Sequence
atgc intronic sequence ATGC exonic sequencegtatccttcttgtacaatctactttcataatctacagtgcttgcatatgacattcctcatatataattcaatttttttttatgtttatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
Basic information
species | Glycine max |
transcript | GLYMA11G06650.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os06g08400.2 (Oryza sativa), 3'ss of exon 10
-----------gtatccttcttgtacaatctactttcataatctacagtgcttgcatatgacattcctcatatataattcaatttttttttatgtttatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
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tacaatatgcaaattatttgttgtgttatc-atttggttcttctgtattgggacctcatgaagtacattgtcggtattttaatgtgttattgttcttgcagATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCGTGGTTGCGACTTAAAG
upper sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G017845_T01 (Zea mays), 3'ss of exon 10
-----gtat-ccttcttgtacaatctactttcataatctacagtgcttgcatatg----acattcctcatatataattcaatttttttttatgtttatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
||| || | |||| | | || | | | | | | || ||| | || | |||| | || || | |||| | || || ||||| ||||| ||||| |||||||||||||||||||||||||| | |||||||||
ttctcctataccatgttgttttgtttggttctacattgttgaatcattaaggatgctcaaatttgtttgtatagacttttatggtgttttgttcttgcagATTGTTGACAGGTTCAATTTTAGCTCATGAGATGATGCATGCATGGTTGCGGCTTAAAG
upper sequence: GLYMA11G06650.2 (Glycine max), 3'ss of exon 6
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 3'ss of exon 10
gtatccttcttgtacaatctactttcataatctacagtgcttgcatatgacattcctcatatataattcaatttttttttatgtttata--gGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
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-----gtaaaagaaaaacacttctcaacacactcctaaaccaaatttttgtctttataagatatctaaaattttcgtattacacttgtacagTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGMapped 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|14011271|gb|BG726202.1|BG726202EST: ATCCGTTGTTGTGAAGTGACAGCCATTCTTGTTTTGTATGGCCTTCCTAG GTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAG
genomic: ATCCGTTGTTGTGAAGTGACAGCCATTCTTGTTTTGTATGGCCTTCCTAGgtatccttct ... atgtttatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgcttgcatatgacattcctcatatataattcaatttttttttatgtttatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
tttttttttatgttt CT-rich tract
attcctcatatataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatccttcttgtacaatctactttcataatctacagtgcttgcatatgacattcctcatatataattcaatttttttttatgtttatagGTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG