Sequence
atgc intronic sequence ATGC exonic sequence...ggatttagcccatctcgagaagtatttgaagccctttctggcctcagggaagtcggtcgggtggcacattcacgatgagcgctccctgttggctttgcagGGTCCTCTGGCGGGCGAAGTTCTGCAAAAACTCACCAAGGAGGATCTCAGCAAGATGTATTTCAGTGACTTCAAGATTATTGACATCAATGGCTCCGAGT
Basic information
species | Physcomitrella patens |
transcript | PP1S91_92V6.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S91_92V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os04g53230.1 (Oryza sativa), 3'ss of exon 1
ggatttagcccatctcgagaagtatttgaagccctttctggcctcagggaagtcggtcggg-tggcacattcacgatgagcgctccctgttggctttgc----agGGTCCTCTGGCGGGCGAAGTTCTGCAAAAACTCACCAAGGAGGATCTCAGCAAGATGTATTTCAGTGACTTCAAGATTATTGACATCAATGGCTCCGAGT
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-----cagcctttgtggggttttatcatagtgatcagctttcactattacagcacgtagaaatttaatttttcctgacggcattacttgtttttcacacgaacagGGACCTCTTGCTGCACCAACTCTCCAGTTGCTGACAAAAGAAGATTTAAGCAAAATGTATTTCAGTGACTTCAAGATGATTGACATCAATGGATATGCTT
upper sequence: PP1S91_92V6.2 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM5G876898_T02 (Zea mays), 3'ss of exon 1
ggatttagcccatctcgagaagtatt--tgaagccctttctggcctcagg---gaagtcggtcgggtggcacattcacgatgagcgc-tccctgttggc-tttgcagGGTCCTCTGGCGGGCGAAGTTCTGCAAAAACTCACCAAGGAGGATCTCAGCAAGATGTATTTCAGTGACTTCAAGATTATTGACATCAATGGCTCCGAGT
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-------ggcaagttgaaagttcatttctagagtcctgatgtgtaccaggttccaagttcataaaagggcagcattataacttgtttattgatgcaaatgtaagcagGGTCCTCTTGCTGCACCTACTCTGCAGTTGCTGACGAAAGAAGATTTGAGCAAAATGTACTTCAGTGACTTCAAGATGATTGACATCAATGGATATGCATMapped 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|100377571|gb|BY986304.1|BY986304EST: TCTTTACGAACGAGAATGGTGGAGTGATCGATGACACTGTCATCACAAAG GGTCCTCTGGCGGGCGAAGTTCTGCAAAAACTCACCAAGGAGGATCTCAGC
genomic: TCTTTACGAACGAGAATGGTGGAGTGATCGATGACACTGTCATCACAAAGgtattgtgct ... ggctttgcagGGTCCTCTGGCGGGCGAAGTTCTGCAAAAACTCACCAAGGAGGATCTCAGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggatttagcccatctcgagaagtatttgaagccctttctggcctcagggaagtcggtcgggtggcacattcacgatgagcgctccctgttggctttgcagGGTCCTCTGGCGGGCGAAGTTCTGCAAAAACTCACCAAGGAGGATCTCAGCAAGATGTATTTCAGTGACTTCAAGATTATTGACATCAATGGCTCCGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacattc