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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctatcaaaccatgacagtattgcatggctgagacggagcgttggaagggctggcggctttgtgcgtgctggggctgccagcaccttgcaacgcccctcgcccggtgtgtggctgacgcccggcgcccttacggtgctaaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAGAAGGCGCAGCAGCTGGTGCAGACGGAGACGGCCCGCGTGCAAGCCGAGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP07882
intron # 2
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|34981501|gb|CF555418.1|CF555418
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|6544162|gb|AV389946.1|AV389946
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|7615939|gb|AW721379.1|AW721379
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAC                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|34991270|gb|CF565187.1|CF565187
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|10781219|gb|AV637899.1|AV637899
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|10775330|gb|AV632010.1|AV632010
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|15368596|gb|BI528022.1|BI528022
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|10774936|gb|AV625759.1|AV625759
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|49462012|gb|BP089925.1|BP089925
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|34982918|gb|CF556835.1|CF556835
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|34983136|gb|CF557053.1|CF557053
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|14231927|gb|BG850743.1|BG850743
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|10790668|gb|AV628034.1|AV628034
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|34982917|gb|CF556834.1|CF556834
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGGAGTCTGTGAA
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGG-AGTCTGTGAA
EST: gi|10778795|gb|AV635475.1|AV635475
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|14235722|gb|BG854538.1|BG854538
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|15372587|gb|BI532013.1|BI532013
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|15372909|gb|BI532335.1|BI532335
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|34983127|gb|CF557044.1|CF557044
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
EST: gi|10792297|gb|AV629663.1|AV629663
EST:     TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAG                         GGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG
genomic: TGCGCTCTCGCGGCGCCCTGCAAGTGAAGGCCCTGTTCGGCGGTGGCCAGgtaatctatc ... aaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cccctcgcccggtgtgtggctgacgcccggcgcccttacggtgctaaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAGAAGGCGCAGCAGCTGGTGCAGACGGAGACGGCCCGCGTGCAAGCCGAGC
                                         tgctaac  putative branch site (score: 1)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatctatcaaaccatgacagtattgcatggctgagacggagcgttggaagggctggcggctttgtgcgtgctggggctgccagcaccttgcaacgcccctcgcccggtgtgtggctgacgcccggcgcccttacggtgctaaccctacagGGTGGCGGTGGCAACCCCTTCGACATGAAGAACCTGATGGAGTCTGTGAAGAAGGCGCAGCAGCTGGTGCAGACGGAGACGGCCCGCGTGCAAGCCGAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG