Sequence
atgc intronic sequence ATGC exonic sequencegtgaatattatttctgattcctttggatttaaactttcgtggttttttttaaagtatatatcttcctgcatttggcttccccttcaatgtggttttcattttgtttttaccaaactacactcttatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCAAAGTCTGAAGCACAGTTAAAA
Basic information
species | Glycine max |
transcript | GLYMA05G34560.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G34560.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G008556_T01 (Zea mays), 3'ss of exon 7
--------gtgaa--tattatttctgattcctttggatttaaactttcgtggtttttttta-aagtatatatcttcctgcat---------ttggcttccccttcaatgtggttttcattttgtttttaccaaactacactct--------tatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCAAAGTCTGAAGCACAGTTAAAA
|| || || |||| | || || | || || | | | | || ||| || ||| | | | | || | | ||||| | | ||| | | | | ||| | || |||| ||||||||||||||||| ||||||||||| || || || || || ||| |||||||| || | ||
gttggatggttaaactagcattttctttaccaatgtacttttttttgtattcaactctgcacaaatatgcatattctttggtgaaacaaaatgtaccacctgctggacatggttcttttcttgagtatcatatgtgatactttcttgtttctacagGGGGAGATGCAACAACTTCGTGACAAGCTTGCCATTACAGAACGTACAGCACGATCTGAAGCTCAACTGAAG
upper sequence: GLYMA05G34560.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G01750.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgaatattatttctgattcctttggatttaaactttcgtggttttttttaa--agtatatatcttcctgcatttggcttccccttcaatgtg-gttttcattttgtttttaccaaactacactcttatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCAAAGTCTGAAGCACAGTTAAAA
||| || |||| ||| ||| ||| || | || | || || ||| | ||| | | | | ||| || ||| || | | | ||||||| ||||||||||| || ||||| ||||| ||| |||| || ||||||| |||||||| ||| ||||
------gttacttttgatat-tttatttttgggcttctgttactgcttcgagttgtgattcatattcacaggaaccattgtaacttgagtaagtgcattctttaaccattttcctgtttctttttggacagGGAGAAATGCAACAACTACGTGACAAACTTGCCATAGCTGATCGAGCTGCAAAATCTGAAGCTCAGCTAAAG
upper sequence: GLYMA05G34560.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 7
gtgaatattatttctgattcctttggatttaaactttcgtggttttttttaaagtatatatcttcctgcatttggcttcccct--tcaatgtggttttcat--tttgt---ttttaccaaactacactcttatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCAAAGTCTGAAGCACAGTTAAAA
|| |||| | | ||| | | | || ||| || | | | || |||| || | | | | || || || | ||| |||| || ||||| | |||||||| | ||| |||| || ||||| ||||| ||||||||||||||||||| || | |||||||| ||||||||||| || |||
gtaaatact--ctgaagttcttattgtttcaaaactt-gagctattatttactgtttctttttctttgatcatgactgtgtttggcttttgtagtttccacagtttgtaattgttaccaaaacctcttgttacagGGGGAAATGCAGCAACTCAGGGACAAGCTTGCTATAACGGAAAGAACTGCAAAATCTGAAGCACAATTGAAAMapped 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|208195803|gb|GD993524.1|GD993524EST: ACAAAGTGATGCCTGTGAAACAATGGCTTGAAGAACGACGATTTTTGCAG GGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCA
genomic: ACAAAGTGATGCCTGTGAAACAATGGCTTGAAGAACGACGATTTTTGCAGgtgaatatta ... actcttatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCA
EST:
gi|8283242|gb|BE020803.1|BE020803EST: ACAAAGTGATGCCTGTGAAACAATGGCTTGAAGAACGACGATTCTTGCAG GGAGAGATGCAGCAACTTCGGGACAAGCTTGCTATAACTGAGCGAACTGCA
genomic: ACAAAGTGATGCCTGTGAAACAATGGCTTGAAGAACGACGATTTTTGCAGgtgaatatta ... actcttatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcttccccttcaatgtggttttcattttgtttttaccaaactacactcttatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCAAAGTCTGAAGCACAGTTAAAA
cactctt CT-rich tract
ttttcattttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaatattatttctgattcctttggatttaaactttcgtggttttttttaaagtatatatcttcctgcatttggcttccccttcaatgtggttttcattttgtttttaccaaactacactcttatagGGAGAGATGCAACAACTTCGGGACAAGCTTGCTATAACTGAGCGCACTGCAAAGTCTGAAGCACAGTTAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC