Sequence
atgc intronic sequence ATGC exonic sequencegtatggagcgtcgaatccatgcttgggtctcacaattctcttggattgattgctctgtagCCTCTTCTTCAAGCAAGAGATGGAATTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ25249 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ25249 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G007188_T01 (Zea mays), 3'ss of exon 1
--------------------------------gtatggagcgtcgaatcca---tgcttg---ggtctcacaattctct-tggattgattgc-tctgtagCCTCTTCTTCAAGCAAGAGATGGAATTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT
| || | | || || |||||| | | | || | | | || || || | |||| |||||||||||||||||||||||||| | ||| | |||| || ||||| ||||| || || || ||||| |||||||| |||
taacacttgtaaatggatgaactgatgtaatcttctgctcctttcgattcaaggtgcttgcctgcttgaataactatttctgctttttttacatctgcagCCTCTTCTTCAAGCAAGAGATGGAGCTTTCATTGGTAGGGCTCCAAAATGCTGGGAAAACATCACTTGTGAACTCCATTGCT
upper sequence: EFJ25249 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G081622_T01 (Zea mays), 3'ss of exon 1
----------------------------------------gtatggagcgtcgaatccatgcttgggtctcacaattctcttggattgattgc-tctgtagCCTCTTCTTCAAGCAAGAGATGGAATTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT
| | || || || || | | || | | | || || | |||| |||||||||||||||||||||||||| | || | ||||| || ||||| ||||| || ||||| ||||| ||||| || |||
gtgcacttgtaaatggatgaactgatataatctaccgttcatttcgattcaaaggaccttgtctgc-ttgaataactgtttgtacttttttacatctgcagCCTCTTCTTCAAGCAAGAGATGGAGCTTTCCTTGATAGGGCTCCAAAATGCTGGGAAAACGTCACTTGTGAACTCTATTGCT
upper sequence: EFJ25249 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA01G40210.2 (Glycine max), 3'ss of exon 1
-----------------------------------gtatggagc--gtcgaatccatgcttgggtctcacaattctcttggattg---attgctctgtagCCTCTTCTTCAAGCAAGAGATGGAATTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT
| |||| || || | | ||||| | || | | | ||| ||| || ||||| ||||||||||| || ||||| ||||| |||||||||| || || ||||| ||||| |||||||| || | |||
attgaattgtatatatgtttatgcctatatgcattatctggacttagttgatcactttcttggagcgcatgagcttactatgttgcaaatttgattgcagCCTTTTCTTCAAGCAGGAAATGGAGTTATCTCTAATAGGACTTCAGAATGCTGGGAAGACTTCCCTTGTAAATGTAGTTGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagcgtcgaatccatgcttgggtctcacaattctcttggattgattgctctgtagCCTCTTCTTCAAGCAAGAGATGGAATTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT
ttgctct CT-rich tract
attgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggagcgtcgaatccatgcttgggtctcacaattctcttggattgattgctctgtagCCTCTTCTTCAAGCAAGAGATGGAATTATCAGTAATAGGACTACAAAAGGCTGGCAAGACGTCCCTTGTCAACTCCATCGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA