Sequence
atgc intronic sequence ATGC exonic sequencegtactcgatttcatattttatgtacttactttaatctctgagatgtgcagACAATTTACCGGAACTATCAAAAACTAACACTACAAGAAAGCCCTGGAATTGTTCCTGCAGGCAGGCTTCCTCGCTATAAGGAAGTCATACTGCTTGACG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ17122 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ17122 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 7
----------------------------------------------------------------------------gtactcgatttcatattttatgtacttact-----ttaatctctgagatgtgcagACAATTTACCGGAACTATCAAAAACTAACACTACAAGAAAGCCCTGGAATTGTTCCTGCAGGCAGGCTTCCTCGCTATAAGGAAGTCATACTGCTTGACG
|| || |||| | | | ||| | || || | | | ||||| || || ||||||| || ||||| || || || |||||||| |||||||||||||| ||||||||||| | || |||||||| ||||| || | |
gtaagttgcctgggacgatggtagttctgatacatttgggctttcttctctgtcttaatgcatgaacatgtttttggttctaatattcaaactgttctcttttaataacagttgatttatttgtctcacagACCATATATAGGAACTACCAGAAACTCACTCTTCAGGAAAGCCCAGGAATTGTTCCTGCTGGCAGGCTTCCAAGATACAAGGAAGTGATACTTCTGAATG
upper sequence: EFJ17122 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GRMZM2G139894_T01 (Zea mays), 3'ss of exon 7
---------------------------------------------------------------------------------------------gtactcgatttcatatttta-tgtacttactttaatctctgagatgtgcagACAATTTACCGGAACTATCAAAAACTAACACTACAAGAAAGCCCTGGAATTGTTCCTGCAGGCAGGCTTCCTCGCTATAAGGAAGTCATACTGCTTGACG
| | ||| | || | | | ||||| || | | ||||||| || || ||||||| || ||||| || || || |||||||| |||||||||||||| || |||||||| | || |||||||||||||| || | |
gcatgttaccttaaacacgttttcacagtactgtgttattgctatgtgatatcgatatagttttctgtatgtgggctgtattgttatcctagtaaaattaattgtttcttccaatcttaatacttgaacttttttc-catgcagACTATATATAGGAACTACCAGAAACTCACTCTTCAGGAAAGCCCAGGAATTGTTCCTGCTGGAAGGCTTCCCAGATACAAGGAAGTCATACTTCTGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtactcgatttcatattttatgtacttactttaatctctgagatgtgcagACAATTTACCGGAACTATCAAAAACTAACACTACAAGAAAGCCCTGGAATTGTTCCTGCAGGCAGGCTTCCTCGCTATAAGGAAGTCATACTGCTTGACG
atttcatattttatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactcgatttcatattttatgtacttactttaatctctgagatgtgcagACAATTTACCGGAACTATCAAAAACTAACACTACAAGAAAGCCCTGGAATTGTTCCTGCAGGCAGGCTTCCTCGCTATAAGGAAGTCATACTGCTTGACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA