Sequence
atgc intronic sequence ATGC exonic sequencegtactgtttccctaatcattactgtttctattatgtttcttgctggtactgtttctgtgaaatgtgttctcattagtggtgtttattttgttgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAATTTGCGATGGTTCTTGCAGATATGTTTGGAGGTGATGCTAATCCCCCTA
Basic information
species | Glycine max |
transcript | GLYMA09G32870.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G32870.2 (Glycine max), 3'ss of exon 12
lower sequence: AT2G34750.1 (Arabidopsis thaliana), 3'ss of exon 10
-------------gtactgtttccctaatcattactgtttctattatgtttcttgctggtactgtttctgtgaaatgtgtt--ctcattagtggtgtttattttgt-tgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAATTTGCGATGGTTCTTGCAGATATGTTTGGAGGTGATGCTAATCCCCCTA
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gtagtccatatagctatcatattttgcataatta-tgtacatattcttctagactctagcatggtcgacatgaaatgtctcggtttatactcactttctatatcatctgcagTTTCTGATATTCTATGCCTGCTCACTGGATCCTGAAAATTGTGGTGTGAAATTTGCTAGTAAGCTAGTGGAGATTTTTCTCTCCAGCAACAAGCATGTAG
upper sequence: GLYMA09G32870.2 (Glycine max), 3'ss of exon 12
lower sequence: AT1G30590.1 (Arabidopsis thaliana), 3'ss of exon 10
----------gtactgtttccctaatcattact--gtttctattat--gtttcttgc--tggt--actgtttctgtgaaatgtgttctcattagtggtgtttattttg--ttgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAATTTGCGAT--GGTTCTTGCAGATATGTTTGGA-GGTGATGCTAATCCCCCTA
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gtaggcatcaaagctatcaccttacatactacaaagttttcattgtaggcttctagcattagttcattatcggcatgtgatgtcttggcttagactcactctactttcatctgcagTTTCTGATGTTCTATGCATGCTCACTAGATCCTGAAAATTGTGGTGTGAGATTTGCCAGTAAGCTGTTGGACATATATCTCTCCAGCAACACATGTCGAC---
upper sequence: GLYMA09G32870.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv04s0044g01700.t01 (Vitis vinifera), 3'ss of exon 9
-----------------------------------------------------------------------------gtactgtttccctaatcattactgtttctattatgtttcttgctggtactgtttctgtgaaatgtgttctcattag----tggtgtttattttgttgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAATTTGCGATGGTTCTTGCAGATATGTTTGGAGGTGATGCTAATCCCCCTA
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gtacatcttcccctaatacacatttcctttctatttctttggtttctcatatttttgtgatattaagtgggatgtttgtttcctgacattaggtatggattttttctctgcctgctttaaaactcatattggttgatcatttcttcaccttaaactttcttgacttatttattgcagTTTGTGATGTTCTATGCCTGTGCTCTCGACCCTGAAAATTGTGGTGTGAGATTTGCTAGGGTGCTTGCAGATTTTTTTGTTTGCAGTACTTTTCCACCGCMapped 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|7591109|gb|AW706849.1|AW706849EST: ATTAAATGCGTACAAGTCAAAATTTACCCAG TTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAA
genomic: ATTAAATGCGTACAAGTCAAAATTTACCCAGgtactgtttc ... tttgttgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctggtactgtttctgtgaaatgtgttctcattagtggtgtttattttgttgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAATTTGCGATGGTTCTTGCAGATATGTTTGGAGGTGATGCTAATCCCCCTA
tttatttt CT-rich tract
tttattttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtttccctaatcattactgtttctattatgtttcttgctggtactgtttctgtgaaatgtgttctcattagtggtgtttattttgttgcagTTTGTGATGTTCTATGCATGTGCACTGGACCCTGAAGGATGTGGTGTGAAATTTGCGATGGTTCTTGCAGATATGTTTGGAGGTGATGCTAATCCCCCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG