Sequence
atgc intronic sequence ATGC exonic sequenceTGCAAACGGGAGTTCTTCTAATGGCAAAGCAAAGGAAGAAGCTAGCAAACACCAAACTCTTGGCCACAAGAGCCTCCTCAAGAGCGACGCTCTCTATCAGgtacttccaagtttccaaatgctctgatctctagattttctccattgacgcag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ35623 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ35623 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: LOC_Os06g06980.2 (Oryza sativa), 5'ss of exon 1
TGCAAACGGGAGTTCTTCTAATGGCAAAGCAAAGGAAGAAGCTAGCAAACACCAAACTC-----TTGGCCACAAGAGCCTCCTCAAGAGCGACGCTCTCTATCAGgtacttccaagtttccaa--atgctctgatctctagattttctccattgacgcag-------------------------------------------
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-GACGACGGAG--CAGGCGAATGG--GAGCAGCGGCGGCGAGCAGAAGACGCGGCACTCGGAGGTCGGCCACAAGAGCCTCCTCAAGAGCGACGATCTCTACCAGgtaacccgccgtctccggccatcccctcctcgccggaaaacctccgccgccgtggctgaccttgcctgactggctgactcggtgcttcgtttccgcag
upper sequence: EFJ35623 (Selaginella moellendorffii), 5'ss of exon 1
lower sequence: GRMZM2G127948_T04 (Zea mays), 5'ss of exon 3
---TGCAAACGGGAGTTCTTCTAATGGCAAAGCAAAGGAAGAAGCTAGCAAACACCAAACTCTTGGCCACAAGAGCCTCCTCAAGAGCGACGCTCTCTATCAGgtac---ttccaagttt------ccaaat---gctctgatctctagatttt--ctccattgacgcag-------------------------------
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GCCGGCGCAGGAGCAGCAGGCCAACGGCAACGGCGAGCAGAAGACGCG-GCACTCCGAGGTC--GGCCACAAGAGCCTGCTCAAGAGCGACGACCTCTACCAGgtaaacactccgatcctgcctgcccatttccggcctcgcgctctagatcttatcttccgtgactcgaatctgaccgggggaagaatcacttccaccagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|169037709|gb|FE444786.1|FE444786EST: ACCAAACTCTTGGCCACAAGAGCCTCCTCAAGAGCGACGCTCTCTATCAG TATCTCCTCGAGACGAGCGTTTATCCGCGAGAGCCAGCGTCACTCAGAGGA
genomic: ACCAAACTCTTGGCCACAAGAGCCTCCTCAAGAGCGACGCTCTCTATCAGgtacttccaa ... attgacgcagTATCTCCTCGAGACGAGCGTTTATCCGCGAGAGCCAGCGTCACTCAGAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCAAACGGGAGTTCTTCTAATGGCAAAGCAAAGGAAGAAGCTAGCAAACACCAAACTCTTGGCCACAAGAGCCTCCTCAAGAGCGACGCTCTCTATCAGgtacttccaagtttccaaatgctctgatctctagattttctccattgacgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC