Sequence
atgc intronic sequence ATGC exonic sequenceACGAATCTTGTAAATCTAATTGGTTACTGCGCTGATGGCCAGCAACGGCTGCTAGTGTACGAGTTTATGCCGTTGGGGTGCTTGGAAGACCATCTGCATGgtaagtgaagcggagtggatcgtaggatggtgataggggttggcagggacgtgaagtggtcgttgacgtggtggtggggaccattgtggctttcgcag
Basic information
species | Physcomitrella patens |
transcript | PP1S478_1V6.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S478_1V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G145709_T01 (Zea mays), 5'ss of exon 3
ACGAATCTTGTAAATCTAATTGGTTACTGCGCTGATGGCCAGCAACGGCTGCTAGTGTACGAGTTTATGCCGTTGGGGTGCTTGGAAGACCATCTGCATGgtaagtgaagcggag-tggatcgtaggatggtgataggggttggcagggacgtgaagtggtcgttgacgtggtggtggggaccattgtggctttcgcag---
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ACTAACCTGGTCAATCTAATTGGCTACTGTGCTGATGGTGACCAACGCCTTCTTGTTTATGAGTTTATGCCATTGGGGTCACTAGAAGATCATCTGCATGgtctgtgtatctcctctttgtcatatactcttccgaatattccatgagtgcctgtagcaatg--taatgaagcattgtcttattctataggaatgacatgct
upper sequence: PP1S478_1V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G140590_T06 (Zea mays), 5'ss of exon 2
ACGAATCTTGTAAATCTAATTGGTTACTGCGCTGATGGCCAGCAACGGCTGCTAGTGTACGAGTTTATGCCGTTGGGGTGCTTGGAAGACCATCTGCATGgtaagtgaagcggagtggatcgtagg-atggtgataggggttggcagggacgtgaagtggtcgttgacgt-ggtggtggggaccattgtggctttcgcag
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GACAATCTAGTAAACTTAATTGGATACTGCGCTGATGGAGACCAACGTCTTCTTGTATACGAGTTTATGCCATTGGGATCACTTGAGGATCATTTGCATGgtaagtttgctacaattatcaatatttattactaagacacttatcttgaaagagttctattaaatagcttcaatcaacaaatcttttctgagaaatctaa
upper sequence: PP1S478_1V6.1 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA10G44580.2 (Glycine max), 5'ss of exon 3
ACGAATCTTGTAAATCTAATTGGTTACTGCGCTGATGGCCAGCAACGGCTGCTAGTGTACGAGTTTATGCCGTTGGGGTGCTTGGAAGACCATCTGCATGgta-----agtgaagcggagtggatcgtagg------atggtgataggggttggcagggacgtgaagtggtcgttgacgtggtggtggggaccattgtggctttcgcag
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CCTAATCTTGTCAATCTCATTGGATACTGTGCTGATGGTGACCAACGCCTCTTAGTTTATGAATTTATGCCATTGGGATCATTGGAAGACCATCTTCATGgtatcatcattatattttcggacatattagactttctattttataaaggcttcacaaattcatatattaccaatcattttgttttataagaacactatat---------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|208389780|gb|DC938328.1|DC938328EST: GCTAGTGTACGAGTTTATGCCGTTGGGGTGCTTGGAAGACCATCTGCATG GCCTGCCCCANAACAAGGAGTGCCTGGACTGGAACACTCGTATGAANATCG
genomic: GCTAGTGTACGAGTTTATGCCGTTGGGGTGCTTGGAAGACCATCTGCATGgtaagtgaag ... gctttcgcagGCCTGCCCCAGAACAAGGAGTGCCTGGACTGGAACACTCGTATGAAGATCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACGAATCTTGTAAATCTAATTGGTTACTGCGCTGATGGCCAGCAACGGCTGCTAGTGTACGAGTTTATGCCGTTGGGGTGCTTGGAAGACCATCTGCATGgtaagtgaagcggagtggatcgtaggatggtgataggggttggcagggacgtgaagtggtcgttgacgtggtggtggggaccattgtggctttcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA