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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactttccagtggtcacattctcacttacttccttttccgtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaatactcttttcctattgatgaatgttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG

Basic information

species Glycine max
transcript GLYMA13G26260.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G26260.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g59700.1 (Oryza sativa), 3'ss of exon 5
------------------------------------------gtaactttccagtggtcacattctcacttacttccttttccgtggtcacattctcact-tacttccttttcctttccattttctcagtggt-aatgttaaattggt-----aatactcttttcctattgatga-atgttctcttct--tgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                                          |||  |||    |        | |  |   ||||    |  |        ||   | | || ||  || ||  | | |  ||  || |    | |   |  ||  |       |||  | |||||    ||   || |||| ||||  |||||||||||||||||||| |||||||||||||| ||||| |||||||||||||| || ||||||
gtacttcttttgataactgctctattttttttctgtgtggctgtagattttttatccagctggttttgcaatcttcgggctggggtactgttttgggattgtattttgttctctatacaaaattagcaatatccagttccaggtttcttttcagttacagtattcctgaaaatattatcttctattcttatgcttgcagTTCTTTATAACTTGTGCAAAATGTGAATGGCTGGACAACAAGCATGTGGTTTTTGGG

upper sequence: GLYMA13G26260.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G057329_T01 (Zea mays), 3'ss of exon 5
---------------------------gtaactttccagtg-gtcacattctcacttactt-ccttttccgtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaatactctttt------cctattgatgaatgttctcttct-tgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                           ||| | ||   |   | | || || |||| | || ||||  |  ||   |     |||      || | ||      ||     | | | |  || ||   |||   |  || ||||      | |  |||  |   | | ||  | ||||||||||||||||||||||||||||| |||||||||||||||||||| ||||| || ||||||
gtacgttcgccttctctaaaattgcatgtagccttaatgcctgactcagtcacactcagttgccttggcaatgcctattccttcaagccagtcatgtttaagaacaaaaaatgactagatatctttc-ttgtacaccctgttttagagtacatgatgaaaagcttacactcttgtgcttgcagTTCTTTATAACATGTGCAAAGTGTGACTGGCTTGACAACAAACATGTGGTATTTGGG

upper sequence: GLYMA13G26260.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G38730.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaactttccagtggtcacattctcacttacttccttttccgtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaat-actcttttcctattgatgaatgttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
|||| ||     |  | | |||   ||||   |  |    |    | |||    ||   |  |   |  |     ||||       || |    | |  ||   | | |  || |   |||| ||     ||   || |   ||||||||||| || || ||||||||||| || ||||||||||||||||||||||||||||||
gtaatttcagtctcattatatttgtacttctgtaatgagacaaattgaca----caaaaatgtagataacgaaagcattgagcatttgatgccttcaggttatcatttaggctataattattaatcgcctttgctttttgcattgcagTTCTTCATCACTTGTGCAAAATGCGATTGGCTTGACAACAAGCATGTTGTCTTTGGG

upper sequence: GLYMA13G26260.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0084g00620.t01 (Vitis vinifera), 3'ss of exon 4
gtaactttccagtggtcacattctcacttacttccttttccgtggtcacattctcacttacttccttttcctttccattttctcagtggtaatg-ttaaattggtaatactcttttcctattgatgaatgttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                                               |       | ||  |   | | ||||   |   | | | || |  ||  |   ||   |||    ||  | |||| ||       ||  | ||||| |||||||||||| |||||  | ||||||||||||||||||||||||||||| || || |||
----------------------------------------------tattggtagatttgatcattgtaccttaaaaagattttaatgtttttgacttggttataaatttgtttaccatattcatttgaag-ctacttttgct-gcagTTCTTTATCACATGCTCGAAATGTGACTGGCTTGACAACAAGCATGTGGTATTCGGG

upper sequence: GLYMA13G26260.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ31848 (Selaginella moellendorffii), 3'ss of exon 5
gtaactttccagtggtcacattctcacttacttccttttccgtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaatactcttttcctattgatgaatgttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                                                                            | ||| |     || || ||   | ||| ||   || | | ||  || || |||| | |       || ||||||||||||| || || ||||| |||||||| |||||||||||||| || ||||| 
--------------------------------------------------------------------------gtacttttt-----gtgatcttctgtgggtgat---ctatacttacggaaga-tgttgtttg------tgtagTTCTTTATAACTTGCGCCAAATGCGACTGGCTCGACAACAAGCATGTGGTGTTTGGA

upper sequence: GLYMA13G26260.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ38013 (Selaginella moellendorffii), 3'ss of exon 5
gtaactttccagtggtcacattctcacttacttccttttccgtggtcacattctcacttacttccttttcctttccattttctcagtggtaatgttaaattggtaatactcttttcctattgatgaatgttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                                                                                |     | || || ||    ||   ||  ||| | | ||  || ||  ||| | |       || ||||||||||||| || || ||||| |||||||| |||||||||||||| || ||||| 
-------------------------------------------------------------------------------gtgctttttgtgatctt---ctgtggatgatctatacttacggaaga-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|58015177|gb|CX701919.1|CX701919
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|58025427|gb|CX712168.1|CX712168
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298164520|gb|HO014165.1|HO014165
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|151408761|gb|EV278569.1|EV278569
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298179325|gb|HO027796.1|HO027796
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298174291|gb|HO017627.1|HO017627
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|58021016|gb|CX707758.1|CX707758
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298170313|gb|HO018937.1|HO018937
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|31561148|gb|CD486986.1|CD486986
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|58024086|gb|CX710827.1|CX710827
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|209704174|gb|BW664792.1|BW664792
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298180377|gb|HO025578.1|HO025578
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|193639764|gb|FK590093.1|FK590093
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|192333246|gb|FK026127.1|FK026127
EST:     GCAAATAGCAGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|16348066|gb|BI973661.1|BI973661
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|208315861|gb|GE110605.1|GE110605
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298172532|gb|HO019572.1|HO019572
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|151393429|gb|EV263304.1|EV263304
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|298183104|gb|HO028367.1|HO028367
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|163923182|gb|EH038294.1|EH038294
EST:     GCAAATAGCGGACAAAATACCAATGGCTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|209704173|gb|BW664791.1|BW664791
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|58021929|gb|CX708670.1|CX708670
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
EST: gi|192298333|gb|FG992108.1|FG992108
EST:     GCAAATAGCGGACAAAATACCAATGGGTGTCAG                         TTCCTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC
genomic: GCAAATAGCGGACAAAATACCAATGGCTGTCAGgtaactttcc ... ttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttaaattggtaatactcttttcctattgatgaatgttctcttcttgcttgcagTTCTTTATAACATGTGCAAAATGTGACTGGCTTGACAACAAGCATGTTGTCTTTGGG
                         tattgat  putative branch site (score: 3)
                                   tgttctcttcttgctt  putative PPT
           taatact  TA-rich tract