Sequence
atgc intronic sequence ATGC exonic sequence...tgtgatgaaacttgtttgccattatttatgccataacgcagatgatattatgcttgctttcttcttaaggtggtgaataacaaatataaattatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTATATTTCCTGGTGAAAG
Basic information
species | Glycine max |
transcript | GLYMA16G10820.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G10820.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G045241_T07 (Zea mays), 3'ss of exon 4
tgtgatgaaacttgtttgccattatttatgccataacgcagatgatattatgcttgctttcttcttaaggtggtg--aataacaaatataaattatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTATATTTCCTGGTGAAAG
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-gggcaaacaatgaagtgttcttttctcttaaaatgcataacttttctctttgtggcttttagcttgtgatatcaccattaatagctgtgctcttttt-cagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
upper sequence: GLYMA16G10820.2 (Glycine max), 3'ss of exon 9
lower sequence: AT4G13020.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------------------------------------------------------------------tgtgatgaa-acttgtttgcc----attatttatgccataacgc------agatgatattatgcttgctttcttcttaaggtggtgaataacaa-atataaattatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTATATTTCCTGGTGAAAG
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gtatgtttgcgaaatccttttgtgcctcatcacatttcattagtatcatgtgatcatgtcaaaagtctagctaaaccatggctaatacttcgtggctttgaatagtttaagacattttttctttctgttttgtcatctattggatcgctttgcaaatctttatagactaacatttaaaagaactgcagACATGTGGGCAGTTGGAGCGATACTAGCTGAGCTTTACGCTTTAACTCCGTTATTTCCTGGTGAAAG
upper sequence: GLYMA16G10820.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv07s0151g00350.t01 (Vitis vinifera), 3'ss of exon 8
tgtgatgaaacttgtttgccattatttatgccataacgcagat---gatattatgcttgctttcttcttaaggtggtgaataacaaat-ata-aattatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTATATTTCCTGGTGAAAG
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tggtttgagctctaattg-----attcatgttaaattgctcatttggagattcatttagtattggatagcagaggactgatgtctaatcatggaaatacttgcagACATGTGGGCAGTTGGTGCAATACTAGCTGAGCTTTTCACTTTGTGCCCAATTTTCCCTGGTGAAAGMapped 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|10233430|gb|BE802318.1|BE802318EST: TCGAGCTCCAAAAGTTTTGTTGCGAGCCCCTTGTTATACTCCTGCTGTTG ACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTA
genomic: TCGAGCTCCAGAAGTTTTGTTGCGAGCCCCTTGTTATACTCCTGCTGTTGgtatgcataa ... ttatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatgcttgctttcttcttaaggtggtgaataacaaatataaattatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTATATTTCCTGGTGAAAG
gaataac putative branch site (score: 2)
tgaataacaaatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgatgaaacttgtttgccattatttatgccataacgcagatgatattatgcttgctttcttcttaaggtggtgaataacaaatataaattatttgcagACATGTGGGCAGTTGGTGCCATATTAGCTGAGCTTTTTACTTTGACCCCTATATTTCCTGGTGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT