Sequence
atgc intronic sequence ATGC exonic sequencegtactgggaaggaaaaacaaaatctctcaacagtttcttacactttccttggtttttctctagAGCCAAATTCCAGCGCAAACTACTTACAAGTATGGAGGGTGGTGGACTGTTTGGTGGACTGGATCATACAGCATGGTTCTTTCCAAGGTCGCGTTCTTTC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ36641 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ36641 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GRMZM2G347766_T01 (Zea mays), 3'ss of exon 2
------------------------------gtactgggaaggaaaaacaaaatctctcaacagtttcttacactttccttggttttt--ctctagAGCCAAATTCCAGCGCAAACTACTTACAAGTATGGAGGGTGGTGGACTGTTTGGTGGACTGGATCATACAGCATGGTTCTTTCCAAGGTCGCGTTCTTTC------
|| | | || | || | | || | | | | || ||| || ||| || | || | | | | | ||| || ||| | |||||| | ||||||||||| || |||||||||||||||||||||| | | |||||| |
gttggtttggcacaaattaaacaaagaataagtttgaacatgttgaaggatatatgtaaaaaaaaacaaatcttaaccggagttgttgtttcttctgcagAGAAGCACTGAAGA-TGCATACCGATACGGAAGCTGGTGGTCAGTTTGGTGGACAGGGACATACAGCATGGTTCTTTCCAAAGCGGGGTTCTTCCACAAGA
upper sequence: EFJ36641 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GLYMA16G32650.1 (Glycine max), 3'ss of exon 2
--------------------------gtactgggaaggaaaaacaaaatctctcaacagttt-cttacactttcc--ttggtttttctctagAGCCAAATTCCAGCGCAAACTAC---TTACAAGTATGGAGGGTGGTGGACTGTTTGGTGGACTGGATCATACAGCATGGTTCTTTCCAAGGTCGCGTTCTTTC------
||| | ||| | || | || ||||| | | | || ||| ||| ||| | | | | | | | || | ||||| ||||||||| |||||| ||||||||||||| || | || ||||||||||| || |||| || |||||||
tgatggtaactcaatggaactctgatttacccttattgaata-taacttttcatgttagtttgcatgttgtatctgattgatttctcttcatatactacagCAAAACAATGCTGCATATTACAGGTATGGAGGATGGTGGTCTGTTTGGTGGACAGGCACTTATAGCATGGTTCTCTCAAAGGCTGCATTCTTTCACAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaggaaaaacaaaatctctcaacagtttcttacactttccttggtttttctctagAGCCAAATTCCAGCGCAAACTACTTACAAGTATGGAGGGTGGTGGACTGTTTGGTGGACTGGATCATACAGCATGGTTCTTTCCAAGGTCGCGTTCTTTC
ttcttac putative branch site (score: 2)
tttcttacactttcct CT-rich tract
aaaacaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgggaaggaaaaacaaaatctctcaacagtttcttacactttccttggtttttctctagAGCCAAATTCCAGCGCAAACTACTTACAAGTATGGAGGGTGGTGGACTGTTTGGTGGACTGGATCATACAGCATGGTTCTTTCCAAGGTCGCGTTCTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA