Sequence
atgc intronic sequence ATGC exonic sequencegttagcctttctttcaaggaaaaaaccaaaaacaatcgtttctttctcaaactttttcgttttttttttttttgttttacagGTGCCTGGGATGCTGTGGTGACTTGCTTCTTCATCGACACGGCGCACAACGTCGTGGACTACATAGAAGTGATTCACAAAGTTCTCAAGCCCGGTGGT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ24256 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ24256 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: EDP04349 (Chlamydomonas reinhardtii), 3'ss of exon 3
-------------------------------gt-tagcctttctttcaagga-aaaaaccaaaaacaatcgtttctttctcaaactttttcgttttttt------tttttttgttttac-agGTGCCTGGGATGCT-------GTGGTGACTTGCTTCTTCATCGACACGGCGCACAACGTCGTGGACTACATAGAAGTGATTCACAAAGTTCTCAAGCCCGGTGGT
|| | | || ||| | | ||| | | || || | | || | || | | | | || | | ||| ||| || | ||||| || ||||||||| ||||||||||||||||||| || |||| | || || |
tatgcaccaaggcgcgtcccccgcaccgcctgtgcacacaaactgctaagcatgcacaccggccgccaccgcccctgccccgc-ctcctccgcctccgcagGAGGTGTACTCGTCGCCCGACATGCGCGGGCTGTTCGACTGCGTGGTCACCTGCTTCTTCCTCGACACGGCGCACAACGTGCTGCGCTACCTGGAGGTCA--------------------------
upper sequence: EFJ24256 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: PP1S249_29V6.1 (Physcomitrella patens), 3'ss of exon 13
------------------gttagcctttctttcaaggaaaaaa---ccaaaaacaatcgtttctttctcaaactttttcgtttt--------------------------------ttttttttttgttttacagGTGCCTGGGATGCTGTGGTGACTTGCTTCTTCATCGACACGGCGCACAACGTCGTGGACTACATAGAAGTGATTCACAAAGTTCTCAAGCCCGGTGGT
|| || | | || |||||| | || | || || ||| | ||| | | | | | | | | | | |||| || ||||||||||| || ||||| |||||||| ||||| ||||||||| | || || ||| | ||||| || | ||||||||| |||||
gcatggatttatcagattcttgctctggcagttaaaaaaaaaagttgctaatataaatacactattttcagaatttcttgctgtgagctggtgtaaaaaaacagtcgcgtaatatatataatactgatgtggcagGGGCATGGGATGCTGTTGTAACTTGTTTCTTCATTGACACTGCGCACAACATTGTAGAATACCTGGAAGTAATATCACGTGCTCTCAAGCCTGGTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaacaatcgtttctttctcaaactttttcgttttttttttttttgttttacagGTGCCTGGGATGCTGTGGTGACTTGCTTCTTCATCGACACGGCGCACAACGTCGTGGACTACATAGAAGTGATTCACAAAGTTCTCAAGCCCGGTGGT
tttctttctcaaactt CT-rich tract
aaactttttcgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagcctttctttcaaggaaaaaaccaaaaacaatcgtttctttctcaaactttttcgttttttttttttttgttttacagGTGCCTGGGATGCTGTGGTGACTTGCTTCTTCATCGACACGGCGCACAACGTCGTGGACTACATAGAAGTGATTCACAAAGTTCTCAAGCCCGGTGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT