Sequence
atgc intronic sequence ATGC exonic sequence...tatgctgtctaagaattttaatactattgatttaaaggaaatttcttatagtttatcaaaagtctttgccttagacatttctgattctatgaacttgcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
Basic information
species | Glycine max |
transcript | GLYMA05G30430.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g21940.1 (Oryza sativa), 3'ss of exon 7
---------------------------------------------------------------------------tatgctgtctaagaattttaa-tactattgatttaaaggaaatttcttatagtttatcaaaagtctttgccttagacatttctgattct-----atgaacttgcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
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gtaaggccataggattgatgttttctcaaattgaacaacgaattaagttattaacacgattactgtactggtgcatgtggaaagcaacatcttcaagttcagcagctttatggggacatgcatatgttcttttttttagtttaaatataaatttcaataattttcaaaaaccactttacagGAAAGCTTCATGATGCACGATGATGCGGTGCTTTCTGTTGATTTCAGTAGAGATTCTGAGATGCTGGCATCTGGATCACAGGATGGAAAGATTAAG
upper sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G037683_T01 (Zea mays), 3'ss of exon 7
-tatgc-tgtctaagaattttaa---tactattgatttaaaggaaatttcttatagtttatca---------aaagtctt--tgccttagacatttctgattctatgaac-ttgcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
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gtatgtgcctttaagttttgtagctttattataggacttaagtatgcacattctatttaatcagacatggctaaggtgctaattttttatgtactgtctgctggatgaacacttcagGAAAGCTTTATGATGCACGAGGAACCTGTGCTGTGTGTTGATTTTAGTAGGGATTCTGAAATGCTGGCATCTGGATCACAGGATGGAAAGATTAAG
upper sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 8
lower sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 8
-----tatgctgtctaagaattttaatactattgatttaaaggaaatttcttatagtttatcaaaagtctttgccttagacatttctgattctatgaacttgcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
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ccaagtatctcgtctgagacttcc--tggtat--acaaaatatcagttttggataaagagttcccattccatcctctttac-ttactatgattaatttctgacagGAATCTTTCATGATGCATGATGATCCTGTCCTCTGCATAGACTTTAGCAGAGATTCAGAGATGCTTGCATCTGGGTCACAAGATGGAAAGATTAAA
upper sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 8
tatgctgtctaagaattttaatactattgatttaaaggaaatttcttatagtttatc-----aaaagtctttgccttagacatttctga--ttctatgaactt--gcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
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-------cctatt--tttggttcctacaaagcacaaagaaacttttagcaatttatctttttggcagaggcctcctatgaatttgctgacatgctatgaacttttacagGAAACCTTTATGATGCATGATGATGCTGTCCTTTGTGTTGATTTTAGCAGAGATTCGGAGATGCTTGCATCTGGATCACAAGATGGAAAAATCAAAMapped 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|208212961|gb|GE014974.1|GE014974EST: GGGATTACATAAGTGGAAAGCTGAAGAAAGATCTACAGTACCAGGCTGAT GAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGA
genomic: GGGATTACATAAGTGGAAAGCTGAAGAAAGATCTACAGTACCAGGCTGATgtgagtgagt ... gaacttgcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatagtttatcaaaagtctttgccttagacatttctgattctatgaacttgcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
ttctgat putative branch site (score: 3)
tttatcaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgctgtctaagaattttaatactattgatttaaaggaaatttcttatagtttatcaaaagtctttgccttagacatttctgattctatgaacttgcagGAAGTGTTCATGATGCATGATGATGCTGTGCTTTGTGTAGACTTTAGCAGAGATTCAGAAATGCTTGCATCTGGGTCTCAAGATGGAAAGATTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA