Sequence
atgc intronic sequence ATGC exonic sequencetttggttttcttgcttgcccctgatcgatcgatcgacCAGACTGTCGCCATGAAATTTATTCTCAAGCACGGCAAGAGCGACAAGGACATCGAGAATTTGCGGCAAGAGATTGAGGTA
Basic information
species | Selaginella moellendorffii |
transcript | EFJ37043 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ37043 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------------------------------tttggttttct---tgcttgcccc--tgatcgatcgatcgacC--AGACTGTCGCCATGAAATTTATTCTCAAGCACGGCAAGAGCGACAAGGACATCGAGAATTTGCGGCAAGAGATTGAGGTA
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gtacttgttgcaattcccttctcttgccttttgagtgaattggaggtggtttgacttgcttcatccttatcttagtgctgttttaattgatctcagACTGTTGCAATGAAATTTATTCTCAAGCATGGGAAAAGTGAGAAGGACATTCAGAATCTAAGACAGGAAATTGAG---
upper sequence: EFJ37043 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S53_93V6.1 (Physcomitrella patens), 3'ss of exon 1
-------------------------------------------------------------------------------------------------------tttggttttcttgcttgcccctgatcgatcg--atcgac-
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gttagtaccttctaccacttgtatcatgtgagcatgtcacttaagcagagatcctcaatggttcacgcggttactcttttacatccgggttttgcttcgaatatttcgtcgatctattgacttgcgataactccacattgattgcagACGGTTGCAATGAAGTTTATACTCAAGCATGGCAAGAGCGACAAGGATATTGATAATCTCAGACAGGAGATTGAG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggttttcttgcttgcccctgatcgatcgatcgacCAGACTGTCGCCATGAAATTTATTCTCAAGCACGGCAAGAGCGACAAGGACATCGAGAATTTGCGGCAAGAGATTGAGGTA
ccctgat putative branch site (score: 4)
ttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttggttttcttgcttgcccctgatcgatcgatcgacCAGACTGTCGCCATGAAATTTATTCTCAAGCACGGCAAGAGCGACAAGGACATCGAGAATTTGCGGCAAGAGATTGAGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA