Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctggcaatgagctattagggagcaataacctttcagttccttctctccattaaactcctgtgtatatcgcaatgcgttggtgctttctttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTGGACACATTGCGAGAGGCTAACCTCCATTTTCTTGAGGGCATGCTGAATT

Basic information

species Physcomitrella patens
transcript PP1S205_59V6.1
intron # 4
splice site 3'
intron type U2

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|208381557|gb|DC923143.1|DC923143
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162165614|gb|FC341453.1|FC341453
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|208376776|gb|DC918731.1|DC918731
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162200281|gb|FC376322.1|FC376322
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162200282|gb|FC376323.1|FC376323
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162255054|gb|FC430927.1|FC430927
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162168295|gb|FC344609.1|FC344609
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|67695588|gb|BJ955821.1|BJ955821
EST:     TGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: TGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|67693124|gb|BJ953357.1|BJ953357
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162165615|gb|FC341454.1|FC341454
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162248720|gb|FC424573.1|FC424573
EST:     ACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: ACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162258766|gb|FC434565.1|FC434565
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162181475|gb|FC358089.1|FC358089
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|162168296|gb|FC344610.1|FC344610
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|208394748|gb|DC924079.1|DC924079
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
EST: gi|37849627|gb|BJ607635.1|BJ607635
EST:     CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAG                         ACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG
genomic: CCCAGTTGGACTTTGACCGGTGCTTTGCAAGCCCTATTACTCGAGCAAAGgtgggcaaat ... ttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctccattaaactcctgtgtatatcgcaatgcgttggtgctttctttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTGGACACATTGCGAGAGGCTAACCTCCATTTTCTTGAGGGCATGCTGAATT
                                           ctttgat  putative branch site (score: 5)
                                     tgctttcttt  CT-rich tract
     attaaact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctggcaatgagctattagggagcaataacctttcagttccttctctccattaaactcctgtgtatatcgcaatgcgttggtgctttctttgatgacagACCAGTGCAGAATTGATTTGGGAAGGGAGGGAGAAGCCACTGGTGTACTTGGACACATTGCGAGAGGCTAACCTCCATTTTCTTGAGGGCATGCTGAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG