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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatagacaaggtcttgattaggatatgcgagtttgttgagttgaaaatgcatttttttggagggatgaccatgcatcacttctggctatggttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGGGTCCGAAGAGAGCTACCAAAATCCGAAAGCTCTTCAATCTCACCAAGGA

Basic information

species Physcomitrella patens
transcript PP1S253_7V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S253_7V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: EFJ14726 (Selaginella moellendorffii), 3'ss of exon 4
aatagacaaggtcttgattaggatatgcgagtttgttgagttgaaaatgcatttttttggagggatgaccatgcatcacttctggctatggttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGGGTCCGAAGAGAGCTACCAAAATCCGAAAGCTCTTCAATCTCACCAAGGA
  ||  |    ||||   | |  | |     |||      |||    | |||||  || ||    |||   || ||   ||||  || |     | |||||||| ||  || | || |  |||||||| | |||||||||  | |||||||| || |||||||||| ||| ||||| ||||||||||| |||  ||||||
-gtactccca-tcttttctggtctttttattttttcctctttg----ttcatttgatttgattcgtga---tgtattgtttctt-ctttcacgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGGGCCCTAAGAGAGCTAGCAAGATCCGCAAGCTCTTCAACCTCGACAAGGA
















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|208389914|gb|DC937745.1|DC937745
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         ATGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|18358411|gb|BJ190470.1|BJ190470
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|67695394|gb|BJ955627.1|BJ955627
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|67572029|gb|BJ944853.1|BJ944853
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162238216|gb|FC414302.1|FC414302
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162208309|gb|FC384621.1|FC384621
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|67720727|gb|BJ970986.1|BJ970986
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|18371412|gb|BJ203014.1|BJ203014
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|15727873|gb|BI740506.1|BI740506
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162261446|gb|FC438282.1|FC438282
EST:     GTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: GTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|100412712|gb|BY974870.1|BY974870
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208372876|gb|DC956277.1|DC956277
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|67704565|gb|BJ964798.1|BJ964798
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208371849|gb|DC951841.1|DC951841
EST:     CATCGTTAGCCCAGACCTCTCGG-TTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|18344515|gb|BJ176556.1|BJ176556
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|7207649|gb|AW561589.1|AW561589
EST:     GTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: GTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162278463|gb|FC454549.1|FC454549
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162258931|gb|FC435874.1|FC435874
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162261447|gb|FC438283.1|FC438283
EST:     CAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162230562|gb|FC407152.1|FC407152
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|37849016|gb|BJ607024.1|BJ607024
EST:     TTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGG-CTCACNGATATCGAGAAGCCCAGAATGAGGG
genomic: TTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208395264|gb|DC916073.1|DC916073
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162233727|gb|FC409993.1|FC409993
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162216308|gb|FC392101.1|FC392101
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|7207694|gb|AW561691.1|AW561691
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAT                         GTGACAATGACCTGCCTGGACTCACTGATATCTAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208362859|gb|DC950809.1|DC950809
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         ATGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208385764|gb|DC932708.1|DC932708
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162230561|gb|FC407151.1|FC407151
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAATCAAG                         GTGACAATGACCTGCCTGGACTCATTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208363727|gb|DC954698.1|DC954698
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162216309|gb|FC392102.1|FC392102
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208345545|gb|DC909235.1|DC909235
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208351869|gb|DC913782.1|DC913782
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|18359133|gb|BJ191193.1|BJ191193
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGG-CTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|100352755|gb|BY945432.1|BY945432
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208358888|gb|DC935218.1|DC935218
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208357938|gb|DC938823.1|DC938823
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208378835|gb|DC927537.1|DC927537
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162238217|gb|FC414303.1|FC414303
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162233728|gb|FC409994.1|FC409994
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208372029|gb|DC936229.1|DC936229
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162201194|gb|FC377701.1|FC377701
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162208308|gb|FC384620.1|FC384620
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|37852539|gb|BJ610547.1|BJ610547
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGG-CTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162278464|gb|FC454550.1|FC454550
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|162169173|gb|FC345140.1|FC345140
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|19790319|gb|BQ041809.1|BQ041809
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
EST: gi|208388058|gb|DC941697.1|DC941697
EST:     CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAG                         GTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG
genomic: CATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGG

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: 32 (upstream exon), 35 (downstream exon)
Score: 44

GGGTACGGGAGGCGCAACGGGGAGCGGAGGCGCAAGTCTGTGAGGGGATGCATCGTTAGCCCAGACCTCTCGGTTTTGAACCTGGTTATTGTCAAACAAGgtcagttaac ... gttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGGGTCCGAAGAGAGCTACCAAAATCCGAAAGCTCTTCAATCTCACCAAGGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgcatttttttggagggatgaccatgcatcacttctggctatggttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGGGTCCGAAGAGAGCTACCAAAATCCGAAAGCTCTTCAATCTCACCAAGGA
     attttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatagacaaggtcttgattaggatatgcgagtttgttgagttgaaaatgcatttttttggagggatgaccatgcatcacttctggctatggttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGGGTCCGAAGAGAGCTACCAAAATCCGAAAGCTCTTCAATCTCACCAAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT