Sequence
atgc intronic sequence ATGC exonic sequence...tgtctactttcaatggcattctttatatttattaaaacaagtatatccttggacaaatgaagcattttttatgttattacttgtttgtgtttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGAGCCATTAACGCTGCACATGTGGAGGTTGAAAGTGTTGAAAATGGAGTTG
Basic information
species | Glycine max |
transcript | GLYMA10G33820.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G33820.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G61580.1 (Arabidopsis thaliana), 3'ss of exon 7
tgtctactttcaatggcattctttatatttattaaaacaagtatatccttggacaaatgaagcattttttatgttattacttgtttgtgtttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGAGCCATTAACGCTGCACATGTGGAGGTTGAAAGTGTTGAAAATGGAGTTG
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--------gtaaatacc--cattgataattttcaacttaaggtctacttttctctcatgtggagtttcttat---acatcttcttcatccattgttctagGTGATTGACAAATCATTTGGCTTTGATACGGCGGTTGAGGAAGCACAACGAGCTATTAATGCTGCACATGTAGAGGTCGAGAGCGTGGAAAATGGAGTTG
upper sequence: GLYMA10G33820.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv16s0013g01140.t01 (Vitis vinifera), 3'ss of exon 8
------tgtctactttcaatggcattctttatatttattaaaacaagtatatccttggacaaatgaagcattttttatgttattacttgtttgtgtttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGAGCCATTAACGCTGCACATGTGGAGGTTGAAAGTGTTGAAAATGGAGTTG
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tatttatgtgaactatta--ggtgaagtctatgttctccaaattctgt-tatcaatatactttccatttaattttc-taatatga--taataacttcttgtttcagGTGATAGACAAGTCTTTTGGTTTTGATACTGCTGTTGAGGAAGCTCAGAGAGCAATCAATGCTGCACATGTGGAAGTTGAAAGTGTAGAAAATGGAGTTG
upper sequence: GLYMA10G33820.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S282_45V6.1 (Physcomitrella patens), 3'ss of exon 8
----------------------tgtctactttcaatggcattctttata---tttattaaaacaagtatatccttggacaaatgaagcattttttatgtt-attacttgtttgtgtttggctc---cagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGAGCCATTAACGCTGCACATGTGGAGGTTGAAAGTGTTGAAAATGGAGTTG
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gtaggtttctgacaaatccttgagtctgatattcgtgcaactctcgaaagaatcgaattgtatgatcaagtcttaattgggaccagactttgtgaggaaagacgaattgatttgacctggaattggcagGTTATAGACAAATCGTTTGGGTTTGATACAGCTGTTGAAGAAGCACAGCGCGCAATCAATGCTGCCCATGTGGAAGCTGAGAGTATTCACAATGGCATTG
upper sequence: GLYMA10G33820.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S81_165V6.4 (Physcomitrella patens), 3'ss of exon 9
-------------------tgtctacttt-caatggcattctttatattt------attaaaacaagtatatccttgg--acaaatgaagcatt-------ttttatgttattacttgtttgtgtttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGAGCCATTAACGCTGCACATGTGGAGGTTGAAAGTGTTGAAAATGGAGTTG
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gtacgttttagacacggaaattcaacaacacgatggaattctctgtttttcaatggattgaattgtgtgggtttctgattgtaggttaagcaacacaagagctgaatggaaaatatggtgcacgtttggc---agGTCATAGACAAATCATTTGGTTTTGATACCGCAGTTGAAGAAGCACAGCGTGCAATTAATGCTGCGCACGTGGAAGCTGAGAGTGTTCATAATGGCATTGMapped 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|6567074|gb|AW234701.1|AW234701EST: TTCAAGTGGCTGTGGCTGGGATTCCAAAGACAATTGATAATGATATTGCT GTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGA
genomic: TTCAAGTGGCTGTGGCTGGGATTCCAAAGACAATTGATAATGATATTGCTgtaagttctt ... ttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGA
EST:
gi|208306520|gb|GE104459.1|GE104459EST: TTCCAAAGACAATTGATAATGATATTGCT GTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGA
genomic: TTCCAAAGACAATTGATAATGATATTGCTgtaagttctt ... ttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccttggacaaatgaagcattttttatgttattacttgtttgtgtttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGAGCCATTAACGCTGCACATGTGGAGGTTGAAAGTGTTGAAAATGGAGTTG
attttttatgttatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtctactttcaatggcattctttatatttattaaaacaagtatatccttggacaaatgaagcattttttatgttattacttgtttgtgtttggctccagGTGATAGACAAATCTTTTGGATTTGATACTGCTGTGGAAGAAGCCCAGAGAGCCATTAACGCTGCACATGTGGAGGTTGAAAGTGTTGAAAATGGAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - -gcattct
- - - - - - - - - - - - - - - - -aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - ccttgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt