Sequence
atgc intronic sequence ATGC exonic sequencegtactgtagttgttttgaccacgtgcagtcagtctctttttgtgtgcagCCGCATTCTCCGGATAAACGAGCATTAGCCAGGAACTGCAAAGATGTGAAGATCGACCGAGTGTACATTGGCTCCTGCACGGGAGGCAAGACGGAGGACG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ16664 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ16664 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GRMZM2G370852_T02 (Zea mays), 3'ss of exon 10
----------------------------------gtactgtagttgttttgaccacgtgcagtcagtctctttttgtgtgcagCCGCATTCTCCGGATAAACGAGCATTAGCCAGGAACTGCAAAGATGTGAAGATCGACCGAGTGTACATTGGCTCCTGCACGGGAGGCAAGACGGAGGACG
| || || | | | ||| | | ||| | ||||||| ||||| || || || || || |||| || | ||||||||||| |||||||||||||| || ||||| |||||||| || |||||||| ||||||
gtctgttgatgtagtattttgttatcttcatcttctgttgcttttcctataaaaacgaagcaataactgcctttgatctgcagCCACATTCGCCTGACAACCGTGCCCTAGCAAGAGAATGCAAAGATGTCAAGATCGACCGAGTCTATATTGGTTCCTGCACTGGTGGCAAGACTGAGGACT
upper sequence: EFJ16664 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GRMZM2G010044_T01 (Zea mays), 3'ss of exon 10
------------------------------------gtactgtagttgttttgaccacgtgcagtcagtctctttttgtgtgcagCCGCATTCTCCGGATAAACGAGCATTAGCCAGGAACTGCAAAGATGTGAAGATCGACCGAGTGTACATTGGCTCCTGCACGGGAGGCAAGACGGAGGACG
| || || | | | || | || ||||||| ||||| || || || || || ||| || | |||||||||||||||||||||||||| || ||||| || ||||| || || ||||| |||||
gtttgttggcgcattattttctgcaatcgacatcttttgttggttttcctataaaaacaaaggaatacctgtcttggacctgcagCCACATTCGCCTGACAACCGTGCTCCAGCAAGAGAATGCAAAGATGTGAAGATCGACCGAGTCTATATTGGTTCTTGCACTGGTGGTAAGACCGAGGATT
upper sequence: EFJ16664 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GRMZM2G133988_T01 (Zea mays), 3'ss of exon 5
------------------------------------gtactgtagttgttttgaccacgtgcagtcagtctctttttgtgtgcagCCGCATTCTCCGGATAAACGAGCATTAGCCAGGAACTGCAAAGATGTGAAGATCGACCGAGTGTACATTGGCTCCTGCACGGGAGGCAAGACGGAGGACG
| || || | | | || | || ||||||| ||||| || || || || || ||| || | |||||||||||||||||||||||||| || |||||
gtttgttggcgcattattttctgcaatcgacatcttttgttggttttcctataaaaacaaaggaatacctgtcttggacctgcagCCACATTCGCCTGACAACCGTGCTCCAGCAAGAGAATGCAAAGATGTGAAGATCGACCGAGTCTATATTGG----------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtactgtagttgttttgaccacgtgcagtcagtctctttttgtgtgcagCCGCATTCTCCGGATAAACGAGCATTAGCCAGGAACTGCAAAGATGTGAAGATCGACCGAGTGTACATTGGCTCCTGCACGGGAGGCAAGACGGAGGACG
ttttgac putative branch site (score: 3)
tctctttttgt putative PPT
ttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtagttgttttgaccacgtgcagtcagtctctttttgtgtgcagCCGCATTCTCCGGATAAACGAGCATTAGCCAGGAACTGCAAAGATGTGAAGATCGACCGAGTGTACATTGGCTCCTGCACGGGAGGCAAGACGGAGGACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA