Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcagatcgatgacgtagttctctggatttattccctggttgttctgttttcccagGCTAGCCGGCTGGGAATAACGACAGTGGTGTCCACGGACTCAATTCGTCACATGATGAGGAGTTTTGCGGACGAGAAGTCCAATCCTCTTTTATGGGCCT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ22815 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ22815 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA11G20130.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------gtaagtc--agatcgatgacg--tagttctctggatttattccctggttgttctgttttc---ccagGCTAGCCGGCTGGGAATAACGACAGTGGTGTCCACGGACTCAATTCGTCACATGATGAGGAGTTTTGCGGACGAGAAGTCCAATCCTCTTTTATGGGCCT
| |||| | || | | || || ||| | || || | | ||| |||| || || ||||||| ||||||||||| || || || || ||||| ||||||||||| |||||||| | ||||| || || | || ||||| |
gtatcttgacaaagagaaacaattgtttgtttttcaaatgcgaaaaatcttgtatatatgtgagaaagttgaaaatgagtaatatttataccttacagtttgataactatcatttatatcttcacttcagGGAAGTAGGTTGGGAATCACGACAGTGGTATCGACCGATTCTATTCGGCACATGATGAGAAGTTTTGCTAATGAGAAAGAAAACCCCTTGTTGTGGGCTT
upper sequence: EFJ22815 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: AT5G60760.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------------------------------------------gtaagt-cagatcgatgacgtagttctctggattt---attccctggttgttctgttttcccagGCTAGCCGGCTGGGAATAACGACAGTGGTGTCCACGGACTCAATTCGTCACATGATGAGGAGTTTTGCGGACGAGAAGTCCAATCCTCTTTTATGGGCCT
|| || | | | | | | ||| | || | | | | || | | | | |||| || |||| || || || || ||||| || || |||||||| |||||||||||||||||||| | || || ||| |||||| | ||||||| |
gtatttttcatcacatgtattataatcgttttagattgacataagatgatgcttcactgttttgttttgttatattcaatatttggttaggtactgtttcacttcttttttccacaggctttacaatactggattctgttttccttacagGGAAGTAGGCTTGGGATTACAACGGTGGTCTCAACCGACTCAATCCGTCACATGATGAGGAGTTTCGTTGATGAAAAGCAGAATCCTTTGCTATGGGCTT
upper sequence: EFJ22815 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: Vv06s0061g00280.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------------gtaagtcagatcgatgacgtagttctctggatttattccctggttgttctgttttcc---cagGCTAGCCGGCTGGGAATAACGACAGTGGTGTCCACGGACTCAATTCGTCACATGATGAGGAGTTTTGCGGACGAGAAGTCCAATCCTCTTTTATGGGCCT
| | | | | || | ||| ||| | | || | | | | || |||| |||| || ||||||| ||||| ||| | || || ||||| ||||| |||||||||||||||||||| || || ||| ||||| || | ||||| |
agtactgaaattgggcaacaaatatgagaaaccacattatttctgtaaacatttaca-atttcaatgggtcaaaaatttgagcctaccatatcccttgcagGGTAGCAGGTTGGGAATTACGACTGTGATATCTACTGACTCGATTCGGCACATGATGAGGAGTTTTGCAGATGAAAAGCAAAATCCCCTGCTCTGGGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagatcgatgacgtagttctctggatttattccctggttgttctgttttcccagGCTAGCCGGCTGGGAATAACGACAGTGGTGTCCACGGACTCAATTCGTCACATGATGAGGAGTTTTGCGGACGAGAAGTCCAATCCTCTTTTATGGGCCT
ttgttctgttttccc CT-rich tract
atttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcagatcgatgacgtagttctctggatttattccctggttgttctgttttcccagGCTAGCCGGCTGGGAATAACGACAGTGGTGTCCACGGACTCAATTCGTCACATGATGAGGAGTTTTGCGGACGAGAAGTCCAATCCTCTTTTATGGGCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT