Sequence
atgc intronic sequence ATGC exonic sequencegtgcttactattcagttcacttgcagTTCTTCTTATACATGTATTATCGTTTCAGATTGGTTTGATGGACTCGAAACATTTATGCGATACATATGTCACAAAAGCTGGCTTGGAGGCTGGTTACTG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ24167 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ24167 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: PP1S72_100V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------------------------------------gtgcttactattcagttcacttgcagTTCTTCTTATACATGTATTATC-GTTT-CAGATTGGTTTGATGGACTCGAAACATTTATGCGATACATATGTCACAAAAGCTGGCTTGGAGGCTGGTTACTG-----------------------------
| | || ||||| | | || | || | ||| || | |||||||||||||||| ||||| ||||||||| | || |||||||| | || ||||||||||| ||||| |
tctgtgtgtgtctgtgtttgaaattaaaaattaaaaaacaaaaaaacaaaaaaacattagagtacttg--gctaacattgaagtggtttcatctgtgtgcagATTGGTTTGATGGGCTCGATACATTTATGAGGTATATATGTCATAGGAGTTGGCTTGGAGGTTGGTTGTTACCTCAGCAGAAAAGCTACTTTGCATTGCG
upper sequence: EFJ24167 (Selaginella moellendorffii), 3'ss of exon 8
lower sequence: PP1S147_29V6.1 (Physcomitrella patens), 3'ss of exon 8
------------------------------------------------------------------------------------------gtgcttactattcagttcacttgcagTTCTTCTTATACATGTATTATC--GTTTCAGATTGGTTTGATGGACTCGAAACATTTATGCGATACATATGTCACAAAAGCTGGCTTGGAGGCTGGTTACTG-----------------------------
|| | || || | || |||| | || | | |||| | | ||||||||||||||||||| || ||||| ||||||||||| || || | ||| ||| | ||||| ||||| ||
gtattccaaaaatttatcaataatacagtgatatttatatcattttgaaagttgatgcttttgaacccacttgttcacatgaatagggaaagattttatgttt-gtgaaatta-agttaataccattgttttcttattaggatgcagATTGGTTTGATGGACTTGATACATTCATGCGATACATTTGCCATAGAAGTTGGTTGGGAGGATGGTTGTTGCCCCAATCAAAAAGCTATTTTGCTTTGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgcttactattcagttcacttgcagTTCTTCTTATACATGTATTATCGTTTCAGATTGGTTTGATGGACTCGAAACATTTATGCGATACATATGTCACAAAAGCTGGCTTGGAGGCTGGTTACTG
tgcttac putative branch site (score: 2)
ttcactt putative PPT
ttactatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcttactattcagttcacttgcagTTCTTCTTATACATGTATTATCGTTTCAGATTGGTTTGATGGACTCGAAACATTTATGCGATACATATGTCACAAAAGCTGGCTTGGAGGCTGGTTACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG