Sequence
atgc intronic sequence ATGC exonic sequencegtaacaccttttcttttgttggcattctctgtttaccttgtccttgtagGTTTGCATATTTGCGTATGGCCAAACTGGATCGGGCAAGACACACACTATGATTGGACAGCCAGATGACATGGACCAGAAGGGTGTGATTCCCAGGTCTT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ33133 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ33133 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: LOC_Os03g64415.1 (Oryza sativa), 3'ss of exon 2
-------------------------------------------------------------------------------gtaacacct--tttcttttgttggcattctctgtttaccttgtccttgtagGTTTGCATATTTGCGTATGGCCAAACTGGATCGGGCAAGACACACACTATGATTGGACAGCCAGA-TGACATGGACCAGAAGGGTGTGATTCCCAGGTCTT
|| | | | ||| | || | | || | | |||| ||||||||||| |||||||||||||| ||||| || ||| |||| ||||| ||| | ||||| | ||||| ||||||| || | ||||| || ||
gtaacatttacttgtcgctgtgctttgagaagtgcaagagcacaaccccactataggagtgggaaaaaagtttaagtccacaaaagttagtatctataattcgtgctagctaat-gtgaaaacaactcagGTGTGCATATTTGCATATGGCCAAACTGGCTCGGGTAAAACATACACAATGATGGGAAATCCAGAATTACATG-ACCAGAAAGGATTAATTCCGAGATCAC
upper sequence: EFJ33133 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: LOC_Os07g01490.2 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------------------------------------gtaacacct--tttcttttgttggcattctctgtttaccttgtccttgtagGTTTGCATATTTGCGTATGGCCAAACTGGATCGGGCAAGACACACACTATGATTGGACAGCCAGA-TGACATGGACCAGAAGGGTGTGATTCCCAGGTCTT
||| | | | | | | || | | || | | |||| ||||||||||| |||||||||||||| ||||| || ||| |||| ||||| ||| | ||||| | |||| ||||||| || | ||||| || ||
gtaacatttacttgttgctgtgttttgagaagtgcaagagcacaacctcgctataggagagggaaaaaagtttgtccataaaagttagtatttataattcgtgctaactaat-gtgaaaacaactcagGTGTGCATATTTGCATATGGCCAAACTGGCTCGGGTAAAACATACACAATGATGGGAAATCCAGAATTGCATG-ACCAGAAAGGATTAATTCCGAGATCAC
upper sequence: EFJ33133 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: PP1S87_179V6.1 (Physcomitrella patens), 3'ss of exon 10
-----------------------------------------------------------------------gtaacaccttttcttt----tgttggcattct-----ctgtttaccttgtccttgtagGTTTGCATATTTGCGTATGGCCAAACTGGATCGGGCAAGACACACACTATGATTGGACAGCCAGATGACATGGACCAGAAGGGTGTGATTCCCAGGTCTT
| || ||| | || | | | |||| | | || || | | || |||| ||||||||||||||||| || ||||||||||| ||||| ||||| ||||| || | ||||| ||| | || || |||||| | |||
gtataattttacttctcgtgatggcttgcctggtatgtatatgagttcgtcgccggcgatcgttggaatggattacttatttacattagtatttcgacattattgtaacgtttcacgcgattcatgcagGTCTGCATATTTGCGTATGGTCAGACTGGATCGGGAAAGACGCACACCATGATAGGTAACCCAGAAATTCCTGACGAAGGAGGGGTTATTCCCCGCTCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaacaccttttcttttgttggcattctctgtttaccttgtccttgtagGTTTGCATATTTGCGTATGGCCAAACTGGATCGGGCAAGACACACACTATGATTGGACAGCCAGATGACATGGACCAGAAGGGTGTGATTCCCAGGTCTT
ttctctgtttaccttg CT-rich tract
ttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacaccttttcttttgttggcattctctgtttaccttgtccttgtagGTTTGCATATTTGCGTATGGCCAAACTGGATCGGGCAAGACACACACTATGATTGGACAGCCAGATGACATGGACCAGAAGGGTGTGATTCCCAGGTCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA