Sequence
atgc intronic sequence ATGC exonic sequence...atgtgtgtgcttacttaggagcatggctttctgaaacatgctagtttgatgaaagagttagttaccggtatattaacattgaatgttgaaatttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG
Basic information
species | Glycine max |
transcript | GLYMA10G38770.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 16
---------------------------------------------------------------------------------------------atgtg-tgtgcttacttaggagcatggctttctgaaacatgctagtt--tgatgaaagagt-tagttaccggtatattaacattg--aatgttgaaatttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG
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gtatgctactgcaaatactgtttataaactaacgtttgtagagtacagtagttagatatttgtggaatcaatttaatcctatgtatcttcaacaagtactgaacctagtgtttttgttcgctatttgaagtatgaaagttgctgttataggcttctatttgtatatctgctaatagtatcggtactgcttctcttctagGGATGGTGTCAGTGAAGGCCAATTCTACCAAGTTCTCCTCTATGAGTTGGATGCTATCCGCAAG
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 17
lower sequence: AT5G43810.2 (Arabidopsis thaliana), 3'ss of exon 16
atgtgtgtgcttacttaggagcatggctttctgaaacatgctagtttga-tgaaagagttagtt-----accggtatattaacattgaatgttgaa--atttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG
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--------------------gtaagtctctctt-----tgctcatttaagtaaaagaattatatctaaaacccaca-attagttctcatggttgttttattcgcgcagTGATGGAGTAAGCGAAGGGCAATTCTATCAAGTTTTACTCTATGAGTTGGATGCAATTCGAAAG
upper sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 14
------atgtgtgtgcttacttaggagcatggctttctgaaacatgctagtttgatgaaagagttagttaccggtatattaacattgaatgttgaaatttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG
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ggatctctatgtgcagtgtcctcacaa-attactgcatgtgcatcattaagctcttttcatagtta-caattcttatcctga--tcagatatt--aatttgagcagGGATGGTGTTAGTGAAGGGCAATTTTATCAAGTGCTACTTTATGAACTAGATGCAATCCGGAAAMapped 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|19937592|gb|BQ081352.1|BQ081352EST: TCCTTCAGAAAGGCAACAGGACAAAAGCCACTACGAATTATATTTTACAG GGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGA
genomic: TCCTTCAGAAAGGCAACAGGACAAAAGCCACTACGAATTATATTTTACAGgtcattatgt ... atttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatgaaagagttagttaccggtatattaacattgaatgttgaaatttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG
tattaac putative branch site (score: 1)
tatattaacattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtgtgtgcttacttaggagcatggctttctgaaacatgctagtttgatgaaagagttagttaccggtatattaacattgaatgttgaaatttgaacagGGATGGTGTAAGTGAAGGACAATTTTACCAAGTTTTACTTTATGAGTTAGATGCAATTCGGAAG
- gtgtgtg
- - - - - - - - - - gcatggc
- - - - - - - - - - - - - - - - - -acatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaatgt