Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgagttttatatgttttgcagtgttaacttaatgtcttatagGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCACTGGGATGAACCAACAAAAAAATACGTGGAGATTGCAAAGTTTCCGACAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ23220 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ23220 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA08G19430.1 (Glycine max), 3'ss of exon 8
----------------------------------------------------gtaagtgagttttatatgttttgcagtgttaacttaatgtct-tatagGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCACTGGGATGAACCAACAAAAAAATACGTGGAGATTGCAAAGTTTCCGACAG
||| ||| ||| | || | | | | | | | |||| | ||||| || |||||||||||||| ||||| ||||||||||| | |||||||||||||||| | ||
cattgcatataattttttttgtgtgcgtgccagtgtttcaaagttagactattaaagcgagctttcaaatttgtttaattactatgtgttacttgcatagATACCAAGTAAAGGAAAGATTTATTCGGTGAATGAAGGAAATGCCAGAAACTGGGATGAACCAACCACTAA-----------------------------
upper sequence: EFJ23220 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA10G36990.2 (Glycine max), 3'ss of exon 7
-----------------------------------------------------gtaagtgagttttatatgttttgcagtgttaacttaatgtcttatagGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCACTGGGATGAACCAACAAAAAAATACGTGGAGATTGCAAAGTTTCCGACAG
|| ||||| ||||| |||| | ||| || |||||| ||| || ||||| ||||| ||||| |||||||||||||| |||||||||| || || | ||
cacagagttcacgggttaagggcacgcatgatcttattgaaaccatctgtagcttatttgagtgatatattaattgcttgatctgtggttcacctttcagATTCCAAAGAAAGGCAAGATCTATTCAGTGAATGAAGGAAATGCTAAAAACTGGGATGACCCTACTACCAA-----------------------------
upper sequence: EFJ23220 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: PP1S385_43V6.1 (Physcomitrella patens), 3'ss of exon 7
-------------------------------------------------------gtaagtgagttttatatgttttgcagtgttaacttaatgtcttatagGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCACTGGGATGAACCAACAAAAAAATACGTGGAGATTGCAAAGTTTCCGACAG
||| | | || | || | || | ||||| || | || |||| | ||||||||| ||||| ||||| |||||||||||||| || |||||||| | || |||| || || ||||||| |||||||| || | |
tggtttaacgctttgtttgtatgggtttcaaatagtttttgacctgccatcttttataactatgcttctggcaatctg-ataatttatttaatttcat-cagATTCCTAAGAAGGGAAAAATTTACTCTGTTAACGAAGGAAATGCCAAACACTGGGACGGTCCTACAACCAAGTATGTGGAGAACGCAAAGTTCCCCAAGG
upper sequence: EFJ23220 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: PP1S1_300V6.2 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------gtaagtgagttttatatgttttgcag-tgttaacttaatgtcttata------------gGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCACTGGGATGAACCAACAAAAAAATACGTGGAGATTGCAAAGTTTCCGACAG
| ||| || || |||||| |||||| | || || || | |||| | ||||| |||||||| |||||||| ||||||||||| || |||||||| | || |||| || || ||||||| || |||||||| | |
acacttggtttttgatgatttgttcttgtaaagtccagttggcttatgaccttc-catcatttgcaactgttaatctgatcgtttctatttgcttcgtcagATTCCCAAAAAGGGCAAGATTTACTCTGTGAATGAAGGAAATGCCAAACACTGGGACGGGCCCACAACGAAGTATGTGGAGAACGCCAAGTTTCCCAAGGMapped 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|169048146|gb|FE456861.1|FE456861EST: CACTGGACCCTGCTCTTGGAGAGTTTATTCTTACACATCCAGTAATGCGG GTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCAC
genomic: CACTGGACCCTGCTCTTGGAGAGTTTATTCTTACACATCCAGTAATGCGGgtaagtgagt ... tgtcttatagGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagtgagttttatatgttttgcagtgttaacttaatgtcttatagGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCACTGGGATGAACCAACAAAAAAATACGTGGAGATTGCAAAGTTTCCGACAG
agttttatatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgagttttatatgttttgcagtgttaacttaatgtcttatagGTTCCAAGGAAGGGAAAGATTTATTCTGTGAACGAAGGAAATGCTAAGCACTGGGATGAACCAACAAAAAAATACGTGGAGATTGCAAAGTTTCCGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG