Sequence
atgc intronic sequence ATGC exonic sequencegtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
Basic information
species | Glycine max |
transcript | GLYMA15G01570.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G01570.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g54624.1 (Oryza sativa), 3'ss of exon 3
gtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgc-agGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
| || | | ||||| | || | || || || |||| | | ||| || | ||| |||||||||||||| || ||||||||||| ||||| || ||||| ||||| || || || ||||||| || || |||||||| || || || || ||||||
----gtaaatacaaatattttttgt--gtggataagatgctcccttga-tctt-----gttgctgacttttttccctgccagGTTATGTATTGTGTTCCTTACCTTTAGTTGTATTGGGTATGCCATGCCTTTCATCCTCTGTGCAATGATATGCTGCTGCCTGCCCTGCATCATATCTGTT
upper sequence: GLYMA15G01570.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G80400.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcat----ttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
|||| | | | | ||| || |||| | ||| || | ||| |||| ||| ||||||||||| || | || ||||| || || || || ||||||||||||||||| ||||| |||||||| || ||||| || | ||||| |||| || |||
gtacacgccttcgact--------tcatccgctattatgtcccaatgaggaactgaa-attctaacactcatgtttttcttgcagGTTATGCATAGCGTTCCTTACTTTCAGTTGCATTGGATATGCAATGCCATTCATACTATGTGCAACCATATGTTGTTGTTTGCCTTGCTTAATCTCGGTT
upper sequence: GLYMA15G01570.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g05120.t01 (Vitis vinifera), 3'ss of exon 3
---gtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgg-gcttcat----ttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
|| ||||| | ||| | | || | | |||| | || | | | || | | || | | || | ||| ||||||||||| || || || || |||||||||||||| || ||||| |||||||| ||||| |||||||| || ||||||||| | |||||||||||||| ||
gtaatagttgtagtta--tgtatatagtccatttctattagaattccaccccttttgagccactcaagtgtctcttgcccttcctgcagGTTATGCATAGTGTTCCTCACCTTTAGCTGTATTGGCTATGCTATGCCATTCATACTATGTGCAACAATCTGTTGCTGCTTGCCTTGTATAATTTCAATT
upper sequence: GLYMA15G01570.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S74_109V6.1 (Physcomitrella patens), 3'ss of exon 3
---------------------------------------------------------------------gtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
| | || | || |||| | ||| | || | | | || | ||| |||||||||| || || || ||||| || ||||| ||||||||||| ||||| ||||| ||||| || |||||||| |||||| | || || |||||| | |
gtaggtgacgcagtgtggtgttgtgggaaggttggttggttgtggcggtggcctgtgaattgtggtgtgggtcggagatggtagtgaagttgcaaaggttgtggggagaagaatggacagtaagagggttgtgagtggggttttg-gcagGTTATGCATCGTGTTGCTTACGTTCAGCTGCATCGGATATGCGATGCCTTTTATTCTTTGCGCCACTATTTGCTGCTGCTTGCCGTGCATAATTGCACTG
upper sequence: GLYMA15G01570.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ27808 (Selaginella moellendorffii), 3'ss of exon 2
gtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
| | ||| || | | | ||| | | | | | | || |||||||| ||||||||||| ||||| |||||||| || ||||| || ||||| ||||| || || || ||||| ||||||||| | || || ||||| | |
---------------------gtatggagacacattgcgctctgtttgtgcctcat-catttttgtttcctgtttctgcagGTTGTGTATTGTTTTCCTTACTTTTAGCTGCATTGGATACGCCATGCCCTTTATTCTGTGCGCGACTATATGTTGCTGCTTGCCGTGCATAATCGCACTG
upper sequence: GLYMA15G01570.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ36853 (Selaginella moellendorffii), 3'ss of exon 2
gtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
|| | || || ||| ||| || | | | | | | | || ||||||| ||||||||||| ||||| |||||||| || ||||| || ||||| ||||| || || || ||||| ||||||||| | || || ||||| | |
----------------gtatggagacacattgcgctttgctt------gtgcctcatcatttttgtttcctgtttcggcagGTTGTGTATTGTTTTCCTTACTTTTAGCTGCATTGGATACGCCATGCCCTTTATTCTGTGCGCGACTATATGTTGCTGCTTGCCGTGCATAATCGCACTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|51335723|gb|CO979589.1|CO979589EST: ACAATTGTATAG GTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATT
genomic: ACAATTGTATAGgtacttgtat ... tttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
cttcatttc CT-rich tract
tattttacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATTTATACTTTGTGCAACTATTTGTTGCTGCCTACCTTGTATAATTTCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC