Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttggtctttgtatgttgacctgttttaatgttttgcatgttttgaatattccttttgcttattattgccttgcttttctaaccaaattgatgtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG
Basic information
species | Glycine max |
transcript | GLYMA05G32070.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 7
gtaagttttggtctttgtatgttgacctgttttaatgttttgcatgttttgaatattccttttgcttat-tattgccttgc-----ttttctaaccaaattgatgtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG
|| ||| || | | | ||| | | || | || ||| ||||| | ||| |||| || |||||||| |||||| |||||| ||||||||||| ||||||||| | ||||||||||||||||| || || ||||||| ||||
------------------------------------gtaagatgtgtgctgggtgtgcagtttattgaagtaatatctaaagaatatttgttaacctagc--atgcaatttcagGGCAAGGCAAAGAAAGTTGTTTCAGCACAGGCGCTCTGGTTTGACATTTTGAAGGCACAGATAGAAACTGGAACACCATATATGCTTTATAAG
upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 7
gtaagttttggtctttgtatgttgacctgttttaatgttttgcatgttttgaatattccttttgcttattattgccttgcttttctaaccaaattgatgtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG
||| | ||| || || | | ||| | | | | || | | || |||||| |||||| | | || | |||| || |||||||| ||||||| ||||||| ||||||||||| ||||||||| | || ||||| ||||| || ||||| ||||||| |||
----------------gtaagctgaaaagtg--aacactgtatttgtat-gtacgctttattgaaatgggaatg---tgctttactaaccttgctt-tctggattcagGGCAAGGCAAAGAAAGTTGTTCCTGCACAGACCCTCTGGTTTGACATTTTGAAGGCACAAATAGAGACTGGTACACCTTATATGCTTTACAAG
upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0031g01990.t01 (Vitis vinifera), 3'ss of exon 7
gtaagttttggtctttgtatgttgacctgttttaatgttttgcatgttttgaatattccttttgcttattattgccttgcttttctaaccaaattgatgtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG
| || || | || ||| || | | || ||| || | ||||| | | ||| ||| || | | || | || | ||||| || |||||||| ||||| |||||||||||||||||||||||| ||||||| |||||||||||||||||||| || || ||||| ||||||
-------gtaatcattctgattttgtttgtgtttctttgaaatgtgatttctatttgtgttttg-tcaaaattaacttctaatttcactc---tttttttgctcttagGGCAAGGCAAAGAAAGTTGTCCAGGCACAGAATCTCTGGTTTGAAGTTTTGAAATCCCAGATAGAAACTGGAACCCCCTATATGCTGTTTAAGMapped 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|208113890|gb|GD913853.1|GD913853EST: ATTGCTGGGATGAAGAATTTGAGAAATTGTACACTCAATATGAAAGAGAA GGAAAAGCAAAGAAGGTTGTTCAGGCACAAGAATCTCTGGT
genomic: ATTGCTGGGGTGAAGAATTTGAGAAATTGTACACTCAATATGAAAGAGAAgtaagttttg ... gtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACA-GAATCTCTGGT
EST:
gi|193322392|gb|FK288292.1|FK288292EST: ATTGCTGGGGTGAAGAATTTGAGAAATTGTACACTCAATATGAAAGAGAA GGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTG
genomic: ATTGCTGGGGTGAAGAATTTGAGAAATTGTACACTCAATATGAAAGAGAAgtaagttttg ... gtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattccttttgcttattattgccttgcttttctaaccaaattgatgtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG
ttttgcttattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttggtctttgtatgttgacctgttttaatgttttgcatgttttgaatattccttttgcttattattgccttgcttttctaaccaaattgatgtgtacatagGGAAAAGCAAAGAAGGTTGTTCAGGCACAGAATCTCTGGTTTGAAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG