Sequence
atgc intronic sequence ATGC exonic sequencegtaagagcatttctatttcttatatttctgagaacttatttgaacgttcttgcagCTCTGTCTATTACTCACCGTCTGATGTCGAGATCTTAAGGCCCATGGTCGAAGTTACATGGGCTCCAATGCTTGCAGCCTTCAGTGTTCCACTGGAGAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ15473 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ15473 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: LOC_Os03g14260.2 (Oryza sativa), 3'ss of exon 5
------------------------------------------------------------------------------------------------------------------gtaagagcatttc-tatttcttatatttctgagaacttatttgaacgttcttgcagCTCTGTCTATTACTCACCGTCTGATGTCGAGATCTTAAGGCCCATGGTCGAAGTTACATGGGCTCCAATGCTTGCAGCCTTCAGTGTTCCACTGGAGAAG
| || | | |||| | ||| | || | |||| | ||| || || | || || | | ||||| | | || | ||||||||| ||| |||||||| |||||||| ||||||||||||||||| || ||
gtaagtcatgctagatgtctagatggatagctcaatacctgtatacactaaatgcatgttttccttggtcatttttctttgctgcccatttgatttctgcaactacattattttactgatttgtctcatgtcaattatttatctagaatattttatgaatgaat---cagGTCAGTATTCTATCCAGCAACAGATGTAGTAGTTTTGAAATTCATGGTCGAGGTTTGCTGGGCTCCTATGCTTGCTGCCTTCAGTGTTCCACTTGACCAG
upper sequence: EFJ15473 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 5
---------------------------------------------------------------------------------------------------------------------------gtaagagcatt---tctatttctta-tattt---ctgagaacttatttgaacgttcttgcagCTCTGTCTATTACTCACCGTCTGATGTCGAGATCTTAAGGCCCATGGTCGAAGTTACATGGGCTCCAATGCTTGCAGCCTTCAGTGTTCCACTGGAGAAG
|| |||| | ||| ||| | ||| || || || ||| | | ||| ||||| | ||| || | | ||||| | | || | | |||||| || ||| |||||||| ||||||||||| |||||||||||||| || ||
gtaagttattagatgttgagatgtatagtggtatcggcttggctagaccgctagattaagattcttgttttatttcaacattttttctgttttgctaacaatatatttagggtcttgtagtatgtttcgacatttaatttatcagttaatgttttaactatgacttttttttttggaacaaccagGTCTGTATTTTATCCAGCCACAGATGTAGTTGTTTTGAAGTTCATGGTTGAGGTTTGCTGGGCTCCTATGCTTGCAGCATTCAGTGTTCCACTTGACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagagcatttctatttcttatatttctgagaacttatttgaacgttcttgcagCTCTGTCTATTACTCACCGTCTGATGTCGAGATCTTAAGGCCCATGGTCGAAGTTACATGGGCTCCAATGCTTGCAGCCTTCAGTGTTCCACTGGAGAAG
cgttctt CT-rich tract
atttctatttcttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagcatttctatttcttatatttctgagaacttatttgaacgttcttgcagCTCTGTCTATTACTCACCGTCTGATGTCGAGATCTTAAGGCCCATGGTCGAAGTTACATGGGCTCCAATGCTTGCAGCCTTCAGTGTTCCACTGGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA