Sequence
atgc intronic sequence ATGC exonic sequenceggtctttattcatccttaaactgcatattttgttgtcataagaggagttattgaactggtgccgtatctctgttcacaGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCTGCAGAAGCAAGGGACATGTGTGAAAAACTTATGAAACGTTTGCATGGA
Basic information
species | Glycine max |
transcript | GLYMA18G50960.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G50960.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G116196_T01 (Zea mays), 3'ss of exon 3
----------------------ggtctttattcatcctta-aactgcatattttgt-tgtcataagaggagttattgaactggtgccgtatctctgttcacaGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCTGCAGAAGCAAGGGACATGTGTGAAAAACTTATGAAACGTTTGCATGGA-
| | | || | | ||| || || | | || | | | | | | | | || | | ||||||| ||||| ||||| |||||||| || |||||||| | ||||||||||||||||| | | | || | || || || |||| ||| ||||
cacttggtgcactaacatattgcattatgtcttatgcacagaacctcaaataaagcacatgatgctgaggataactta-ttaat--cacattttgcctttcagAAAGAGCATGTACAACAGTTTTTGGCAACAGAAGATGCTTTGAACAAAGCTGCAGAAGCTAAAGCACTAAGTCAGAAGCTATTGCAACGCTTGTATGGCA
upper sequence: GLYMA18G50960.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G38880.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------------------------------------------------------------------------------------ggtctttattcatccttaaactgcatattttgttgtcataagaggagttat-tgaactggtgcc-gtatctctgttcacaGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCTGCAGAAGCAAGGGACATGTGTGAAAAACTTATGAAACGTTTGCATGGA-
|| ||| | || || |||| || | ||| ||| |||| | |||| || || || || |||||||| |||||||||||||||||||||||||||||||||||||||||||| || ||||| | || | || | || |||| || ||||||||||||
gttgctttctatgtctagttttgctggtttcttcttgttaatttgaagatatggagaaaggagggttaagcttcaggcaaatgtttaattcagaaagatatgttttggtcttctagtgctgtatttgtatatg-ttgcactgtatggctatatgtttaaagtctgtttatcttaactttcacctgtgctactttttccagAAAGCCCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCAGCTGAAGCTCGTGATTTATGCCACAAGTTTATTAACCGTTTGCATGGAA
upper sequence: GLYMA18G50960.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0083g00990.t01 (Vitis vinifera), 3'ss of exon 3
-------------ggtctttattcatccttaa-actgcatattttgttgt-cataagaggagttattgaactggtgccgtatctctgttcac------aGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCTGCAGAAGCAAGGGACATGTGTGAAAAACTTATGAAACGTTTGCATGGA-
| || | || ||| | || | | | | | | |||||| || || || | | | ||||||| ||||||| |||||||| |||||| | ||||||||||||||||| || ||||| |||||||| || | ||||| |||| ||||| |||||| | || |||
attttgtggcacattttgctacttatgtttattgcattctactcagatttatctctgtggagttgtttaattgatatcaagccaatgttcactcctgcagAAAGCACATGTTCAGCAATTTGTAGCTACTGAAGATGCACTCAATAAAGCAGCAGAAGCTAGAAATTTGTGTCAAAAGCTTATAAAACGTCTACAAGGAA
upper sequence: GLYMA18G50960.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S189_50V6.2 (Physcomitrella patens), 3'ss of exon 3
-----------------ggtctttattcatcct-taaactgcatattttgttgtcataagaggagttattgaactggtgccgtatctctgtt----cacaGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCTGCAGAAGCAAGGGACATGTGTGAAAAACTTATGAAACGTTTGCATGGA-
|| | | | | || | |||| | | ||| || ||| | || | | ||| || ||||||||||||||||| |||||| |||| || |||||||| | || | | || |||| | ||| | |||| || | || | | |||
acctcgaaccgcatgagggatcgggtgtgttgtgtccacagtgggttttttcg-cattagtcttgtttgttttctaacgttatttctactttattttgcagAAAGCTCATGTTCAGCAATTTATGGCCACCGAAGATGCCTTGAATCAGGTGGCGCAAGCCAAAAGAATGACCAATGAACTCATTAGGCGGGTACGTGGTAMapped 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|22522696|gb|BU081507.1|BU081507EST: GTCAAAATCAGCTTCTTGATAGACA GAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGC
genomic: GTCAAAATCAGCTTCTTGATAGACAggtctttatt ... tctgttcacaGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catattttgttgtcataagaggagttattgaactggtgccgtatctctgttcacaGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCTGCAGAAGCAAGGGACATGTGTGAAAAACTTATGAAACGTTTGCATGGA
tctctgttc CT-rich tract
ttattgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtctttattcatccttaaactgcatattttgttgtcataagaggagttattgaactggtgccgtatctctgttcacaGAAAGCTCATGTTCAACAATTTTTGGCTACTGAAGATGCACTAAACAAAGCTGCAGAAGCAAGGGACATGTGTGAAAAACTTATGAAACGTTTGCATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA