Sequence
atgc intronic sequence ATGC exonic sequence...tgaatttatttaattcagtggctatagccctttaaagtgactttagcttagttttaatccattagttatttagatatctaagaaacaattgaatatacagGCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCTGGCTGGTCAATGGGATGGACATGGGCAAAAAAGGAGGTAATATGGAGCA
Basic information
species | Glycine max |
transcript | GLYMA08G27560.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G27560.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G071970_T01 (Zea mays), 3'ss of exon 2
tgaatttatttaatt--cagtggctatagccctttaaagtgactttagcttagtttta-atccattagttatttagatatctaagaaacaattgaatatacagGCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCTGGCTGGTCAATGGGATGGACATGGGCAAAAAAGGAGGTAATATGGAGCA
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gaaacatacatcactgataacaagaacatcatccaaaatttatgtcagaagcatgctatgcatacatggttcctgatttcccataaaatacctgc---tgcagGCTGTTGTCACAATGTTCAATTATCAACAATTTCGGCACATCGGGGCACCTGGATGGCAGCTTGGGTGGACATGGGCAAAAAAGGAGGTTATATGGTCAA
upper sequence: GLYMA08G27560.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G009154_T01 (Zea mays), 3'ss of exon 1
tgaatttatttaattcagtggctatagccctttaaagtgactttagcttagttttaatccattagttatttagatatctaagaaacaattgaata-----tacagGCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCTGGCTGGTCAATGGGATGGACATGGGCAAAAAAGGAGGTAATATGGAGCA
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gaaacatatatcac-cgataacaagaacaccatccaa--aatttatgtcagaagcatgctat-ggttacatggtt-cctgatttcccataaaatacctcctgcagGTTGTTGTCACAATGTTCAATTATCAACAATTTCGGCACATCGGGGCACCTGGATGGCAGCTTGGGTGGACATGGGCAAAAAAGGAGGTTATATGGTCAA
upper sequence: GLYMA08G27560.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 2
---tgaatttatttaattcagtggctatagccctttaaagtgactttagcttagttttaatccattagttatttagatatctaagaaacaattgaatatacagGCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCTGGCTGGTCAATGGGATGGACATGGGCAAAAAAGGAGGTAATATGGAGCA
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agttgaaatgctatttaccaggaacttttaa--ttaaaagtcaggattcctct-ctttagtgcattgtgtaactatgtgatcaactcttcttggattggatagGCTGTTGTCACTATGTACAATTTCCAGCAATATCGTCACATTCAATCGCCAGGATGGTCACTGCAATGGACATGGGCAAAAAAGGAGGTGATATGGAGCAMapped 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|151412694|gb|EV282506.1|EV282506EST: ATATCACAATCAAATGGGATATTATAAGTTGGACCCCAGATGGATATGTG GCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCT
genomic: ATATCACAATCAAATGGGATATTATAAGTTGGACCCCAGATGGATATGTGgtaagtatag ... gaatatacagGCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttagttttaatccattagttatttagatatctaagaaacaattgaatatacagGCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCTGGCTGGTCAATGGGATGGACATGGGCAAAAAAGGAGGTAATATGGAGCA
ttttaat putative branch site (score: 3)
ttttaatccattagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaatttatttaattcagtggctatagccctttaaagtgactttagcttagttttaatccattagttatttagatatctaagaaacaattgaatatacagGCTGTTGTTACGATGAACAACTTCCAACAATATCGTCATATCGCTTCACCTGGCTGGTCAATGGGATGGACATGGGCAAAAAAGGAGGTAATATGGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - -gtggcta
- - - - - - - - - - - - - -cccttta
- - - - - - - - - - - - - - - - - - gtgactt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaaca