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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtttttgagccctaggctaccaattgtttggcttttaatatttcaaggatggcgattgtggtacgattattttgggggaggtgcgtattagttcctcaacaacttctgagggattgacaagtgtttctctttgtgctaaaacttttcgtgtgcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT

Basic information

species Physcomitrella patens
transcript PP1S133_93V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S133_93V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ36169 (Selaginella moellendorffii), 3'ss of exon 2
gtgcgtttttgagccctaggctaccaattgtttggcttttaatatttcaaggatggcgattgtggtacgattattttgggggaggtgcgtattagttcctcaacaacttctgagggattgacaagtgtttctctttgtgctaaaacttt-----tcgtgtgcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT
                                                                                                   | ||||| ||     | ||  | | ||| |      |   ||||||||||     | ||||      | ||     | | ||||| ||||| |||||||||||||| ||||||||||| | ||| ||||  || |||| ||| |                           
--------------------------------------------------------------------------------------------------gtaaacaattt----agaatctagaggtggtggaagct---ctaaaactttctcgcttgtgtttcttcgcagCTTTCCCTCAAGACGGAGAAGCAAAAGAAGAAGGAGGCTTACTTCCCGATGAGAAAGTACGCTGTGAGGGCGTGA-------------------------

upper sequence: PP1S133_93V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ18648 (Selaginella moellendorffii), 3'ss of exon 3
gtgcgtttttgagccctaggctaccaattgtttggcttttaatatttcaaggatggcgattgtggtacgattattttgggggaggtgcgtattagttcctcaacaacttctgagggattgacaagtgtttctctttgtgctaaaacttttcgtgtgcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT
                                                                                            ||     |   | | |   ||||   || ||  | |    |||| |          || ||||      | ||     | | ||||| ||||| |||||||||||||| ||||||||||| | ||| ||||  || |||| ||| |                           
-------------------------------------------------------------------------------------------gtaagcaattttccattgtagaggtggtggcagctctgaaactttct--------cgtttgtgttttttcgcagCTTTCCCTCAAGACGGAGAAGCAAAAGAAGAAGGAGGCTTACTTCCCGATGAGAAAGTACGCTGTGAGGGCGTGA-------------------------

upper sequence: PP1S133_93V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ18646 (Selaginella moellendorffii), 3'ss of exon 3
gtgcgtttttgagccctaggctaccaattgtttggcttttaatatttcaaggatggcgattgtggtacgattattttgggggaggtgcgtattagttcctcaacaacttctgagggattgacaagtgtttctctttgtgctaaaacttttcgtgtgcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT
                                                                                            ||     |  | ||  ||    | |  |      | ||       | ||       || ||||      | ||     | | ||||| ||||| |||||||||||||| ||||||||||| | ||| ||||  || |||| ||| |                           
-------------------------------------------------------------------------------------------gtaaacaatttagaatctccattgcagaggtggaagctttaaaactttctcg-----tttgtgtttcttcgcagCTTTCCCTCAAGACGGAGAAGCAAAAGAAGAAGGAGGCTTACTTCCCGATGAGAAAGTACGCTGTGAGGGCGTGA-------------------------

upper sequence: PP1S133_93V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ36167 (Selaginella moellendorffii), 3'ss of exon 3
gtgcgtttttgagccctaggctaccaattgtttggcttttaatatttcaaggatggcgattgtggtacgattattttgggggaggtgcgtattagttcctcaacaacttctgagggattgacaagtgtttctctttgtgctaaaacttttcgtgtgcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT-
                                                                                                   | ||||| ||       ||||   || | |  |    |   |||||||||   | | | |    ||     | | ||||| ||||| |||||||||||||| ||||||||||| | ||| ||||  || |||| ||| | ||    |   |      | |  |||| 
--------------------------------------------------------------------------------------------------gtaaacaattttc----cattgt--agaggtggtggcagctttaaaactttctttcttcgc----agCTTTCCCTCAAGACGGAGAAGCAAAAGAAGAAGGAGGCTTACTTCCCGATGAGAAAGTACGCTGTGAGGGCGT-GAGGAGAGACGCAAGCAGCGTGAGATG

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|162218419|gb|FC394801.1|FC394801
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|67579211|gb|BJ951356.1|BJ951356
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162211385|gb|FC387823.1|FC387823
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|67692403|gb|BJ952636.1|BJ952636
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|67693660|gb|BJ953893.1|BJ953893
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|7287445|gb|AW599932.1|AW599932
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162213467|gb|FC389144.1|FC389144
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|37825266|gb|BJ583332.1|BJ583332
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|15320184|gb|BI487830.1|BI487830
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162212323|gb|FC388433.1|FC388433
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162244093|gb|FC424359.1|FC424359
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|22132937|gb|BQ827448.1|BQ827448
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162266756|gb|FC442272.1|FC442272
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162244092|gb|FC424358.1|FC424358
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|7647895|gb|AW738885.1|AW738885
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|67699494|gb|BJ959727.1|BJ959727
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162206936|gb|FC383513.1|FC383513
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162206935|gb|FC383512.1|FC383512
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|19784694|gb|BQ040224.1|BQ040224
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|7207586|gb|AW561633.1|AW561633
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCATGAGGCTGACCAAGCACCAC                         GCGAGCATGAAGACTGAGAAACACATGAAGAAGGAAGCGTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|67507921|gb|BJ940796.1|BJ940796
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162202019|gb|FC377225.1|FC377225
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|67570385|gb|BJ943209.1|BJ943209
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|18346157|gb|BJ178200.1|BJ178200
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162238228|gb|FC414808.1|FC414808
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|7286944|gb|AW599431.1|AW599431
EST:     TGCGCCCGAAGAAAACTCACGCTATTCGCAGGATGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|67576010|gb|BJ948834.1|BJ948834
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162202697|gb|FC379510.1|FC379510
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162279166|gb|FC455713.1|FC455713
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162254629|gb|FC429479.1|FC429479
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162237027|gb|FC413186.1|FC413186
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|6167443|gb|AW145707.1|AW145707
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|7286795|gb|AW599282.1|AW599282
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|162202696|gb|FC379509.1|FC379509
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
EST: gi|18332699|gb|BJ164712.1|BJ164712
EST:     TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAG                         GCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG
genomic: TGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAG

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: 35 (upstream exon), 35 (downstream exon)
Score: 148

GGCTAGCCTTCGTGAAGCGTACAGCAAGAAGAAGTACATTCCTATTGACCTGCGCCCGAAGAAAACTCGCGCTATTCGCAGGAGGCTGACCAAGCACCAGgtgcgttttt ... gcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagggattgacaagtgtttctctttgtgctaaaacttttcgtgtgcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT
                           tgctaaa  putative branch site (score: 148)
                              taaaactttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtttttgagccctaggctaccaattgtttggcttttaatatttcaaggatggcgattgtggtacgattattttgggggaggtgcgtattagttcctcaacaacttctgagggattgacaagtgtttctctttgtgctaaaacttttcgtgtgcacgtgtagGCAAGCATGAAGACTGAGAAACAAAAGAAGAAGGAAGCTTACTTCCCTAAGAGGAAGTTTGCAGTGAAGGCTTAGAATTCATCTGTGGCTTGTGGCAGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT