Sequence
atgc intronic sequence ATGC exonic sequence...cttcttctcttgatacagatatcgcattgcagaaactctcactcccacaagcaattcagtgtgtaagtaagtttttaagttcttgttcctttgtatacagGTGACATCCTGACTCTCCTGGAGTCTGAGAGAGAGGCTAGGAGGCTGCGGTGAAGAAGCGGGATTTCACAAGTCTCTAGCTTTTTTTTTCCTATTTATCA
Basic information
species | Physcomitrella patens |
transcript | PP1S41_71V6.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S41_71V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EDP05500 (Chlamydomonas reinhardtii), 3'ss of exon 3
cttcttctcttgatacagatatcgcattgcagaaac-tctcactcccacaagcaattcagtgtgtaagtaagtttttaagttcttgttcctttgtatacagGTGACATCCTGACTCTCCTGGAGTCTGAGAGAGAGGCTAGGAGGCTGCGGTGAA-GAAGCGGGATTTCACAAGTCTCTAGCTTTTTTTTTCCTATTTATCA-
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-gcctgcacatgcacgttgtgccaggtgtcgcgaacgttgcgctggccgtatggctgggatgcttccctgactgcctttgctcgccccacacctgctgcagGCGACATCCTGACTCTGCTGGAGTCTGAGCGTGAGGCCCGCCGCCTGCGGTAAATGCAGCAG--CTTCAGAGGTTGCTGCCTTTTAGCAGGAGATAGAGTGTMapped 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|19776618|gb|BQ039094.1|BQ039094EST: TGATCAAAATCGACTCATTATGCGCAATGTGAAGGGGCCAGTGCGTGAAG GTGACATCCTGACTCTCCTGGAGTCTGAGAGAGAGGCTAGGAGGCTGCGGT
genomic: TGATCAAAATCGACTCATTATGCGCAATGTGAAGGGGCCAGTGCGTGAAGgtacagagtc ... ttgtatacagGTGACATCCTGACTCTCCTGGAGTCTGAGAGAGAGGCTAGGAGGCTGCGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacaagcaattcagtgtgtaagtaagtttttaagttcttgttcctttgtatacagGTGACATCCTGACTCTCCTGGAGTCTGAGAGAGAGGCTAGGAGGCTGCGGTGAAGAAGCGGGATTTCACAAGTCTCTAGCTTTTTTTTTCCTATTTATCA
ttcttgttcctttgt CT-rich tract
taagtaagtttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcttctcttgatacagatatcgcattgcagaaactctcactcccacaagcaattcagtgtgtaagtaagtttttaagttcttgttcctttgtatacagGTGACATCCTGACTCTCCTGGAGTCTGAGAGAGAGGCTAGGAGGCTGCGGTGAAGAAGCGGGATTTCACAAGTCTCTAGCTTTTTTTTTCCTATTTATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC