ID=MS.gene70434.t1.exon1;Parent=MS.gene70434.t1
chr3.1 CDS 66260199 66260588 66260199 ID=cds.MS.gene70434.t1;Parent=MS.gene70434.t1
chr3.1 exon 66259964 66260101 66259964 ID=MS.gene70434.t1.exon2;Parent=MS.gene70434.t1
chr3.1 CDS 66259964 66260101 66259964 ID=cds.MS.gene70434.t1;Parent=MS.gene70434.t1
chr3.1 exon 66259679 66259873 66259679 ID=MS.gene70434.t1.exon3;Parent=MS.gene70434.t1
chr3.1 CDS 66259679 66259873 66259679 ID=cds.MS.gene70434.t1;Parent=MS.gene70434.t1
Gene Sequence

>MS.gene70434

ATGTCGATGGAATCACATACATGTTTGTTCGGCGTCATCCGACCTGCCACGGATTGCTGCGATGAAAGAGGGAAGTGCCTGAAATCCGAACCGGAATTGCAACCTGAACCCGAACTGAAGTCGGAACCGGAATTGCCACCGGAACTGAAGTTGGAACCGGAGTTAGCACCGGAACTGAAGTCGCAGCCGAAACGGCGAGAGAAATATGAATGGGAATTGAAACGCTTTGAAGATCTTGAGATTAGTGACTTCTCTATGTATGACGATGACATTAAGCCTTTTATGTTTATGTGTGGGCGATTTACGTACAAGAATAAGGCTCAGATTCAACAAGATAAGGATATTAGAATCGCCAGGGCTAAGCATAGAAGGCGCTCTCGCAACCTATCAGTAACGCATCTATCTAACTATCTATCTATTTCAATTTCATTGTGTTTCACTTATAATAATCTAATTTCTTCATTTTGATTGATTCTGAACAACACAGCTTTTCGATGCCATCGCTCCTCCAGAAAAAGCAAATCTACATTGCAGTGCTGTACCCATCGACTTAACCAATGATCTTCGCCTTGAACTCACTCCCCTCTGCAAGTTTGCATTAGACAAGTACAATGCTGAGAACCAGGTTCAATAAATTACAAGAATTATTAAGAATTATTATATATGCATATACATTTGTTTATTCATCGTTGAACTAATTTTTCTCATGATTTAGGCTGCAAATTTTGTGTTAGCTGACATTGTGAAGACAACCTGGAGACCTGGTCGTATGTATTACATTACCTTTCAAGCACAAAAACAAGAACAAGAAGATCCTTCCAACAGCCCTGCTATAATTTTCCAGGCCCAAGTATGGGACAGGAGGCCTGGGCCACCTGTGGTCAAGTCGTGTGCCATGAAGCCTACCTAA

Protein sequence

>MS.gene70434.t1

MSMESHTCLFGVIRPATDCCDERGKCLKSEPELQPEPELKSEPELPPELKLEPELAPELKSQPKRREKYEWELKRFEDLEISDFSMYDDDIKPFMFMCGRFTYKNKAQIQQDKDIRIARAKHRRRSRNLSLFDAIAPPEKANLHCSAVPIDLTNDLRLELTPLCKFALDKYNAENQAANFVLADIVKTTWRPGRMYYITFQAQKQEQEDPSNSPAIIFQAQVWDRRPGPPVVKSCAMKPT