Sequence
atgc intronic sequence ATGC exonic sequence...atggtgaaacttgtttgcccttatttatggtgtaactcagatgatattatgcttgctttcttcttaaggtggtgaaataacaaatagaaattatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCATATTTCCTGGTGAAAG
Basic information
species | Glycine max |
transcript | GLYMA03G21610.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G21610.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G045241_T07 (Zea mays), 3'ss of exon 4
atggtgaa-acttgtttgcccttatttatggtgtaactcagatgatattatgcttgctttcttcttaaggtggtgaaataacaaatagaaattatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCATATTTCCTGGTGAAAG
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-gggcaaacaatgaagtgttcttttctcttaaaatgcataacttttctctttgtggcttttagcttgtgatatcaccattaatagctgtgctctttttcagACATGTGGGCGGTTGGTGCTATTTTGGCTGAGCTTTTTACACTGTCCCCACTTTTTCCTGGTGAAAG
upper sequence: GLYMA03G21610.2 (Glycine max), 3'ss of exon 8
lower sequence: AT4G13020.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------------------------------------------------------------atggtgaa-acttgtttgccctta----tttatggtgtaactc------agatgatattatgcttgctttcttcttaagg--tggtgaaataacaaatagaaattatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCATATTTCCTGGTGAAAG
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gtatgtttgcgaaatccttttgtgcctcatcacatttcattagtatcatgtgatcatgtcaaaagtctagctaaaccatggctaatacttcgtggctttgaatagtttaagacattttttctttctgttttgtcatctattggatcgctttgcaaatctttatagactaacatttaaaag--aactgcagACATGTGGGCAGTTGGAGCGATACTAGCTGAGCTTTACGCTTTAACTCCGTTATTTCCTGGTGAAAG
upper sequence: GLYMA03G21610.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv07s0151g00350.t01 (Vitis vinifera), 3'ss of exon 8
atggtgaaacttgtttgcccttatttatggtgta--actcagatgatattatgcttgctttcttcttaaggtggtgaaataacaaata--gaaattatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCATATTTCCTGGTGAAAG
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----tggtttgagctctaattgattcatgttaaattgctcatttggagattcatttagtattggatagcagaggactgatgtctaatcatggaaatacttgcagACATGTGGGCAGTTGGTGCAATACTAGCTGAGCTTTTCACTTTGTGCCCAATTTTCCCTGGTGAAAGMapped 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|6502102|gb|AW203475.1|AW203475EST: TCGAGCTCCAGAAGTTTTGTTGCGAGCCCCTTGTTATACTCCTGCTGTTG ACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCA
genomic: TCGAGCTCCAGAAGTTTTGTTGCGAGCCCCTTGTTATACTCCTGCTGTTGgtatgcataa ... ttatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatgcttgctttcttcttaaggtggtgaaataacaaatagaaattatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCATATTTCCTGGTGAAAG
aaataac putative branch site (score: 2)
tgaaataacaaataga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggtgaaacttgtttgcccttatttatggtgtaactcagatgatattatgcttgctttcttcttaaggtggtgaaataacaaatagaaattatttgcagACATGTGGGCAGTTGGTGCTATATTAGCTGAGCTTTTTACTTTGACCCCCATATTTCCTGGTGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT