Sequence
atgc intronic sequence ATGC exonic sequencegtaatcccctggtctaccttattgattggtaactttgttctttcaagttatttatcatttatatatttacttctgtggcttacagTTCCACCTGGCGATGAGGGTTGGTTATGCCCAGGATGTGATTGCAAAGATGACTGCATGGACCTTGTTAACGACTCCTTCGGAACAAGTCTCTCTATTAG
Basic information
species | Glycine max |
transcript | GLYMA10G40640.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G40640.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G19510.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatcccctggtctaccttattgattggtaacttt----gttctttcaagttatttat---catttatatatttacttctgtggcttacagTTCCACCTGGCGATGAGGGTTGGTTATGCCCAGGATGTGATTGCAAAGATGACTGCATGGACCTTGTTAACGACTCCTTCGGAACAAGTCTCTCTATTAG
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gtaatattctctgcctacgtacttggtagtgttttaagcagttcttgctggt-atctacagctgtcttttttgttggttttaatttttgtagTTCCTCCGGATGATGAGGGTTGGCTATGCCCCGGATGTGATTGCAAAGATGACAGCTTGGACTTGCTTAATGATTCTTTAGGGACAAAATTTTCGGTCAG
upper sequence: GLYMA10G40640.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0091g00290.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------------------gtaatcccctggtctaccttattgattggtaactttgttctttcaagttatttatcatttatatatttacttctgtggcttacagTTCCACCTGGCGATGAGGGTTGGTTATGCCCAGGATGTGATTGCAAAGATGACTGCATGGACCTTGTTAACGACTCCTTCGGAACAAGTCTCTCTATTAG
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gtaacatccaactcattcatttgatgctaataaatttgaattagtggttcttgaatca--cttatt--ttttcatttatgttttcttatggtgtttattatt---attctttattttatta-ttgcagTTCCTCCTGATGACGAGGGTTGGCTGTGCCCTGCATGTGATTGCAAAGTTGACTGCATGGACCTGCTTAATGACTCTCAAGGAACAAAACTTTCTGTAATMapped 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|208338977|gb|GE136149.1|GE136149EST: CCGTGGATTTCACCAGCTCTGTTTGGATCCTCCGATGTTAACTGAAGACA TTCCACCTGGCGATGAGGGTTGGTTATGCCCAGGATGTGATTGCAAAGATG
genomic: CCGTGGATTTCACCAGCTCTGTTTGGATCCTCCGATGTTAACTGAAGACAgtaatcccct ... tggcttacagTTCCACCTGGCGATGAGGGTTGGTTATGCCCAGGATGTGATTGCAAAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactttgttctttcaagttatttatcatttatatatttacttctgtggcttacagTTCCACCTGGCGATGAGGGTTGGTTATGCCCAGGATGTGATTGCAAAGATGACTGCATGGACCTTGTTAACGACTCCTTCGGAACAAGTCTCTCTATTAG
tggtaac putative branch site (score: 2)
cttctgt putative PPT
ttctttcaagttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcccctggtctaccttattgattggtaactttgttctttcaagttatttatcatttatatatttacttctgtggcttacagTTCCACCTGGCGATGAGGGTTGGTTATGCCCAGGATGTGATTGCAAAGATGACTGCATGGACCTTGTTAACGACTCCTTCGGAACAAGTCTCTCTATTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA