Sequence
atgc intronic sequence ATGC exonic sequencegtgagaggatgaagttattcactatttattctgtacttattattagttttggtttttattccattaattatcgtgtattgatcgatatttcatttttcttttgatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTT
Basic information
species | Physcomitrella patens |
transcript | PP1S58_197V6.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S58_197V6.2 (Physcomitrella patens), 3'ss of exon 4
lower sequence: AT3G51130.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagaggatgaagttattcactatttattctgtacttattattagttttggtttttattccattaattatcgtgta-ttgatcgatatttcatttttcttttgattt---ttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTT
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--------------------------------gtgagt-cgaatgggatcaatttttttggctttggt----gtgtagtttactgttgtaacaactgtcttttgcttttacttcagGGGTCCATCAACTCTGGCAACGTTTGTGGCTGTTTATGCACTTTTTGGACCAACCTTTCCTGGGATTTATGATAAAGAAAGAGGGATTTATTCTCTGTTC
upper sequence: PP1S58_197V6.2 (Physcomitrella patens), 3'ss of exon 4
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 4
gtgagaggatgaagttattcactatttattctgtacttattattagttttggtttttattccattaattatcgtgtattgatcgatatttcatttttcttttgatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTT
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----------------------------------gtgggtgctcaattt--accttaattttcttatctatgtgcttataagttattcttgatcctcatttctaattt-cagGGGTCCATCAACTCTAGCTACTTTTGTAGCTGTATATGCACTTTTTGGACCAACTTTTCCAGGAAGTTACGACAAAGATAGAGGTGTTTACACTCTGTTCMapped 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|100411979|gb|BY956357.1|BY956357EST: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGG GGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
genomic: GTGTACGACGTGCAACGCTTGCACATGCGCTACGCTACTTCGTCAATCGGgtgagaggat ... gatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attccattaattatcgtgtattgatcgatatttcatttttcttttgatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTT
tttcatttttcttttg CT-rich tract
atatttcatttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaggatgaagttattcactatttattctgtacttattattagttttggtttttattccattaattatcgtgtattgatcgatatttcatttttcttttgatttttcagGGGACCAAACATTACAGCCACGTTTGTAGCAGTTTATGCACTTTTTGGACCAACCTTTCCAGGTACATTCAACATGAAGCGGTGCGTTTACACATTATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC