Sequence
atgc intronic sequence ATGC exonic sequencegtcaaaattattttgtctaccctttcaaacgttggtatcaggtgtcagatttacgagaaaatctggtagtagtcaatgaagcttcaacagaggtaatttcgactcttcttgtaagttgcagAGTCTCCTAAGCTTGAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ38303 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ38303 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os08g17820.2 (Oryza sativa), 3'ss of exon 9
gtcaaaattattttgtctaccctttcaaacgttggtatcaggtgtcagatttacgagaaaatctggtagtagtcaatgaagcttcaacagaggtaatttcgactcttcttgtaagttgcagAGTCTCCTAAGCTTGAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
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----------------------gtggggcaattattgttaatta-caaatttcttattatat-----aatagttaa-gattatgcatttcataacatttctatgatgttcacagATAAGGGGTTCAGCTAAGCTGAAAAGGATTATGCAGACAATTCTTTCACTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
upper sequence: EFJ38303 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os02g55150.2 (Oryza sativa), 3'ss of exon 4
gtcaaaattattttgtctaccctttcaaacgttggtatcaggtgtcagatttacgagaaaatctggtagtagtcaatgaagcttcaaca-gaggtaatttcgactcttcttg-taagttgcagAGTCTCCTAAGCTTGAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
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--------------------------gtacactgttatataatatgacctcaagtcctcaaccttttcccgtttgacga-gtttaaacatgctgttatataatgttatttggacagGTTAGGAACTCTGTTAAGCTTAAGCGAGTGATGCAAACAATTCTTTCGTTGGGAAATGCATTAAACCAAGGAACTGCAAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtagtcaatgaagcttcaacagaggtaatttcgactcttcttgtaagttgcagAGTCTCCTAAGCTTGAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
ctcttcttgt CT-rich tract
taattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcaaaattattttgtctaccctttcaaacgttggtatcaggtgtcagatttacgagaaaatctggtagtagtcaatgaagcttcaacagaggtaatttcgactcttcttgtaagttgcagAGTCTCCTAAGCTTGAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA