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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA

Basic information

species Physcomitrella patens
transcript PP1S97_259V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os02g56014.1 (Oryza sativa), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtg-gtaccgg--gcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                     ||       |      || | ||    | | |   | || ||   || | |   | | |      |    |||| ||  ||| |   | || ||||   |   ||   |||||||||||||| || ||  |||| || ||||| |||||| | || |||||||| ||||| || |||||||||||||||||||||||   ||| || |||||
-------------------------------------------------------------------------------------gtaaccatctcctccgagtcctctctttccctcgtgattccttgcttctgtagctctctaggccgtgcgatttggtgg-gtgattgatgtgctttgcccgcctcgatcgcagGTAAGGTTCACGGCTCGCTGGCTCGCGCCGGGAAGGTGAGGGGGCAGACGCCGAAGGTGGCGAAGCAGGACAAGAAGAAGAAGCCCCGGGGCCGCGCCCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G096690_T01 (Zea mays), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgt--ggtaccgg-gcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                         | ||| || ||| |  |  ||| | | | |  |||   |   |  ||    | |  ||| | ||    ||| | | |  | | | || |||||||||||||| |||||  ||||||| || || |||||||| || ||||||||||||||||| |||||||||||||||||||||||    || || || ||
-------------------------------------------------------------------------------------------------------gtaacgatatccttgtcctcgtctctatctctactttgcgtgcatccttccaatagccgtt-tactcagattgatctatctgcttctggcgcagGTAAGGTTCACGGATCGCTGGCCCGCGCTGGGAAGGTGCGCGGGCAGACGCCCAAGGTTGCAAAGCAGGACAAGAAGAAGAAGCCCCGCGGCCGCGCTCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G054012_T01 (Zea mays), 3'ss of exon 2
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttt-----tttttttttttttttgatgttgtgctgttt--ttggtttgtg---gtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                         | |||  | ||| |  || | | | | | || ||   |     |            | | ||  || |  ||    |||||| |     |   | |||||||||||||| |||||  | ||||| || || ||||||||||| |||||||||||||| || |||||||||||||||||||||||    || || ||  |
-------------------------------------------------------------------------------------------------------gtaacgatctccttgtccttctttctatctcttcttgcgtgcaggtgcagcccgccaatagctgccgtacgcttagactggtttatctgtttgtggcgcagGTAAGGTTCACGGATCGCTTGCCCGCGCGGGGAAGGTGCGTGGGCAGACGCCCAAGGTGGCGAAGCAGGACAAGAAGAAGAAGCCCCGCGGCCGCGCGTA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G328168_T01 (Zea mays), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcga-aattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttt-tggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                   | |  || ||  |  ||| ||  ||       |||   |  |   |  | |  |          |   | ||  |   |    |||     | ||||||||||| || |||||  ||||||| ||||| ||||| || || |||||||||||||| || |||||||||||||||||||||||    || || ||  |
--------------------------------------------------------------------------------------------------gtaacccaccgccagctctcattcttcctcacctttcgctgctccctcctgtactcacgcgctgatcaaggtgagtcgcgtcccgtgtctatgcgcagGTAAGGTGCACGGATCGCTGGCCCGCGCCGGGAAGGTCCGCGGGCAGACGCCCAAGGTGGCGAAGCAGGACAAGAAGAAGAAGCCCCGCGGCCGCGCGTA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM5G805526_T01 (Zea mays), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                            | ||  |  |   |  |||      ||   |   |  || |   |    |||    ||        ||  |||   | | |  |||||||||| || ||||| ||||| || ||||| ||||| || || ||||| |||||||| || |||||||||||||||||||||||    || || || ||
------------------------------------------------------------------------------------------------------------gtaagccacactctcctcttcaccgttcgctgcctccttgtgcgtaagctgactgggtatgtcgcgtgcgttgctattctg--cagGTAAGGTGCACGGATCGTTGGCGCGCGCCGGGAAGGTCCGCGGGCAGACCCCCAAGGTGGCGAAGCAGGACAAGAAGAAGAAGCCCCGCGGCCGCGCGCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA01G41810.1 (Glycine max), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                            | || | | || |     |   | |  |  | |||   ||| ||      || |     |    | | |   |   |     ||||||||||||||||||||  | || ||||| ||||||||  | || || || || ||||| ||||||||||| |||||||||||||||              
------------------------------------------------------------------------------------------------------------gtaagt-tgattgaaaattaggtatggtagtgtttccctttcttgcgcacgacgaataacaacatatagAACGCAATTT---GCAGGTAAGGTTCATGGATCACTTGCACGTGCTGGTAAGGTTAGAGGGCAAACCCCGAAGGTGGCCAAGCAGGATAAGAAGAAGAAGCCA--------------

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA11G03570.1 (Glycine max), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                    || |  | ||  |  | | |  ||     |  | ||  |  | |||   | | ||||  | |  |       | |     |   |     |||||||| ||||| |||||  | || ||||||||||||||  | || || || || || || ||||||||||| |||||||||||||||   || || || ||
---------------------------------------------------------------------------------------------------gtaaat-ttgagttattcaaaaattagacatgatattggtagtgtttccctatcttttgcacgaagaataacatgtaaaacgcaattt---gcagGTAAAGTTCACGGATCACTTGCACGTGCCGGTAAGGTTAGAGGCCAAACCCCAAAAGTGGCCAAGCAGGATAAGAAGAAGAAGCCACGTGGCCGCGCTCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT4G29390.1 (Arabidopsis thaliana), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttt--tttttttttttttttttttttttgatg--ttgtgctgtttttggtttg--tggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                             ||  |     | ||  ||||| ||  | ||  |      |  | ||||    |||     | |  || ||| ||  | |  || |||  || |  ||| |||| ||||  | | |     |||||||||| || || |||||||| ||||||||||||||| | |||||||| || || || || |||||||| |||||||||||||||   || ||||| ||
-----------------------------------------------------------------------------gtaattcctctttaacgtttgattccatatgaatccgtattcaattttagaatttaccaatctcattctttgttgctgtcgttaatgctttttattgtctttgatttgctttggaatcatcagGTAAGGTACACGGTTCCTTGGCTCGTGCCGGTAAGGTGAGAGGTCAGACACCGAAAGTGGCAAAGCAGGATAAGAAGAAGAAGCCACGTGGCCGTGCTCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT2G19750.1 (Arabidopsis thaliana), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttg-tagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                |||    |  || | ||| |||        |   |  ||    || ||| || || ||      | || ||  | ||||| |  | |     |  | ||      |  ||  |||| ||||| || || || ||||| ||||||||||||||| | |||||||| || || || || |||||||||||||||||||||||    |||||||| ||
--------------------------------------------------------------------------------gtaattctcctatactttttttgtctccttatgcttctacctattgctgattcttcttcaacaatgttgttcatgttttgtttctctttgaatgattgtaatcaatctcg--cagGAAAGGTCCACGGTTCATTGGCTCGTGCCGGTAAGGTGAGAGGTCAGACACCTAAAGTGGCTAAGCAGGACAAGAAGAAGAAGCCTCGTGGTCGTGCTCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: AT5G56670.1 (Arabidopsis thaliana), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                        ||| | |   |  | || ||   |   |||||| ||    ||||  ||||| || |  | |   | | |||| |||  | ||| |||   |   | |  |    ||| |||||||| ||||| ||||| ||||||||||||||  | || || || || |||||||| ||||| || ||||| |||||||| |  |||||||| ||
----------------------------------------------------------------------------------------gtaaaatccttggaaacttcttgaaatttatagattagc-ttttgatttttcttctgatgtggatctgttgacgttaag-tgtgttt---taacgatttc----agGAAAGGTTCACGGATCTTTGGCTCGTGCCGGTAAGGTTAGAGGACAAACTCCAAAGGTTGCGAAGCAAGATAAGAAAAAGAAGCCCAGAGGTCGTGCTCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv11s0016g02690.t01 (Vitis vinifera), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                                      ||   |        | | | || |    | || |     | | ||| | || | | ||    |||  |    |||||||||||||| |||||  |||| ||||||||||||||| | || || || || || || |||||||| |||||||||||||||||    ||||| || ||
---------------------------------------------------------------------------------------------------------------------gtaagctcaaaaagctctctcttctcagatcttctgcccattaggtttt-ctatctctgacg-gtgaaaatttgcagGTAAGGTTCACGGATCTCTGGCTCGTGCCGGTAAGGTGAGAGGCCAAACCCCAAAAGTGGCCAAGCAAGACAAGAAGAAGAAGCCCCGAGGTCGCGCTCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv09s0002g02640.t01 (Vitis vinifera), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgtttttttttttt--ttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                            | |||   | ||  | ||||||| | |  |     |    | |    | ||  | | | ||  ||   |||    || | |    |||||||||||||||||||  |||| ||||||||||||||| | || || || || || || ||||| || || |||||||||||||| |  || || || ||
------------------------------------------------------------------------------------------------------------gtaatctctctatctctctgtttctctactcagaatccagtctagggtattctagggtttgtagtaaatggg--atgatgcgtttcagGTAAGGTTCATGGATCGCTGGCTCGTGCCGGTAAGGTGAGAGGGCAAACCCCAAAAGTCGCCAAACAAGATAAGAAGAAGAAGCCCAGAGGCCGGGCGCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EDO97461 (Chlamydomonas reinhardtii), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                                                 |     | |   ||    | ||||| | || ||| |    || |  | |   | ||  |  ||||| ||||| || || ||| | |||||||||||||||||||| || ||||| ||||||||  |||||||||| |||||||||   ||   ||| ||||||  
--------------------------------------------------------------------------------------------------------------------------------gtaagcatatggattgaaatatttttctgtgttgtcgctgagtatacgttcgcttgtttcttgcagGCAAGGTCCACGGTTCCCTCGCCCGTGCCGGTAAGGTGCGCGGCCAGACCCCCAAGGTCCCCAAGCAGGAGAAGAAGAAGCGCCCGCGGGGCCGTGCCAT

