Sequence
atgc intronic sequence ATGC exonic sequencegtgctttctttgactcctttgaattttgttgaacaactttgatgtttcttttgtagCATTTTTCGAAAAGATGCAGTCAGGAGGTGACTTAAATTTGATTGGCCAGTTTGGAGTCGGTTTCTACTCGGTGTATTTGGTCGCGGATTACGTCGAGGT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ28825 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ28825 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GRMZM2G399073_T03 (Zea mays), 3'ss of exon 5
------------------------------------------------------------------------------------gtgctttctttgactcctttgaattttgttgaacaactttgatgtttcttttgtagCATTTTTCGAAAAGATGCAGTCAGGAGGTGACTTAAATTTGATTGGCCAGTTTGGAGTCGGTTTCTACTCGGTGTATTTGGTCGCGGATTACGTCGAGGT
|| ||||| | | |||| || | ||||| || || ||||| ||| ||| |||||||||||||||| ||||||||| | ||| | ||||| |||||||| || || |||||||||||||| ||||| || || || ||||| ||
gtattgttttttcatctgtcaggctgatttgtgcaatccaatatttgtttaatatgataatctgaatatttgtttaatattactgttctttcatcttatgctttcaaataatttgaattgttt--gcaatttttttgcagCTTTTGTCGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCGGTGTACTTGGTTGCTGACTATGTCGAAGT
upper sequence: EFJ28825 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 5
---------------------------------------------gtgctttctttgactcctttgaatt---ttgttgaacaactttga-tgttt----cttttgtagCATTTTTCGAAAAGATGCAGTCAGGAGGTGACTTAAATTTGATTGGCCAGTTTGGAGTCGGTTTCTACTCGGTGTATTTGGTCGCGGATTACGTCGAGGT
|| || || | | | ||| | | || || || | ||||| ||||| ||| ||| | |||||||||||||| ||||||||| | ||| | ||||| |||||||| || || |||||||| ||||| ||||| || || || || || ||
gtactgccttttcatctttccagctgattactgcactcacaatatttgtttatttataataataaagattatcctctcaaataatttgaactgtttgatatttttgcagCTTTTGTGGAAAAGATGCAGTCTGGAGGTGACCTCAATCTTATTGGACAGTTTGGTGTTGGCTTCTACTCTGTGTACTTGGTTGCTGACTATGTTGAAGT
upper sequence: EFJ28825 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: EDP06860 (Chlamydomonas reinhardtii), 3'ss of exon 2
--------------------------------------gtgctttctttgactcctttgaattttgttgaacaactttgatgtttctt--------ttgtagCATTTTTCGAAAAGATGCAGTCAGGAGGTGACTTAAATTTGATTGGCCAGTTTGGAGTCGGTTTCTACTCGGTGTATTTGGTCGCGGATTACGTCGAGGT
| || | | | | ||| | || | ||| || || ||| || ||| || | || |||||||| || || ||| | || |||| ||||||||||| || ||||||||||||||||| |||| || || ||||| |||||
cggcggtagcatgctactgcgcttctgctgtccctccagcgcgtgcac--aatacttgacacgccgtcccgcctcttctatattgcttgccgccccctgcagCCTTCCTGGAGCAGATGCAGAAGGGTGGCGACATGAACCTGATCGGCCAGTTTGGTGTGGGTTTCTACTCGGTGTACCTGGTGGCCGACTACGTGGAGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctttctttgactcctttgaattttgttgaacaactttgatgtttcttttgtagCATTTTTCGAAAAGATGCAGTCAGGAGGTGACTTAAATTTGATTGGCCAGTTTGGAGTCGGTTTCTACTCGGTGTATTTGGTCGCGGATTACGTCGAGGT
tgtttctttt CT-rich tract
tttgaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctttctttgactcctttgaattttgttgaacaactttgatgtttcttttgtagCATTTTTCGAAAAGATGCAGTCAGGAGGTGACTTAAATTTGATTGGCCAGTTTGGAGTCGGTTTCTACTCGGTGTATTTGGTCGCGGATTACGTCGAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG