Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgagctgaaacttctcttcacaatgtcgaggccaaataattcttttttcagCGGGTGTTTTGGCGGGGAGTTGTCGAAGAGCTACTTTGGTTTATAAGTGGATCCACAAACGCGAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ36491 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ36491 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G139880_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------gtgagtgagctgaaacttctcttcacaatgtcgaggccaaataattcttttttcagCGGGTGTTTTGGCGGGGAGTTGTCGAAGAGCTACTTTGGTTTATAAGTGGATCCACAAACGCGAAG
| | | | | | | | | || ||| ||| ||||||||||||| || ||||||||||| || |||||||| || ||||| || ||||| || |||
ggagtccaaactcaaaaagaaagtttgaagaattatggtaccatatatttaggtagcacttcttgactaatgcaatacaataacatgtgctctttaacagAGGGTGTTTTGGCGTGGTGTTGTCGAAGAACTCCTTTGGTTCATCAGTGGCTCAACAAATGCAAAG
upper sequence: EFJ36491 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------------------------------------------------------------------------gtgagtgagctgaaacttctcttcacaa-tgtcgaggccaaat--------aattcttt------tttcagCGGGTGTTTTGGCGGGGAGTTGTCGAAGAGCTACTTTGGTTTATAAGTGGATCCACAAACGCGAAG
| | || | || ||| || || | | || ||| | ||||| || || || |||||||| || ||||| |||||||| ||||||||||| ||||| || ||||| || |||
gcatgtattagagattatggtttaagatgtgtttgatctgctgtgtaaaataacttgtcttttgtgtgaattcttttctttttcctttggttttgataattattgtgtttactactttggatgtttgctatggaaggggaatatctatttgtaaattttgatagagaatttgacttgatttcttcgattgattgtagAAAGTATTTTGGCGAGGGGTTGTTGAAGAGCTTCTTTGGTTTATCAGTGGCTCAACAAATGCCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagtgagctgaaacttctcttcacaatgtcgaggccaaataattcttttttcagCGGGTGTTTTGGCGGGGAGTTGTCGAAGAGCTACTTTGGTTTATAAGTGGATCCACAAACGCGAAG
ttcttttttc CT-rich tract
aaataattcttttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgagctgaaacttctcttcacaatgtcgaggccaaataattcttttttcagCGGGTGTTTTGGCGGGGAGTTGTCGAAGAGCTACTTTGGTTTATAAGTGGATCCACAAACGCGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA