Sequence
atgc intronic sequence ATGC exonic sequencegttgtatgtttttgttcattgatctgctgtctctttaaattatctcctttcgcagGCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ15224 |
intron # | 24 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ15224 (Selaginella moellendorffii), 3'ss of exon 24
lower sequence: GLYMA06G16110.1 (Glycine max), 3'ss of exon 25
----------------------gttgtatgtttttgttcattgatctgctgtctctttaaattatctcctttcg---cagGCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAG
||| | ||||| |||| | | | ||| || | || | | |||||||||||| | || |||||||| |||||||| | || || ||||| ||||| |||||||| |||||||| || ||||| | || |||
gtaatacatgtccccctctttttttgaagttttttaaacatttgtttagattttctctagactaacgtgtaagaaatcagGCATATGAGAGATCAGAGGATCCTATCTATGTGCTAGAGAACAACATACCCATAGATCCTCATTACTATCTTGAGAATCAAATTAGCAAG
upper sequence: EFJ15224 (Selaginella moellendorffii), 3'ss of exon 24
lower sequence: PP1S54_271V6.1 (Physcomitrella patens), 3'ss of exon 25
------------------------------------------------------------------------------------------------gttgtatgtttttgttcattgatctgctgtctc----tttaaat---tatctcctttcgcagGCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAG
| | | |||| || | || || | |||| | | || | | | |||| |||||| ||| || |||||||||||||| ||||| ||||| ||||| || ||||| || ||||| ||||||| ||||||||||||
gtatcacatgattcgtctggattattgtggagttatttgaagatgctggtgtcctactgactacgtccaaatatgctaattgctgttgtcataagagaaatgaagataagttctgcgagattctaactagagactaaaatcaatgtgtcgtcttgtagGCGTATGAGAAGTCAGAAGATCCAATCTATGTTTTGGAGAATAATATTCCGATTGATCCACAATACTACTTGGAAAACCAGCTGAGTAAG
upper sequence: EFJ15224 (Selaginella moellendorffii), 3'ss of exon 24
lower sequence: PP1S14_182V6.1 (Physcomitrella patens), 3'ss of exon 25
------------------------------------------------------------------------------------------------------------------------gttgtatgtttttgttcattgatctgct-gtctctttaaattatctcctttcgcagGCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAG
||||| | | || | || | | || || | || | ||| ||||||||| ||| ||||| ||||| || ||||| |||| || |||||||| |||||||| |||||||| || |||||||||||||| |||
gtaccattgtaatttacctgctgcatttgtggaagattcacgtgaagatgctagccttcattggtgtattgtaacaaatatagtgtctatctcctgaaggagagaggaacgtgtttttatgttgtgaatctctgactagaatcctaccagccttcttgatttctactgttttgcagGCATACGAGAAATCTGAAGATCCTATATATGTACTGGAGAACAACATTCCAATCGATCCACAGTACTACCTAGAAAATCAGCTGAGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgtatgtttttgttcattgatctgctgtctctttaaattatctcctttcgcagGCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAG
cattgat putative branch site (score: 4)
ttatctcctttcgc putative PPT
tctctttaaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtatgtttttgttcattgatctgctgtctctttaaattatctcctttcgcagGCATATGAGCGGTCTGAGGATCCAATCTATGTCTTGGAAAATAACATTCCCATCGATCCTCAGTACTATCTGGAAAATCAGCTGAGTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA