Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTTTCTCGCCAAACAAACACAAAATGGCTGCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactcatcaaatcaaagagtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag

Basic information

species Glycine max
transcript GLYMA16G24220.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os05g01560.1 (Oryza sativa), 5'ss of exon 1
CGTTTCTCGCCAAACAAACACAAAATG----GCTGCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactcatcaaatcaaagagtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag
       || | | | | ||| |  |      |  ||||||||||||| || ||||| |||||||| ||||||||||| |||||| | |||||||| || ||||||||    |  |||    |         ||   ||| |     | |  || ||  | |   |    ||  |  |   ||  ||                  
----CGACGGCGAGCGACCACCATGTCCTCCTCCACCTTCAGCGGCGATGAGACCGCCCCTTTCTTCGGCTTCCTCGGCGCCGCCTCCGCCCTCGTATTCTCCTgtaagctcccaatcttccc--------cttcactttctcggggccagatctgat-ctgagatgaggttgacacacgacgcatgcaag--------------

upper sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM5G893252_T01 (Zea mays), 5'ss of exon 1
CGTTTCTCGCCAAACAAACACAAAATGG---CTGCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactcatcaaatcaaaga--gtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag
       | |||     || ||    ||   |  |||||||||||||||| || || || ||||| ||||||||||| |||||||| || ||||| || ||||||||  | | ||||| |||        |   || | | | | || ||    ||| | ||  |  | |    ||   |  |   |  | |       |    ||
---CCACCTCCACCTCCACCCATGGCGGCCTCCACCTTCAGCGGCGACGAGACGGCGCCCTTCTTCGGCTTCCTCGGCGCCGCCGCCGCGCTCGTCTTCTCCTgtaagca-cccatcagatctccctccctcccttctctgtctctttcaccagccggatccaac--catccattcctcactcccatcacctcggctggtgcctag

upper sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G177005_T01 (Zea mays), 5'ss of exon 1
CGTTTCTCGCCAAACAAACACAAAATGGCTGCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactcatcaaatcaaagagtttttttttttttttttaca---atttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag-
        |||  |     | |    | | |  ||||||||||| || || || || ||||| ||||||||||| |||||||| |||||||| || || |||   |  | | || |  ||      ||||    ||  |    ||     ||||| |  |   |   |  | | |    |||  |   ||||  | |||||||  
AACAGGAAGCCGGAGGCGAAGATGTCGTCGGTGTTCAGCGGCGATGAGACGGCCCCCTTCTTCGGCTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgttccccttcga-ccatcctccttttccacttgctcgctcatgcgattccgtactcaaagctctagtttttt---ccggataaagtttg-gatttttcacc

upper sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G101020_T01 (Zea mays), 5'ss of exon 1
CGTTTCTCGCCAAACAAACACAAAATGGCTGCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactcatcaaatcaaag--agtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag
 |   |      ||     | |    | | || ||||||||||| || ||||| |||||||| |||||||| || ||| ||||||| ||||| || || ||||  |    |  |   ||      |  | || |  |||   || || | |      |||   | |  |      ||     | | || |   ||  |||   
AGCGGCAGCAGTAAGGGGGAGATGTCGTCGGCGTTCAGCGGCGATGAGACCGCCCCTTTCTTCGGCTTCCTTGGCGCCTCCGCTGCGCTCGTCTTCTCATgtacgtgcgccgcctcctcgtcctcacgtgttatactttcggttgcattgtttctttccgaatttgagtggggaaaaggttggagccgatcccgtccttt---

upper sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G19910.1 (Arabidopsis thaliana), 5'ss of exon 1
CGTTTCTCGCCAA--ACAAACACAAAATGGCTGCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaac---taactcatcaaatcaaagagtttttt-tttttttttttacaatttccgaaaccggcgtcgtttt-atctgaaaccgtgtgtcgtttttgttttttcag
    ||||  | |  || | | ||      |  | ||||||||||| ||||| || |||||||| || ||||| || || ||||| || |||||||| ||||||| |   | | |  || | ||      | | || | | ||||||| | |     ||    |       | | ||||||  |  |  |      || | ||| |||
-AGATCTCAACGACGACGAGC-CATGGCTTCAACTTTCAGCGGCGATGAAACTGCTCCTTTCTTCGGATTCCTTGGCGCTGCCGCCGCTCTCGTTTTCTCCTgtaccatctgatttctccattcccccgatctcttatctctttttttcccagaattgattttgatccaaatctgatctgatccgattcgatcggattatgttt-cag

upper sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
lower sequence: AT1G75630.2 (Arabidopsis thaliana), 5'ss of exon 1
CGTTTCTCGCCAAACAAACACAAAATGGCT--GCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaactcatcaaatcaaagagtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag
      ||  |||| |  ||     |   |  |  ||||||||||| ||||| || |||||||| || |||||||| ||||||||||| |||||||| ||||||||   | |  ||| |||      | | || |   |||     ||||     | ||   ||  ||||   |  |  ||  |  || |||  | |||||||
--ACAGTCATCAAAGAGCCAATGGCTTCTTCAGGTTTCAGCGGCGATGAAACTGCGCCTTTCTTCGGATTCCTCGGCGCCGCCGCTGCGCTCGTTTTCTCCTgtaa--gatt--tcagatccc----tctcttgtcaatttccccgaattgaatcacccaatgt--ttttgattcgattcgaat-ccgatttgatgttttcag

upper sequence: GLYMA16G24220.1 (Glycine max), 5'ss of exon 1
lower sequence: PP1S1_66V6.1 (Physcomitrella patens), 5'ss of exon 1
---CGTTTCT-CGCCAAACAAACACAAAATGGCTGCCTTCAGCGGCGACGAAACCGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaac-tcatcaaatcaaagagtttttt------tttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcag
   || | |  |||||     ||       ||| |  ||||  || || ||   ||| |||||||| |||||| |||||||||| ||||||||||| || || ||||   ||  ||  |   | |   |||||         | | |||  | |    || ||        |  |  || |  |||   |||   |||  |||         
ATTCGATCCGGCGCCATGTCGACCT----CGGCGGTGTTCAATGGGGATGAGGTCGCTCCTTTCTTCGGCTTCATCGGAGCCGCAGCTGCCCTCGTCTTCTCATgtacgcaatgtccgcccctgatgtagtttagaatcgggtctatttggtgatgggtttcgtggtattagatggatttttggaaggagtgctacgtccttga--------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|213620504|gb|DB957348.1|DB957348
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|4396139|gb|AI495136.1|AI495136
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|4293464|gb|AI437909.1|AI437909
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|207839834|gb|GD810923.1|GD810923
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|21677610|gb|BQ629961.1|BQ629961
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|213616647|gb|DB969171.1|DB969171
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|209719560|gb|BW651012.1|BW651012
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|10844231|gb|BF067545.1|BF067545
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|58016922|gb|CX703664.1|CX703664
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|58017335|gb|CX704077.1|CX704077
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|10235471|gb|BE804359.1|BE804359
EST:     CGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|213607931|gb|DB959186.1|DB959186
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|18735424|gb|BM528757.1|BM528757
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|9901554|gb|BE610522.1|BE610522
EST:     ACCCTTTCTTTGGTCTTCCTCGGAGCCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
genomic: A-CCTTTCTTTGG-CTTCCTCGGAG-CCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|213610661|gb|DB961136.1|DB961136
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCGCGAAGAGTGGCGTCGGGGTTGCGTCGA
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGA
EST: gi|10847454|gb|BF071547.1|BF071547
EST:     CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCT                         GTATGGGAGCGGCGTACGGAACCCGCGAAGAGCCGGCGTCGGGGTTGCGTC
genomic: CGCACCTTTCTTTGGCTTCCTCGGAGCCGCCGCTGCCCTCGTTTTTTCCTgtaactaact ... gttttttcagGTATGGGAGCGGCGTACGGAA-CCGCGAAGAG-CGGCGTCGGGGTTGCGTC