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ31630 (Selaginella moellendorffii), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtt--tgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                                                            |   |         |||    | |||| || | | |  |  ||||||     ||||||||||| || ||||| |||||||| || || |||||||| || || |||||||||||    ||||||||||||||||||||||| ||||| || || ||
-------------------------------------------------------------------------------------------------------------------------------------------gtaagtgggcgccggtttgagagctgtggtgctatagtctggtgtggtttgtcgcagGTAAGGTGCACGGATCTTTGGCCCGGGCGGGCAAGGTGCGCGGACAAACGCCCAAGGTCCAGAAGCAGGACAAGAAGAAGAAGCCCAAGGGCCGGGCGCA

upper sequence: PP1S97_259V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ38518 (Selaginella moellendorffii), 3'ss of exon 1
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtt--tgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
                                                                                                                                            |   |         |||    | |||| || | | | ||  ||||||     ||||||||||| || ||||| |||||||| || || |||||||| || || |||||||||||    ||||||||||||||||||||||| ||||| || || ||
-------------------------------------------------------------------------------------------------------------------------------------------gtaagtggccgccggtttgagagctgtggtgctatagtttggtgtggtttgtcgcagGTAAGGTGCACGGATCTTTGGCCCGGGCGGGCAAGGTGCGCGGACAAACGCCCAAGGTCCAGAAGCAGGACAAGAAGAAGAAGCCCAAGGGCCGGGCGCA

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|162274218|gb|FC449978.1|FC449978
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|162278104|gb|FC453923.1|FC453923
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|67692486|gb|BJ952719.1|BJ952719
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|162216409|gb|FC393242.1|FC393242
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACTATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|18343785|gb|BJ175823.1|BJ175823
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|67699773|gb|BJ960006.1|BJ960006
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|18335631|gb|BJ167651.1|BJ167651
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|162227643|gb|FC402324.1|FC402324
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACTATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|18347831|gb|BJ179878.1|BJ179878
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|162278103|gb|FC453922.1|FC453922
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|18327360|gb|BJ159362.1|BJ159362
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|18351472|gb|BJ183524.1|BJ183524
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|37830817|gb|BJ588829.1|BJ588829
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|37822977|gb|BJ581043.1|BJ581043
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|67569232|gb|BJ942056.1|BJ942056
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|37826921|gb|BJ584933.1|BJ584933
EST:     TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: TCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
EST: gi|67576266|gb|BJ949090.1|BJ949090
EST:     CTTGAGTCGTCTCTGCTTCCGCTTTGTTCGCTTTCTACCCGCCACCATGA                         GTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC
genomic: CTTGAGTCGTCTCTGCTTCCGC-TTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 34 (upstream exon), 32 (downstream exon)
Score: 26

CGCAGCCGTAAAACTACTTGCTCTTTCCCTCGTGATCGAGACATCGCGCATCTTGAGTCGTCTCTGCTTCCGCTTGTTCGCTTTCTACCCGCCACCATGAgtacgttcgc ... taccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA
               ttttgat  putative branch site (score: 26)
     ttttttttttttttga  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgttcgctattctatcgttaagagcgtaggatctgaacatatccgcttctatagcgaatcctcaaagtgaaggcgttgtagggttgtagagtttgtttagacatcgaaattcttatagttttctgttttttttttttttttttttttttttttttgatgttgtgctgtttttggtttgtggtaccgggcagGTAAGGTTCATGGATCCTTGGCCCGTGCCGGTAAGGTGCGTGGTCAGACGCCCAAGGTTGCCAAGCAGGACAAGAAGAAGAAGCCAAAGGGTCGTGCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC