Sequence
atgc intronic sequence ATGC exonic sequencegtatgattgactttctatgagctgtctcttgttgtgtaattaattatggtttttcttttggcacaggacaatttaatttttaaaatgacagcttatattttatatatgatgtgaacatgtgccttacttgatatcggttgcacttctgcgtgtacaatttctgctctttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
Basic information
species | Glycine max |
transcript | GLYMA03G01100.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01100.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g57710.1 (Oryza sativa), 3'ss of exon 4
gtatgattgactttctatgagctgtctcttgttgtgtaattaattatggtttttcttttggcacaggacaatttaatttttaaaatgacagcttatattttatatatgatgtgaacatgtgccttacttgatatcggttgcacttctgcgtgtacaatttctgctctttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
| | ||| | ||| || || ||| || || | || | || ||| ||| | ||| |||| | | |||| | | || || | || | | | |||| | | | || | |||| | | ||| || | ||| ||||||||||| ||||| |||||||| ||| || ||||||||||||||||||||||||||||||||| | ||| || || ||
-----gtaaatcttcaa--agccttccaccacc-tgaaatc--ttgtgccatgtcctatg---taggttttttttttgtttcaaat-------tttgttttgtcttggaagttgttttttggc---catagtatctaacatatgtat-cgaatttgttttcaatttctcagTTTCGGTGCAGCTATACTCTCCAGACCGTCCTCTGGTTGATACTGCAGAGGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTCTTTGTGCATCATACTG
upper sequence: GLYMA03G01100.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G096343_T01 (Zea mays), 3'ss of exon 4
gtatgattgactttctatgagctgtctcttgtt-gtgtaattaattatggtttttcttttggcacaggacaatttaatttttaaaatgacagcttatattttatatatgatgtgaacatgtgccttacttgatatcggttgcacttctgcgtgtacaatttctgctct--ttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
| | ||| | | | || || || || | ||| | ||| | || ||| | || | ||||||| || || | | | |||| || | | || | | || || | | | ||| | | | || | ||||||||| ||||| |||||||| ||| || |||||| ||||||||||||| |||||||||||| | ||| || || ||
----------------gtaaattgtttgtcttcagttccatgctttgtgtcatctctgtgaatacatgggtgcctatgttt--gtttaacttttcatatttttggtaacttgagtattggaaacttattttagtgcaaggtagctaacaggctaagttttcctttttttgtcagTCTTAGTGGAGCTGTACTCTCCAGATCGTCCTCTGGTTGATACTGCAGAGGTGTTTCTGTGGCTTATGGCAGTTGGTACCATTCTTTGTGCATCATACTG
upper sequence: GLYMA03G01100.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgattgactttctatgagctgtctcttgttgtgtaattaattatggtttttcttttggcacaggacaatttaatttttaaaatgacagcttatattttatatatgatgtga-acatgtgccttacttgatatcggttgcacttctgcgtgtacaatttctgctctttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
|| | | || ||| | | | | || ||| || ||| || | || ||| |||| |||| || | || | | || | | | | ||| | | || || || | || || ||| | | ||| | ||||| || |||||| |||||||| || || || ||| | |||||||||||||| |||||||||||| ||||||||||||
-----------------------gtaattcttcgtataaatca-----aactgtacttccgcatag----attgctcttcttgtattttagc--atatcttat-catagtttggcatctctgtgctctctctttttctttgagttg--gtgttgactatatttgttc---agTTACTCTGCAGCTCTACTCGCCGAAACGTCCAGCAGTTGATGTGGCTGAGGTCTTTCTTTGGCTTATGGCTGTCGGTACCATTTTATGTGCTTCTTATTG
upper sequence: GLYMA03G01100.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 4
gtatgattgactttctatgagctgtctctt--gttgtgtaattaattatggtttttcttttggcacaggacaatttaatttttaaaatgacagcttatattttatatatgatgtgaacatgtgccttacttgatatcggttgcacttctgcgtgtacaatttc-tgctctttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
||||| || | || | || | ||| || || || | ||| ||| || | || || || |||| | | | || || || | ||| | | | | | || || ||| | | || || | | |||| ||| | | ||| ||||||||||| ||||||| | ||||| | || || |||||||||||||| ||||| ||||||||||||||| ||| ||||| ||
gtatgctttcccttattctgcatgctttcaaggtttcaaaaatatttcaaatattttctttaattcaccattgctttgttgttcaaatagtttcct-tgattggtaaat-acctgatctagcatgcaaactattttctgt-aaactgttaattatatggttccctattcttcagTTGCTGTTCAGCTATACTCTCCAAAGCGTCCACTTGTTGACATAGCTGAGGTGTTTTTGTGGCTCATGGCCGTTGGTACCATTTTATCTGCATCTTACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgccttacttgatatcggttgcacttctgcgtgtacaatttctgctctttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
tttctgctcttt CT-rich tract
tacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgattgactttctatgagctgtctcttgttgtgtaattaattatggtttttcttttggcacaggacaatttaatttttaaaatgacagcttatattttatatatgatgtgaacatgtgccttacttgatatcggttgcacttctgcgtgtacaatttctgctctttagTGTCAATCCAGTTATACTCTCCACTGCGTCCATTGGTTGATGTTGCGGAAGTGTTTTTGTGGCTTATGGCTGTTGGTACCATTTTAATTGCTTCTTATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT