Sequence
atgc intronic sequence ATGC exonic sequenceTTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttcccttttctcagcgaaacaatgcgattcggttttcaagtcagggttctctttttattatgaccag
Basic information
species | Selaginella moellendorffii |
transcript | EFJ30281 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ30281 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: GRMZM2G057448_T01 (Zea mays), 5'ss of exon 4
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttcccttttctcagcgaaacaatgc-----gattcggttttcaa---gtcagggt---tctctttttat--tatgaccag----------------------------
|| |||| || || || || || || || ||||||||||||||||||||||| || || | ||||| ||||| |||||||| || | ||| | |||||| | | | ||| | | | || || || ||| ||| || | || || || ||
TTCGATACAAAAATTGAGGCATCATCAGCAAAGATGTATTTCCACTACTATGGCCAGCTATTACATCAGCAAAACATGTTACAAGATTTTGTGCGGACAGgtgtcttaccacttaaagctcacattcctttctattccgattcacagtgtatcatggtagttcacattctacactaatactgacaaggtcgtgcacattatttctcttcag
upper sequence: EFJ30281 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: GLYMA09G05000.1 (Glycine max), 5'ss of exon 2
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttccct-----tttctcagcgaaacaatgcgattcggttttcaagtcagggttctctttttattatgaccag-------------------------
|||||| | ||||| || | || ||||| || |||||||| || || ||||||||||| || ||||| ||||||||||| |||||||| ||||| ||||||| ||| | | || | | |||| | ||||| ||| | ||
TTTGATGAAAAGATAGAGTCATCTTCTGCAAAAATGTATTTTCATTATTATGGACAACTTCTGCATCAGCAAAATATGTTGCAGGACTATGTGAGGACAGgttacacctgattgtattctagtggccttttatatagttattttacttttttagttctacccatatgtttactgaggaattcctgatgttcttgttttag
upper sequence: EFJ30281 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: GLYMA15G15830.1 (Glycine max), 5'ss of exon 4
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttcccttttctcagcgaaacaa--tgcgattcggttttcaagtcagggttctctttttattatgaccag----------------------------
|||||| | ||||| || | || ||||| || |||||||| || || || |||||||| || ||||| ||||||||||| |||||||| ||||| ||||||| ||| | | | | || ||| | | | || | | ||| |
TTTGATGAAAAGATAGAGCCATCTTCTGCAAAAATGTATTTTCATTATTACGGACAACTTCTGCATCAGCAAAATATGTTGCAGGACTATGTGAGGACAGgttacacctgattgtattctagtggccttttatatagttattttatttttttacttctaccaatatatttactgaggaattcctgatgtttttgttttag
upper sequence: EFJ30281 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: GLYMA07G37680.1 (Glycine max), 5'ss of exon 4
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttccctt---ttctcagcgaaacaatgcgattcggtt---ttcaagtcagggttctctttttattatgaccag-------------------
|||||| | ||||| || | || ||| | || |||||||| || || ||||||||||| || ||||| ||||||||||| |||||||| ||| | ||||||| | | || |||| | || || | || ||| | | | | || | |||| |
TTTGATGATAAGATAGAGTCATCATCTTCTAAAATGTATTTTCATTATTATGGACAACTTCTGCATCAGCAAAATATGTTGCAGGACTATGTGCGGACAGgttatactttgtgttctagcagtccttattttgtttgtttgaattctacctatatatgttgccttgatctgacaaattagttaatattgtttcag
upper sequence: EFJ30281 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: GLYMA17G02960.1 (Glycine max), 5'ss of exon 4
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttcccttttctc--agcgaaa--caatgcgattcggttttcaagtcagggttctctttttattatgaccag-------------------
|||||| | ||||| || | || ||||| || |||||||| || || ||||||||||| || ||||| ||||||||| | |||||||| ||| | ||||||| | | || | | || | || | | || | ||| | | | || | |||| |
TTTGATGAAAAGATAGAGTCATCATCTGCAAAAATGTATTTTCATTATTATGGACAACTTCTGCATCAGCAAAATATGCTGCAGGACTATGTGCGGACAGgttatactttgtgttctagtggtcctcattttgtttgagaattcttcctatatgtgttaccttgatctgacaaattagctaatattgtttcag
upper sequence: EFJ30281 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: AT5G49020.1 (Arabidopsis thaliana), 5'ss of exon 4
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttcccttttctcagcgaaacaatgcgattcggttttcaagtcagggttctctttttattatgaccag----------------------------------------------
|| ||| | ||||| || || | || ||||| ||||||||||| || ||||||||||| | ||||| ||||||||| ||||||| || ||||| || ||| || || | | | || || | | | || | || || || || |||
TTCGATGATAAGATTGAGGCTGCTTCAGCCAAAATGTATTTCCATTATTATGGACAACTTTTACATCAGCAAAATATGCTACAGGATTATGTGAGGACGGgtaagatctggcctttgtgcattgat-tacctcagaggaaggataactttttttttgttgttgcgaacagcaatttgacccaagatagctctttttcgtcatattactctcttcag
upper sequence: EFJ30281 (Selaginella moellendorffii), 5'ss of exon 4
lower sequence: Vv05s0020g01540.t01 (Vitis vinifera), 5'ss of exon 4
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgtt---ttcccttttctcagcgaaacaatgc--gattcggttttcaagtcagggttctcttttta--ttatgaccag-------------------------------------------------------------------------------------------
|||||| | ||||| || || || ||||| || ||||| ||||| |||||||| || | || ||||| |||||||||||||| || || ||||||||||||| | || | | | | | | | | || || |||| |||| | || |
TTTGATGATAAGATAGAGGCATCTTCTGCAAAAATGTACTTCCATTACTATGGGCAGTTGCTACATCAGCAAAATATGTTACAAGATTATGTGAGAACAGgttatatcaccagctgtaattttgtctctccctaagttcagttacatcaatatgttcactttcaactttgtagttgaaatttttggctaaagtgcaatgtttctcgtctggttaataaaatatattcttcttgtatgcatcaattacataatggattttgttttttagMapped 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|169080995|gb|FE490753.1|FE490753EST: TGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAG GCACTTATTATGCCGCTGTGGTGGAGAATCGTGCGGACTTTCAGGGCCGAG
genomic: TGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttccctt ... ttatgaccagGCACTTATTATGCCGCTGTGGTGGAGAATCGTGCGGACTTTCAGGGCCGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGATAAGAAGATCGAAGCGTCGTCTGCCAAGATGTATTTCCACTACTATGGACAACTCCTCCATCAACAAAATATGTTACAGGACTACGTGAGAACAGgttttcccttttctcagcgaaacaatgcgattcggttttcaagtcagggttctctttttattatgaccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC