Sequence
atgc intronic sequence ATGC exonic sequencegtaagactaaggtttactttacgccgtttcttgagaattatatcgcattcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ08413 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GLYMA10G37210.1 (Glycine max), 3'ss of exon 6
---------------------------------gtaagactaaggtttactttacgccgtttcttgagaattatatcgcattcttttg----cgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
|| | | | | || | || ||| || | | | |||||| | | | |||| |||||||| ||||||||||||||||| ||||| ||||||||||| || || || | |||
gtttgttttgtttggagcttgtggattaagtttgtggaatgtggagcccttgtttgctgattgctgatg-ttgaactgtctacttttgccatcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
upper sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GLYMA09G23150.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------gtaagact--aaggtttactttacgccgtttcttgagaattatatcgcattcttttgc---gtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
||| | || | | | ||| || | | | | | | | | ||| | | | ||||||||||||| |||||||||||||| || ||||| ||||||||||| || || || | |||
gtgctaatctaatccttgcattatttctttatgctttactgttgcatgtattttgcttgtggttatgagtcataaagtttgtagagtatttctgtaccgattgcttatagtgacctgtctatttttacccttttgtttagGCTATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
upper sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GLYMA20G30430.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------------------------------------------------------------------------------gtaagactaaggtttactt-tacgccgtttcttga----gaattatatcgcattcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
|||| | || |||| | || | || |||| ||| | | | | || | | | | |||| |||||||| ||||||||||||||||| || || ||||||||||| || || || | |||
gtgctaatctaatcctcacgttatttactttatagttactgcctgattctggaaaatagggatgatttagcccatattataaaaacagaagcctttggtactgagtgtgttttgtttagagatcgtggattaagtttttggggcacttgtttgctgattgttgatgttgaactgtct-actttttccatcctgtttagGCCATGGTTGCAAGAGGAGATCTTGGTGCAGAACTCCCTATTGAAGAGGTTCCACTTTTGCAG
upper sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: GLYMA16G28980.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------gta-agactaaggtttactt-tacgccgtttcttga----gaattatatcgcattcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
|| ||| | || || || | | | || ||| || | | | || || | | |||| |||||||| |||||||||||||| || ||||| ||||||||||| || || || | |||
gtgctaatctaatccttgcattatttctttatgctttagtgttgcatgtatattgcttgtggttatgaatgatagagattgtggactatttctgtactgattgctgatactgacctgtctatttttaccttttttgtttagGCAATGGTTGCCAGAGGAGATCTTGGCGCTGAGCTCCCTATTGAAGAGGTTCCACTTTTGCAG
upper sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------------------------------------------------------------------------------------------------gtaagac-taaggtttactttacgccgtttcttgaga--attatatcgcattcttttgcgtatc-cagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
|| | || |||| | | | | | || || | || ||| | | || | ||||| |||||||| ||||| ||||||||||| |||||||| |||||||| || ||| | ||||||
gtgattttttctgtcaaccttgtctattttgttcttctgacttttatatgtcttacagtatgtaatctccttatgtgagagcaactgattggatgttgttttgtgaaacaataaatatatcatatggttggaatggctcttgtgcatgtgattgtctaattagatttgtgtatgtcttacagGCAATGGTTGCAAGAGGTGATCTTGGTGCAGAGCTTCCAATTGAAGAAGTCCCCATTCTTCAG
upper sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------gtaagactaaggtttactttacgccgtttcttgagaattatatcgcat---tcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
|| | | | | || | | ||| | || || | | | || | | | | |||| |||||||||||||| |||||||||||||||||||||||||| || || || | || |||
tgcttcttaattcagatatcaaagaccttgcaactaggctttatgattgacctggacagttcatggatctaaatgctgaaaacattttgttcctctgtagGCAATGGTTGCTAGAGGGGATCTTGGTGCCGAGCTTCCTATTGAGGAGGTCCCATTGCTACAG
upper sequence: EFJ08413 (Selaginella moellendorffii), 3'ss of exon 5
lower sequence: PP1S205_25V6.1 (Physcomitrella patens), 3'ss of exon 5
------------------------------gtaagactaaggtttactttacgccgtttcttgagaattatatcgcattctt------ttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
| | | | | || | |||| |||| | | || || | ||||||||||||||| ||||||||||||| || ||||| || ||||| || |||||||| || |||
actttatgcatgtgtaaggtcatgttttgcacatcatcacgaaacgcattttggtacagtgtgagcgccatattaaaattttcaactgttttcctttcagGCTATGGTTGCTCGAGGAGATCTTGGAGCTGAGCTGCCAATTGAGGAAGTGCCCCTTCTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggtttactttacgccgtttcttgagaattatatcgcattcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
ttcttttgc CT-rich tract
agaattatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagactaaggtttactttacgccgtttcttgagaattatatcgcattcttttgcgtatccagGCTATGGTTGCTAGAGGAGATCTTGGTGCCGAGCTTCCTATTGAAGACGTGCCCCTCCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA