Sequence
atgc intronic sequence ATGC exonic sequenceGTATGGAATTGACGAAGGCGGTGGTGCTTTCTACGGTCCAAAAATTGATCTCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAGgtaacgcttacatgattctggcagcttatgtttgattctcctccag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ23451 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ23451 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: LOC_Os02g33500.1 (Oryza sativa), 5'ss of exon 6
GTATGGAATTGACGAAGGCGGTGGTGCTTTCTACGGTCCAAAAATTGATCTCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAGgtaacgcttacatgattctggcagctt-atgtttgattctcctccag--------------------
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GTACAAGGTTGATGAAGGTGGAGGCGCTTTCTATGGCCCAAAAATTGATTTGAAAATTGAGGATGCTCTTGGAAGAAAATGGCAATGTTCCACTGTGCAGgtcagttgtatatttatcgaaaatctttgagcacaatggaccacgttaacagtttactacattacag
upper sequence: EFJ23451 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: Vv12s0057g00400.t01 (Vitis vinifera), 5'ss of exon 6
GTATGGAATTGACGAAGGCGGTGGTGCTTTCTACGGTCCAAAAATTGATCTCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAGgtaacgcttacatgattctggcagcttatgt-ttgattctcctccag------------------------------------------------------------------------------------------
||||||| ||||| |||||||| || || ||||| || |||||||||||||||||||||||| |||| | |||||||| || || || || |||| || ||| | | || | ||||| |
----CGAATTGATGAAGGTGGTGGTGCCTTTTATGGTCCTAAGATTGATCTCAAGATTGAGGATGCTCTTGGAAGGAAGTGGCAGTGCTCAACTATACAGGCAAg--ttattaattcaaagttgcccaaacgttgatctggggttaacaattgaattagactgggaaagaactgtcatttatacatcccagtctctcttgtgcaatcccaaagttctaatgaagtgttcagatcaag
upper sequence: EFJ23451 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: PP1S84_273V6.1 (Physcomitrella patens), 5'ss of exon 7
GTATGGAATTGACGAAGGCGGTGGTGCTTTCTACGGTCCAAAAATTGATCTCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAGgtaacgcttacatgattctggcagcttatgttt----gattctcctccag---------------------------------------------------
||||| ||||| ||||| ||||||||||| |||||||| ||||| ||| | ||||| |||||||| ||||| ||||| ||||| || || || || ||||| | | || | | | ||||| | || | ||
ATATGGCATTGATGAAGGAGGTGGTGCTTTTTACGGTCCTAAAATCGATGTGAAGATAGAGGATGCGATTGGTCGCAAATGGCAGTGCTCTACCATTCAGgtcaggtttttccaaacacag-aatttatgccttaacgaagtcattgcatgcacgatttgacatttcttctatgttttgtgaagcgtcaaatttgttagat
upper sequence: EFJ23451 (Selaginella moellendorffii), 5'ss of exon 3
lower sequence: PP1S34_213V6.1 (Physcomitrella patens), 5'ss of exon 7
GTATGGAATTGACGAAGGCGGTGGTGCTTTCTACGGTCCAAAAATTGATCTCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAGgtaacgcttacatgattctggcagcttatgtttgattctcct--ccag------------------------------------------------------------------------------------------------------------------------------------
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ATATAGCATTGACGAAGGAGGCGGTGCTTTTTATGGTCCTAAAATTGATGTGAAGATAGAGGATGCAATTGGTCGCAAATGGCAGTGCTCTACCATTCAGgtgaacctca-atcgggcactcagcccatgttaaacatgtctggcttgtgtggctgtttatgattcagtttctttctactgtactagtctgcatgaatcattctccaacaaaacaatttgattcagcagattttacccattttacacacattgaagatgttgaatttctcgtcttttcagMapped 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|169030648|gb|FE438748.1|FE438748EST: TCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAG GTGGATTTCAACCTTCCCGAGCGTTTCGATCTTACATACGTGGATCCCAGT
genomic: TCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAGgtaacgctta ... tctcctccagGTGGATTTCAACCTTCCCGAGCGTTTCGATCTTACATACGTGGATCCCAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATGGAATTGACGAAGGCGGTGGTGCTTTCTACGGTCCAAAAATTGATCTCAAGATTGAGGATGCTATTGGCCGCAAGTGGCAATGTTCGACAATCCAGgtaacgcttacatgattctggcagcttatgtttgattctcctccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG