Sequence
atgc intronic sequence ATGC exonic sequencegtaataagttgattataacttcctttcggcctctcaactaggagctttgcagTTGACTATCGAGGAAAAAGTTATTGAACGGGCTTACAAAAAGCTTGCCTTGGATGCGTTAGTCATACAACAAGGTCGTTTGGCGGAAGAAAAGAGTATGG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ15818 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 12
------------------------------------------------gtaataagttgattataacttcctttcggcctctcaactaggagctttgcagTTGACTATCGAGGAAAAAGTTATTGAACGGGCTTACAAAAAGCTTGCCTTGGATGCGTTAGTCATACAACAAGGTCGTTTGGCGGAAGAAAAGAGTATGG
| |||| || | || | | | | | | | || |||||| || || |||||||| || ||||| | ||||| || ||||||||| ||||||| || ||||||||||| ||||| ||||| || | ||
gttttatttaatttattttaagatttaaaaacactggtttagcactaagcaatatcttctatttatttatataacagaatatgcttcatattctatgcagTATACAATTGAGGAAAAGGTGATTGAGAGAGCTTATAAGAAGCTTGCCCTGGATGCTTTGGTCATACAACAGGGTCGATTGGCAGAGCAGAAAG------
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 12
----------------------------------------------gtaataagttgattataacttcctttcg-gcctctcaac-taggagctttgcagTTGACTATCGAGGAAAAAGTTATTGAACGGGCTTACAAAAAGCTTGCCTTGGATGCGTTAGTCATACAACAAGGTCGTTTGGCGGAAGAAAAGAGTATGG
| |||| ||| | || | | ||| | | | | | | |||| || || ||||||||||| |||||| ||||||||||||||||||| | ||||| | || || || ||||| || || || ||| | ||||
caagatgtgtttgacactggtttggaagtcattttgaagtgttgtgcttcctagttatttactatttgtgtcaatgtctcatatcatggtaattacacagTATACGATTGAGGAAAAAGTCATTGAAAGGGCTTACAAAAAGCTTGCTCTTGATGCTCTGGTGATTCAGCAAGGGCGATTAGCTGAACAGAAGA------
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 12
------------------------------------------------gtaataagttgattataacttcctttcggcctctcaac-taggagctttgcagTTGACTATCGAGGAAAAAGTTATTGAACGGGCTTACAAAAAGCTTGCCTTGGATGCGTTAGTCATACAACAAGGTCGTTTGGCGGAAGAAAAGAGTATGG
| |||| ||| | || | || ||||| | | | | | |||| || || ||||||||||| |||||| |||||||||| |||||||| | ||||| | || || || ||||| || || || ||| | ||||
tcaagatgtgtttgactctggtttggcagtcattttgaagtgttggtgctttctagttatttactatttg-tgtcaatatctcatcatggtaattacacagTATACGATTGAGGAAAAAGTCATTGAAAGGGCTTACAAGAAGCTTGCACTTGATGCTCTGGTGATTCAGCAAGGGCGATTAGCTGAACAGAAGA------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaataagttgattataacttcctttcggcctctcaactaggagctttgcagTTGACTATCGAGGAAAAAGTTATTGAACGGGCTTACAAAAAGCTTGCCTTGGATGCGTTAGTCATACAACAAGGTCGTTTGGCGGAAGAAAAGAGTATGG
ttataac putative branch site (score: 2)
aataagttgattataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataagttgattataacttcctttcggcctctcaactaggagctttgcagTTGACTATCGAGGAAAAAGTTATTGAACGGGCTTACAAAAAGCTTGCCTTGGATGCGTTAGTCATACAACAAGGTCGTTTGGCGGAAGAAAAGAGTATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA