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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcggcatgcgtgcgccaggccttgtggtgtcgtgttgcggggcgtgttagagacagggctgctggaaggggaaaggtgcatttgcacgctcaccgcagtgccgtttatgcaagcaccagcgctgaccagtcggctgcttgccctgcccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAGCGCGTGATCAACATGTGCGACGGCGTGCTGCTGCTGGTGGACTCCGTGG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98397
intron # 5
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|10785510|gb|AV642182.1|AV642182
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|161813272|gb|FC101441.1|FC101441
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACTCCCGGCCACGCCGATTTCGGTGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|10786937|gb|AV643609.1|AV643609
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|10789572|gb|AV645301.1|AV645301
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|10780283|gb|AV636963.1|AV636963
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|49468183|gb|BP096044.1|BP096044
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|10786981|gb|AV643653.1|AV643653
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|22068537|gb|BQ818437.1|BQ818437
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
EST: gi|23360235|gb|BU648055.1|BU648055
EST:     GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAG                         GTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG
genomic: GTATCACCATTCTGGCCAAGAACACCGCCATCCGCTACCGCGGCATCAAGgtgcgcggca ... ccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtttatgcaagcaccagcgctgaccagtcggctgcttgccctgcccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAGCGCGTGATCAACATGTGCGACGGCGTGCTGCTGCTGGTGGACTCCGTGG
                  cgctgac  putative branch site (score: 3)
                                   cttgccctgcccccct  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgcggcatgcgtgcgccaggccttgtggtgtcgtgttgcggggcgtgttagagacagggctgctggaaggggaaaggtgcatttgcacgctcaccgcagtgccgtttatgcaagcaccagcgctgaccagtcggctgcttgccctgcccccctgcagGTGAACATCATTGATACGCCCGGCCACGCCGATTTCGGCGGCGAGGTGGAGCGCGTGATCAACATGTGCGACGGCGTGCTGCTGCTGGTGGACTCCGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA