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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaaagtttgagtcaataaatctctctccccttagcccttcaaaaaaaatgtttttctttcctgacattcatttaattcacatttaccaaatgatgcagTGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGGTTGATACTGTACTTAATTTACATTATTTTTTGCTTCATCCTCTTTTC

Basic information

species Glycine max
transcript GLYMA06G15180.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G15180.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g43470.1 (Oryza sativa), 3'ss of exon 8
aaaaaagtttgagtcaataaatctctctccccttagcccttcaaaaaaaatgtttttctttcctgacattcatttaattcacatttaccaaatgatgcagTGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGGTTGATACTGTACTTAATTTACATTATTTTTTGCTTCATCCTCTTTTC
                 | | | |||       || |   ||  || |  | | |  || |  |  |||   | |   | ||   |  ||||   |||||||| ||||| |||||||| || | ||| || |||||||| ||||||||||||                                                
----------------gtgagtatcttcatttgtatcttgtctgaatatttttgtccctgttatc-catctgtgtggctaactgctcacaaaacctgcagTGCATTGGTGTGGGGTTCTAGCGTGAAGCATAAGCCTCAGAGAGTTGGCAAG------------------------------------------------

upper sequence: GLYMA06G15180.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G158021_T01 (Zea mays), 3'ss of exon 8
----------------------aaaaaagtttgagtcaat--aaatctctctccccttagcccttcaaaaaaaatgtt--tttctttcctgacattcatttaattcacatttaccaaatgatgcagTGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGGTTGATACTGTACTTAATTTACATTATTTTTTGCTTCATCCTCTTTTC
                      |  |  || | | |  |    ||||| |    |          || | ||  | ||  ||  |||  || |  || | |     |  |   |||||   ||||| ||| |||| |||||||| |||| |||||| |||||||| ||||||||||||                                                
gtgagtgccatataattatgttattattgtctcacttgaatggaatcttttgatcggctatgtaccagataattttttacttgtttttttggccctcgtct---ctaactgctccaaaaattgcagCGCTCTGGTATGGGGTTCCAGTGTGAAACATAAGCCTCAGAGAGTTGGCAAG------------------------------------------------

upper sequence: GLYMA06G15180.1 (Glycine max), 3'ss of exon 8
lower sequence: AT4G39520.1 (Arabidopsis thaliana), 3'ss of exon 8
-aaaaaagtttgagtcaataa-atctctctccccttagcccttcaaaaaaaatgttttt---ctttcctgacattcatttaattcacatttaccaaatgatgcagTGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGGTTGATACTGTACTTAATTTACATTATTTTTTGCTTCATCCTCTTTTC
  ||  | ||  | ||  ||| || | |||   ||  |   |  |       || |      | |  || |     | |||| | |   |  ||   |||| ||| ||| |||| |||||||||||||| ||||||||||| ||||||||||| |||                                                
gtaagtaattaaaatccttaacatttttcttttctctgttat--atggttcttgctcaaaagcatcgctcatgaatacttaactaatgatctcc---tgatacagCGCTCTGGTTTGGGGTTCAAGTGCCAAACACAAGCCACAAAGAGTTGGAAAG------------------------------------------------

upper sequence: GLYMA06G15180.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0031g01620.t01 (Vitis vinifera), 3'ss of exon 8
aaaaaagtttgagtcaataaatctctctcccctt----agcccttcaaaaaaaatgtttt--tctttcctgacattcatttaattcacattt--accaaatgatgcagTGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGGTTGATACTGTACTTAATTTACATTATTTTTTGCTTCATCCTCTTTTC
           ||   |  |  |||| |    ||    |    ||   | | |   |     | || |||  |       |||| ||  ||      ||||| |||||||| || |||||||| ||||| | |||||||||||| ||||||||||||| |                                                
--------cctagctgaatatcctctttgggtttgaataaatatttgtagacatcatcacgattttaccttgctgaatcctaatgcattttctgggtaaatgttgcagTGCATTAGTCTGGGGATCAAGCGTGAAACACAAGCCCCAAAGAGTTGGCAGG------------------------------------------------

upper sequence: GLYMA06G15180.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S26_115V6.1 (Physcomitrella patens), 3'ss of exon 8
------------aaaaaagtttgagtcaataaatctctctccccttagcccttcaaaaaaaatgtttttctttcctgac----------attcatttaattcacatt-----taccaaatg-atg-cagTGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGGTTGATACTGTACTTAATTTACATTATTTTTTGCTTCATCCTCTTTTC
                |  ||||  | |    ||||   |   |      ||  ||  |  || ||||| | |||| |           ||||| | ||||||  |      || || ||| ||| |||||||||||| ||||||||||| || ||||||||||| || ||||| || |||                                                
gtaagtcctgaagttgacatttggtttatgttatcttgattgtccattttctataactaccatatttttatatccttattttgatagtgattcactgaattcaactcatgagtatcatatggatgacagTGCTTTGGTGTGGGGTTCAAGCGCAAAACACAAGCCACAGAGAGTGGGAAAG------------------------------------------------

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|13481567|gb|BG510910.1|BG510910
EST:     GAGGACTTCTGCGATCTCATTCACAAGGACATGCTTAAACAGGTTAAGTA                         TGCTTTGGTCCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCA
genomic: GAGGACTTCTGCGATCGCATTCACAAGGACATGCTTAAACAGTTTAAGTAgtgagtactt ... aatgatgcagTGCTTTGGTC-TGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaatgtttttctttcctgacattcatttaattcacatttaccaaatgatgcagTGCTTTGGTCTGGGGTTCAAGTGCGAAACACAAGCCTCAAAGAGTTGGCAAGGTTGATACTGTACTTAATTTACATTATTTTTTGCTTCATCCTCTTTTC
                          atttaattcacattta  TA-rich tract