Sequence
atgc intronic sequence ATGC exonic sequence...tttgctgctttggacctactattattcatttcatgtcattgttcttgattgcttacctttactttagttgtttgatggcacatttctcacccttttgcagGATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATACCAGACATGACTTCTTCTACTGA
Basic information
species | Glycine max |
transcript | GLYMA12G10540.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G10540.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G32410.2 (Arabidopsis thaliana), 3'ss of exon 8
tttgctgctttggacctactattattcatttcatgtcattgttcttgattgcttacctttactttagttgt-ttgatggcacatttctcac---ccttttgcagGATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATACCAGACATGACTTCTTCTACTGA
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---tccaagttag-cttttttttctgattcccatcaacatggctcaaattcctcagatttttctgatccaagttaaccctacttattatatgcatcatctgcagGAGTTTATTTCAAATGAAGGTGGTGGGGAGGTACCACTTGAAGGTTCCATGCCTGATATGATATCTTCCACAGA
upper sequence: GLYMA12G10540.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G05180.1 (Arabidopsis thaliana), 3'ss of exon 8
-tttgctgctttggacctactattattcatttcatgtcattgttcttgatt-------gcttacctttactttagttgtttgatggcacatttct---cacccttttgcagGATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATACCAGACATGACTTCTTCTACTGA
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gtttgaaacttgaaacctgctctgccagaactcataattttatgttcatttaggaagtgcaaactgcaactcattttgattgaaatcataatcgtacataaccacctgcagGAGTTTGTTTTAAATGAAGGTGGTGGAGAGGCACCCCTTGAAGGTTCTATACCAGATATGACCTCTTCAACAGA
upper sequence: GLYMA12G10540.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0059g00610.t01 (Vitis vinifera), 3'ss of exon 8
-tttgctgctttggacctac-tattattcatttcatgtcattgttcttgattgcttacctttactttagttgtttgatggc--acatt-tctcacccttttgcagGATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATACCAGACATGACTTCTTCTACTGA
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atttgcatccatccagctacatattatcatcatcat-ctacatttcctga---ctcacatttaacaaagg-gtataatcatggacattctttcttcacattgcagGAATTCATTGCGAATGAAGGTGGCGGGGAGGCACCCCTTGAAGGATCAATACCAGATATGACATCTTCAACCGAMapped 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|208341042|gb|GE134594.1|GE134594EST: AAGTGGACTCTAATTCTTCAGATTTTTGGGTGTTGGTGACAGCTCTTAAG GATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATA
genomic: AAGTGGACTCTAATTCTTCAGATTTTTGGGTGTTGGTGACAGCTCTTAAGgttggtgctt ... ccttttgcagGATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattgcttacctttactttagttgtttgatggcacatttctcacccttttgcagGATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATACCAGACATGACTTCTTCTACTGA
ttctcac putative branch site (score: 2)
catttctcaccctttt CT-rich tract
tttacttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgctgctttggacctactattattcatttcatgtcattgttcttgattgcttacctttactttagttgtttgatggcacatttctcacccttttgcagGATTTCATTGCAAATGAAGGTGGTGGGGAGGCACCCCTTGAAGGATCTATACCAGACATGACTTCTTCTACTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
-ttgctgc
- - - - - - - - - - - - - - - tcatgtc
- - - - - - - - - - - - - - - - - - - - gttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatggc