Sequence
atgc intronic sequence ATGC exonic sequencegtacgaggcttcagctgaatgcagtgtaaagaaacattgctcattatgctggtagagaattggaagtataattgtgctgagttgggaagcattttaagtaaagccgccgaaataatgcgtttctgaatacataatgcattttttggtcaatttgaaatcgtagAGTTTTGGAAGACAATTCCGTCCACCGAACCTTTCCGTGTTGTTCTTGGTGACGTTCGGGACAAGCTTTACCAAACTCGTGAGCGGATGCGGCAGCAATT
Basic information
species | Physcomitrella patens |
transcript | PP1S43_131V6.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S43_131V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ06433 (Selaginella moellendorffii), 3'ss of exon 6
gtacgaggcttcagctgaatgcagtgtaaagaaacattgctcattatgctggtagagaattggaagtataattgtgctgagttgggaagcattttaagtaaagccgccgaaataatgcgtttctgaatacataatgcattttttggtcaatttgaaatcgtagAGTTTTGGAAGACAATTCCGTCCACCGAACCTTTCCGTGTTGTTCTTGGTGACGTTCGGGACAAGCTTTACCAAACTCGTGAGCGGATGCGGCAGCAATT
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--------------------------------------------------------------------------------------------------------------gtttgtgttttgttgtattc-ttttgaacggattacctcagctgctgtgacagAGTTTTGGAAGCCAATTCCTTCCAACGAGCCCTTCCGTGTTATTCTTGGTGATATACGTGATAGATTGTATCGGACGAGAGAGCGTGCTCGCCAAATTCT
upper sequence: PP1S43_131V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ08755 (Selaginella moellendorffii), 3'ss of exon 6
gtacgaggcttcagctgaatgcagtgtaaagaaacattgctcattatgctggtagagaattggaagtataattgtgctgagttgggaagcattttaagtaaagccgccgaaataatgcgtttctgaatacataatgcattttttggtcaatttgaaatcgtagAGTTTTGGAAGACAATTCCGTCCACCGAACCTTTCCGTGTTGTTCTTGGTGACGTTCGGGACAAGCTTTACCAAACTCGTGAGCGGATGCGGCAGCAATT
|| || || || | | || | || | || | ||||||||||||| ||||||| |||| ||| || ||||||||| |||||||||| | || || | | || | || | |||||
--------------------------------------------------------------------------------------------------------------gtctgtgttttgttgtattc-ttttgaacggattacctcagCTGCTGTGACAGAGTTTTGGAAGCCAATTCCTTCCAACGAGCCCTTCCGTGTTATTCTTGGTGATATACGTGATAGATTGTATCGGACGAGAGAGCGTGC------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaataatgcgtttctgaatacataatgcattttttggtcaatttgaaatcgtagAGTTTTGGAAGACAATTCCGTCCACCGAACCTTTCCGTGTTGTTCTTGGTGACGTTCGGGACAAGCTTTACCAAACTCGTGAGCGGATGCGGCAGCAATT
ataatgcatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgaggcttcagctgaatgcagtgtaaagaaacattgctcattatgctggtagagaattggaagtataattgtgctgagttgggaagcattttaagtaaagccgccgaaataatgcgtttctgaatacataatgcattttttggtcaatttgaaatcgtagAGTTTTGGAAGACAATTCCGTCCACCGAACCTTTCCGTGTTGTTCTTGGTGACGTTCGGGACAAGCTTTACCAAACTCGTGAGCGGATGCGGCAGCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT