Sequence
atgc intronic sequence ATGC exonic sequencegtaatcattgaattccactagcaggttcttatgtcttttctacggcagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ32802 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ32802 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 10
------------------------------------------------gtaatcattgaat----tccactagcaggttct-tatgtcttttctacggcagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAG---------
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ttaatttgttcagagaactttaaaatccttagctgcttcagttcatttgctttcatgggaacatgtgtactgataatgtctatatatatctta-acaacagGTTTGATGACACAAATCCAGAAGCCGAAAAGAAAGAGTATATTGACCACATTCAGGAAATCGTACACTGGATGGGATGGGAGCCCTACAAAGTTACATAT
upper sequence: EFJ32802 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 10
--------------------------------------------------gtaatcattgaattccactag--caggttcttatgtcttttctacggcagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAG
| | | | || | | || ||| | | | | ||||| ||||||||| ||||| || || ||||| |||| |||||||| ||||| |||| ||||| ||||||||||||||||||| ||||||
aatttctgttaaaattcctataagccttcattagaactttgtaattgaacatgcactataactttctttgttccaagttgatggcttgtggcacttccagGTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAG
upper sequence: EFJ32802 (Selaginella moellendorffii), 3'ss of exon 9
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------------------------------------gtaatcattgaa--ttccactagcaggttcttatgtcttttctacgg----------cagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAG
|||| ||| ||| |||| | || | || | ||||| ||||||||| |||||||| || ||||| ||||| |||||| | || || |||| ||||| |||||||||||||| |||| ||||||
gtaaaaaaagtttggttgcttttacttgagtttcatacatctttacctttctataacaatccttgtttcttctgtaagcacaatgttcaatattccttgaaaatctggttttcagGTATGATGATACAAATCCAGAGGCAGAAAAGGAAGAGTATATTAATCATATTGAAGAAATTGTTAAGTGGATGGGTTGGGAACCCTTCAAGMapped 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|169066199|gb|FE475179.1|FE475179EST: TTTGTCGATTTTGGATTTGCATGCGATGCAAATGGCTACTGCTACCTGAG GTTTGACGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACAT
genomic: TTCGTCGATTTTGGATTTGCATGCGATGCAAATGGCTGCTGCTACCTGAGgtaatcattg ... tctacggcagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACAT
EST:
gi|169098526|gb|FE497204.1|FE497204EST: TTTGTCGATTTTGGATTTGCATGCGATGCAAATGGCTACTGTTACCTGAG GTTTGACGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACAT
genomic: TTCGTCGATTTTGGATTTGCATGCGATGCAAATGGCTGCTGCTACCTGAGgtaatcattg ... tctacggcagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaatcattgaattccactagcaggttcttatgtcttttctacggcagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAG
ttcttatgtcttttct CT-rich tract
taatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcattgaattccactagcaggttcttatgtcttttctacggcagGTTTGATGATACGAATCCAGATGCCGAAAAAGAAGAATATATTGAACACATAAAAGAGATTGTAGAGTGGATGGGTTGGAAACCGTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA