Sequence
atgc intronic sequence ATGC exonic sequencegtacgagagttttgtttttgtttcctaacctttttgtttttttttttttttttttttttctttttctttttttcttacttaccgaatagtaaccacagAGAGAAAGCGAATGTTAAACTTATAATCCTGGATGAAGCAGATGCCATGACCAAGGATGCGCAGTTTTCTCTGCGGAGAA
Basic information
species | Selaginella moellendorffii |
transcript | EFJ07482 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ07482 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: LOC_Os02g53500.1 (Oryza sativa), 3'ss of exon 2
---gtacgagagttttgtttttgtttcctaacct-ttttgtttttttttttttttttttttttctttttctttttttcttacttaccgaatagtaaccacagAGAGAAAGCGAATGTTAAACTTATAATCCTGGATGAAGCAGATGCCATGACCAAGGATGCGCAGTTTTCTCTGCGGAGAA
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gctttattggagct--actggtattgcataatttgcattactaaagatctggtatacaatttaattcaattttgtcatatatctgatatttatcttgcgtagAGCAAAGCAATCTGTTAAGATGGTTCTATTGGATGAAGCAGATGCCATGACCAAGGATGCACAGTTTGCATTGCGAAGAG
upper sequence: EFJ07482 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA04G42790.1 (Glycine max), 3'ss of exon 2
gta-cgagagttttgtttttgtttcctaacctttttgtttttttttttttttttttttttctttttctttttttcttacttaccgaatagtaacca--cagAGAGAAAGCGAATGTTAAACTTATAATCCTGGATGAAGCAGATGCCATGACCAAGGATGCGCAGTTTTCTCTGCGGAGAA
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gtaaccagagttgaacatttcctttgggtttttgttgttctgaaagtgtactggaactgcaagttttgccttaactgact-atctaaaactctctgttcagTGTCAAGTCCTCTGTAAAACTTGTATTGTTGGATGAAGCAGATGCCATGACAAAGGATGCCCAATTTGCATTACGTAGAG
upper sequence: EFJ07482 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA06G11980.1 (Glycine max), 3'ss of exon 2
gtacgag-agttttgtttttgtttcctaacctttttgttttttttttttttttttttt-ttctttttctttttttcttacttaccgaatagtaacca--cagAGAGAAAGCGAATGTTAAACTTATAATCCTGGATGAAGCAGATGCCATGACCAAGGATGCGCAGTTTTCTCTGCGGAGAA
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gtataaccagagttgaac--atttcctttgtttttagtttttctgaaagtgtactggaactacaagttttccttaactgactatcaaaaactctctgttcagTGTTAAGTCCTCTGTAAAATTGGTATTGTTAGATGAAGCAGATGCCATGACAAAGGATGCCCAATTTGCGCTACGTAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttttttttttttctttttctttttttcttacttaccgaatagtaaccacagAGAGAAAGCGAATGTTAAACTTATAATCCTGGATGAAGCAGATGCCATGACCAAGGATGCGCAGTTTTCTCTGCGGAGAA
tagtaac putative branch site (score: 1)
tttttttttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgagagttttgtttttgtttcctaacctttttgtttttttttttttttttttttttctttttctttttttcttacttaccgaatagtaaccacagAGAGAAAGCGAATGTTAAACTTATAATCCTGGATGAAGCAGATGCCATGACCAAGGATGCGCAGTTTTCTCTGCGGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA