Sequence
atgc intronic sequence ATGC exonic sequencegtgagcttagattcttggaacttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgatctcacagGCGGACGAGAGAAGGCTCCAGCCGCGTTTTGTCGCAAGGCCTTGACTTCCACCGACAAATTCGAGATGTGGGGCGATGGTATGCAGACGCGATCCTTCAC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ37016 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ37016 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S98_250V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------gtgagctta-gattcttggaacttcctttttcttctcttgctcgaagctt-----agagtgtgatgggtga--------ctgacaaatcgatct-cacagGCGGACGAGAGAAGGCTCCAGCCGCGTTTTGTCGCAAGGCCTTGACTTCCACCGACAAATTCGAGATGTGGGGCGATGGTATGCAGACGCGATCCTTCAC
|| || | | | || ||||| |||| || | |||||| | || | ||| ||| | || ||| | |||| ||||| ||||| || ||||| || || || || |||||||| || | || || | |||||||||||||||||||| | ||| || |||||||||||
gtaagcaaacagtccatcgaaattctccaaatcacctcactgacattgtgttcacatttgcatttgcggcttcttttcttttcttttctttcttgtgttttaagcttccctataggcctgttcattgaagccaagtatgagatttccttctgctcagGGGGACGCGAGAAAGCGCCAGCTGCCTTCTGCCGAAAGGCCTTAACAGCTACGGAGTACTTCGAGATGTGGGGCGATGGCAAGCAAACCCGATCCTTCAC
upper sequence: EFJ37016 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S237_14V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------gtgagcttag-attcttggaacttcctttttcttctcttgctcgaagcttagagtgtgatgggtgac---tgacaaatcgatct-cacagGCGGACGAGAGAAGGCTCCAGCCGCGTTTTGTCGCAAGGCCTTGACTTCCACCGACAAATTCGAGATGTGGGGCGATGGTATGCAGACGCGATCCTTCAC
|| ||| | | || | | | | | || |||| | || ||| || || || || || | || ||||| || || |||||||| || ||||| || || | ||||||||||| ||||||| | |||||||||||||||||||| | ||| || || ||||||||
gtaagtacaggagagattcgcccatcattattcacttttttaatctctttaaacttatctcaaatcgaagtatcattaatgtagtcagatgtacttgtgttttgccttgattctttctc-gagggttctgagtaaccattgttgagcttgcctgtacagGTGGGCGTGAGAAGGCACCCGCCGCCTTCTGCAGAAAGGCCTTGACAGCCACCGAGCATTTCGAGATGTGGGGCGATGGCAAGCAAACTCGCTCCTTCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgatctcacagGCGGACGAGAGAAGGCTCCAGCCGCGTTTTGTCGCAAGGCCTTGACTTCCACCGACAAATTCGAGATGTGGGGCGATGGTATGCAGACGCGATCCTTCAC
gactgac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagcttagattcttggaacttcctttttcttctcttgctcgaagcttagagtgtgatgggtgactgacaaatcgatctcacagGCGGACGAGAGAAGGCTCCAGCCGCGTTTTGTCGCAAGGCCTTGACTTCCACCGACAAATTCGAGATGTGGGGCGATGGTATGCAGACGCGATCCTTCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG