Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttctagtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaatactcttttcctattgatgaatcttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG

Basic information

species Glycine max
transcript GLYMA09G11960.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G11960.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g59700.1 (Oryza sativa), 3'ss of exon 5
-------------------------------------------------------------------gtaactttctagtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaatt---ggt---------aatactcttttcctattgatga-atcttctcttct--tgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                                                                   | ||  |||  |  |    | | |       ||   |||  ||  |  |     | | | ||| |  | ||   |||           |||  | |||||    ||   ||||||| ||||  |||||||||||||||||||| |||||||||||||| ||||| |||||||||||||| || ||||||
gtacttcttttgataactgctctattttttttctgtgtggctgtagattttttatccagctggttttgcaatcttcgggctggggtactgttttgggattgtattttgttctctatacaaaattagcaatatccagttccaggtttcttttcagttacagtattcctgaaaatattatcttctattcttatgcttgcagTTCTTTATAACTTGTGCAAAATGTGAATGGCTGGACAACAAGCATGTGGTTTTTGGG

upper sequence: GLYMA09G11960.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G057329_T01 (Zea mays), 3'ss of exon 5
---------------------------gtaactttc-tagtggtcacattctcacttacttccttttcc--tttccattttctcag--tggtaatgtt---------aaattggtaatactcttttcctat--------------------tgatgaa---tcttctcttct-tgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                           ||| | ||  |    | | || || |||| | || | ||  |  |  | |||   |||     || |||||         ||| ||   | |    |||| | |                    |||||||     | | ||  | ||||||||||||||||||||||||||||| |||||||||||||||||||| ||||| || ||||||
gtacgttcgccttctctaaaattgcatgtagccttaatgcctgactcagtcacactcagttgccttggcaatgcctattccttcaagccagtcatgtttaagaacaaaaaatgactagatatctttcttgtacaccctgttttagagtacatgatgaaaagcttacactcttgtgcttgcagTTCTTTATAACATGTGCAAAGTGTGACTGGCTTGACAACAAACATGTGGTATTTGGG

upper sequence: GLYMA09G11960.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G38730.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------gtaactttctagtg-gtcacattctcacttacttcctttt--cctttccattttctcagtggtaatgttaaattggtaat-actcttttcctattgatgaatcttctcttcttgc-ttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                       |||  | | || || | || |||  |||  |  |     |  |     ||||       || |    | |  ||   | | |  || |   |||| ||    |||  ||| |||| ||||||||||| || || ||||||||||| || ||||||||||||||||||||||||||||||
gtaatttcagtctcattatatttgtacttctgtaatgagacaaattgacacaaaaatgtagataacgaaagcattgagcatttgatgccttcaggttatcatttaggctataattattaatcg-cctttgctttttgcattgcagTTCTTCATCACTTGTGCAAAATGCGATTGGCTTGACAACAAGCATGTTGTCTTTGGG

upper sequence: GLYMA09G11960.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0084g00620.t01 (Vitis vinifera), 3'ss of exon 4
gtaactttctagtggtcacattctcact-tacttccttttcctttccattttctcagtggtaatgttaaattggtaatactcttttcctattgatgaatcttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
      |  | || |  |  |  ||| | ||| |        |||  || || |      |  |  |||||| ||  |||  | ||| | |||| |      ||  | ||||| |||||||||||| |||||  | ||||||||||||||||||||||||||||| || || |||
------tattggtag--atttgatcattgtaccttaaaaagattttaatgtttttgact-tggttataaatttgtt-taccatattcat-ttgaag------ctacttttgct-gcagTTCTTTATCACATGCTCGAAATGTGACTGGCTTGACAACAAGCATGTGGTATTCGGG

upper sequence: GLYMA09G11960.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ31848 (Selaginella moellendorffii), 3'ss of exon 5
gtaactttctagtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaatactcttttcctattgatgaatcttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                                              | ||| |     || || ||   | ||| ||   || | | ||  || ||      | || ||   || ||||||||||||| || || ||||| |||||||| |||||||||||||| || ||||| 
--------------------------------------------gtacttttt-----gtgatcttctgtgggtgat---ctatacttacggaaga------tgttgtt-tgtgtagTTCTTTATAACTTGCGCCAAATGCGACTGGCTCGACAACAAGCATGTGGTGTTTGGA

upper sequence: GLYMA09G11960.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ38013 (Selaginella moellendorffii), 3'ss of exon 5
gtaactttctagtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaatactcttttcctattgatgaatcttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                                                  |     | || || ||   | | | ||   || | | ||  || ||     |  |  |||  || ||||||||||||| || || ||||| |||||||| |||||||||||||| || ||||| 
-------------------------------------------------gtgctttttgtgatcttctgtggatgat---ctatacttacggaaga-----cgttgtttg--tgtagTTCTTTATAACTTGCGCCAAATGCGACTGGCTCGACAACAAGCATGTGGTGTTTGGA

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|6719223|gb|AW306870.1|AW306870
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|151409781|gb|EV279589.1|EV279589
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|192325817|gb|FK018039.1|FK018039
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298167097|gb|HO010536.1|HO010536
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGC
EST: gi|15286510|gb|BI470401.1|BI470401
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298172912|gb|HO019896.1|HO019896
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTG
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTG
EST: gi|193693132|gb|FK633737.1|FK633737
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|15814116|gb|BI786391.1|BI786391
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|192320580|gb|FK011990.1|FK011990
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298182560|gb|HO031295.1|HO031295
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|17023477|gb|BM094511.1|BM094511
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|208125827|gb|GD922033.1|GD922033
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGCC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298188736|gb|HO035429.1|HO035429
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|10847406|gb|BF070093.1|BF070093
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCT
genomic: GCAAATAGCGGACAAAATACCAATGGGTGTCAGgtaactttct ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttaaattggtaatactcttttcctattgatgaatcttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                         tattgat  putative branch site (score: 3)
                                   tcttctcttcttgctt  putative PPT
           taatact  TA-rich tract