Sequence
atgc intronic sequence ATGC exonic sequencegtacgtagtcactacactacattctataaactctaaagcaaagcggactgattgcagAGATACGGGCCACCGCCTTCTTATCCTCAGCTCAGGATTCCTGGATTGAACGCACCTATTCCCGTCGGTGCGTCCTTCGGTTATCATCCTGGAGGCTGGG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ22460 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ22460 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: PP1S98_7V6.1 (Physcomitrella patens), 3'ss of exon 9
----------------------------------------------------------------------------------------------------------------gtacgtagtcactacactacattctataaactctaaagcaaa--------gcggactgattgcagAGATACGGGCCACCGCCTTCTTATCCTCAGCTCAGGATTCCTGGATTGAACGCACCTATTCCCGTCGGTGCGTCCTTCGGTTATCATCCTGGAGGCTGGG
| | | | | | | | || || || | |||| | |||||||||| ||||| || |||||||||||||| || | ||||||||||||||| ||||| || || | || || || || || |||||| ||||||||||||
gtgcgtgcagttgctctccactcttgtgaagttagggagtaaatctttttctttttactcaacattacacgtgtaacctgaactttttactgttatgaatgaagactattctgcaaattttgtttttcatgcctctgttagtgcctttggctgactttgtctgcggtttttctgcagAGATATGGGCCTCCTCCTTCTTATCCTCATCTTAAGATTCCTGGATTGAATGCACCAATACCAGAGGGGGCCTCTTTTGGCTATCATGCTGGAGGCTGGG
upper sequence: EFJ22460 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: PP1S505_13V6.1 (Physcomitrella patens), 3'ss of exon 9
-----------------------------------------------------------------------------------gtacgtagtca--ctacactacattctataaactctaaagcaaagcggactgattgcagAGATACGGGCCACCGCCTTCTTATCCTCAGCTCAGGATTCCTGGATTGAACGCACCTATTCCCGTCGGTGCGTCCTTCGGTTATCATCCTGGAGGCTGGG
|| ||| | || | | || || | || | | | | | |||||||||| ||||| || || |||||||| || || | ||||||||||||||| ||||| || || | ||||| || || || |||||| | ||||||||||
gtgcgtggctttgcttaaatttcttgtgctttaaggaagcatgtctgtttcttttgagtcgtcattatatctctaaccttgacgtttgtaatacgtctgaaatgcaaatcttagtttttattcct---ctgttttactgcagAGATATGGGCCTCCTCCATCTTATCCCCACCTTAAGATTCCTGGATTGAATGCACCAATACCAGAGGGTGCTTCTTTTGGCTATCATGCAGGAGGCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgtagtcactacactacattctataaactctaaagcaaagcggactgattgcagAGATACGGGCCACCGCCTTCTTATCCTCAGCTCAGGATTCCTGGATTGAACGCACCTATTCCCGTCGGTGCGTCCTTCGGTTATCATCCTGGAGGCTGGG
gactgat putative branch site (score: 3)
attctataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtagtcactacactacattctataaactctaaagcaaagcggactgattgcagAGATACGGGCCACCGCCTTCTTATCCTCAGCTCAGGATTCCTGGATTGAACGCACCTATTCCCGTCGGTGCGTCCTTCGGTTATCATCCTGGAGGCTGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG