Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgatgatagtagtccatcttctcgttttgttattgatttgtcttccagCCTGGGGAAACGCTGAGAGATTTTTTCTCCCGGACGATCATGTATTGGCAAATGGCTGCTTACGACCACACCCAACACACTGGAAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ09772 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ11619 (Selaginella moellendorffii), 3'ss of exon 15
lower sequence: GRMZM2G100815_T01 (Zea mays), 3'ss of exon 14
-----------------------------------------------------------------------------------------------------------------------------------gtgagtgatgatagtagtccatcttctcgttt-----tgttattgatttgtcttccagCCTGGGGAAACGCTGAGAGATTTTTTCTCCCGGACGATCATGTATTGGCAAATGGCTGCTTACGACCACACCCAACACACTGGAAAG
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gtaatgttgtacttagttttgtttattttctgtcacttctagatttattgctttccttttcattagctggctcctgtccatatcatcatatgtctgttctcgaacaaatcatggccaaccattcgttacctgcagttaacaaaaccaagatattgttttgcttatattttcttttgtttattctgaaagCCTGGAGAATCACTGAGAGATTTCTACAAGAGGACAAATATGTACTGGCAAATGGCTGCCTATGAGCACACTCAACACACTGGAAAG
upper sequence: EFJ11619 (Selaginella moellendorffii), 3'ss of exon 15
lower sequence: PP1S15_393V6.2 (Physcomitrella patens), 3'ss of exon 18
--------------------------------------------------------------------------------------------gtgagtgatgatagtagtc-catcttctcgttttgttattgatttgtcttccagCCTGGGGAAACGCTGAGAGATTTTTTCTCCCGGACGATCATGTATTGGCAAATGGCTGCTTACGACCACACCCAACACACTGGAAAG-------------
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gtacgtgcactattagttgacatttatgtttctccggcttatctgctgcctgtaaagagggggataatttttcaacgaagctagtttatttcgtttctcattactggagcaacatgaactgacattagaatgaaatgac--tgcagCCAGGAGAAAGCTTGAAGGATTTTTTTGCTCGAACAAACATGTATTGGCAAATGGCAGCCTACGAGCACACTCAACATACTGGCAAAGAACTACGGAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgagtgatgatagtagtccatcttctcgttttgttattgatttgtcttccagCCTGGGGAAACGCTGAGAGATTTTTTCTCCCGGACGATCATGTATTGGCAAATGGCTGCTTACGACCACACCCAACACACTGGAAAG
tattgat putative branch site (score: 3)
tttgtcttcc CT-rich tract
ttttgttattgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgatgatagtagtccatcttctcgttttgttattgatttgtcttccagCCTGGGGAAACGCTGAGAGATTTTTTCTCCCGGACGATCATGTATTGGCAAATGGCTGCTTACGACCACACCCAACACACTGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT