Sequence
atgc intronic sequence ATGC exonic sequenceTGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
Basic information
species | Physcomitrella patens |
transcript | PP1S126_196V6.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G174284_T01 (Zea mays), 5'ss of exon 9
TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgtt--gtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
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CCTTGGTCCATCAGGATCTTCCGGAAACGTCGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGTCAGgtaaactttctgatacttctaaccctgtcaaacatttagttttgctgtttctgttattgactgatagggatat------catgtcatttgattcgat--acattttccccatttttaagaaatatgta-tgtagctctgtctgaatacttctgttctatttgcctcag-----------------------
upper sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtaca-gtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
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CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctc--caaccctggcaaacatttagttttgt---tgtttctgttgttgactgtcataggga-----gatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcct-agctctgaagacttttggtgttctattatcgttag
upper sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT1G68640.1 (Arabidopsis thaliana), 5'ss of exon 10
TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgta--tatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
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TTCAATGGGTCCAAACTCTTCAGCAAATGTTGCAGATTATATGGGTCATATGGCTATGGCTATGGGCAAACTTGGCACTCTTGAAAACTTCCTTCGCCAGgtaagaaaaaatgaacagaatgtctcttgtcaacaacaacatttgttattacaaatcaaagagcttaaaggttactatatct-ttgcag------------------------------------------------------------------------------------------------------
upper sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: AT5G06960.1 (Arabidopsis thaliana), 5'ss of exon 8
---TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
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GACTCTCGGTTCA---AGTTCATCAGGGAATGTAGCTAGCTACATGGGTCAGATGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttacaattttgttgtttaacatcaaa----tgaaaaaagtattttgcag----tcagttgatagaaccat--cttattgtttgtggcag-----------------------------------------------------------------------------------------------
upper sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: EFJ22847 (Selaginella moellendorffii), 5'ss of exon 5
TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
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CTCGGGATCGCTGGGGGCCTCGTCCAACGTCGCAAACTACATGGGACAGATGGCTATGGCCATGGGGAAGCTCGGCACTCTGGAAAACTTTGTTCGTCAGgtaaagccaaactctttcttcttcttttttcatttccagcagtttttcttg----gtcttgctctccataatgaaagttctgccttagttttccacagcttttt-------------------------------------------------------------------------------------
upper sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
lower sequence: EFJ30797 (Selaginella moellendorffii), 5'ss of exon 6
TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
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CTCGGGATCGCTGGGGGCCTCGTCCAACGTCGCAAACTACATGGGACAGATGGCTATGGCCATGGGGAAGCTCGGCACTCTGGAAAACTTTGTTCGTCAGgtaaagccaaactctttcttcttcttttctcttttccagcagtttttcttg----gtcttgctctccataatgaaagttttgccttagttttccacagcttttt-------------------------------------------------------------------------------------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|208361592|gb|DC950308.1|DC950308EST: TGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAG GCCGATAAAATACGTCAACAAACATTACAGCAAATGCACCGGGTGTTAACC
genomic: TGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatattt ... gttttgacagGCCGATAAAATACGTCAACAAACATTACAGCAAATGCACCGGGTGTTAACC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC