Sequence
atgc intronic sequence ATGC exonic sequencegtggtgtggtttgtttttattctgtgctcttggtgatctagGCGGATGCAGCCCAGGTTCCAGTTCATTGTCATGAATCGCAGAAGCACAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ22541 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ22541 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GRMZM2G101596_T01 (Zea mays), 3'ss of exon 2
-----------------------------------------------------gtggtgtggtttgtttttattctgt-----gctcttggtgatc-tagGCGGATGCAGCCCAGGTTCCAGTTCATTGTCATGAATCGCAGAAGCACAG
|| || || ||| | | | | | | || ||| || ||||| |||||||||||||||||||||||||| | ||||
gttgtggacctgaagagcgacgaaattttagcagttcatgttttctggtcatgttgatgccattcactttcttccaacaaatagtttatatttattgcagGAATGCTCAACCCAGATTCCAGTTCATTGTCATGAATCGCAGGAATACAG
upper sequence: EFJ22541 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: GRMZM2G011173_T02 (Zea mays), 3'ss of exon 2
--------------------------------------gtggtgtggtt-tgtttttattctgtgctcttggtgatctagGCGGATGCAGCCCAGGTTCCAGTTCATTGTCATGAATCGCAGAAGCACAG
| ||| ||| | ||| | |||||| | ||||| | ||| ||||||||| |||||||||||||||||||| | | | ||| |
gtgagggtttgggttgggggttttgcttgcgctcgtatgcggtctggctctgtcctgattctgctcgattggt---ccagGAACTCGCAGCCCAGATTCCAGTTCATTGTCATGAACAGGCGCAACACTG
upper sequence: EFJ22541 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: Vv06s0080g00860.t01 (Vitis vinifera), 3'ss of exon 2
---------------------------------------gtggtgtggtttgtttttattctgtgctcttggtgatctagGCGGATGCAGCCCAGGTTCCAGTTCATTGTCATGAATCGCAGAAGCACAG
| | || || | | || || | | || | ||| | |||||| |||||||||||||||| |||||||| | | |||||
gtatttttttttcttcatgtttttattatataatttgaaattttatgaattttccattttatgaatttgttttgtttcagGAACACTCAGCCCCGGTTCCAGTTCATTGTGATGAATCGGCGCAACACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggtgtggtttgtttttattctgtgctcttggtgatctagGCGGATGCAGCCCAGGTTCCAGTTCATTGTCATGAATCGCAGAAGCACAG
tttgtttttattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtgtggtttgtttttattctgtgctcttggtgatctagGCGGATGCAGCCCAGGTTCCAGTTCATTGTCATGAATCGCAGAAGCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC