Sequence
atgc intronic sequence ATGC exonic sequencegtaagttattttgttgtacatccatgttctgttggccagatttttcgtgtctgacatttgctaacttgatgacagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTTTTGGATGAGTCAAAGGATGTTTTGCTTGAG
Basic information
species | Glycine max |
transcript | GLYMA12G07260.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07260.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g01010.1 (Oryza sativa), 3'ss of exon 8
gtaagttattttgttgtac-atccatgttctgttggccagatttttcgtg-tctgacatttgctaacttgatgacagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTTTTGGATGAGTCAAAGGATGTTTTGCTTGAG
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gtgagtc-tataattatatgatgggttctttctccacttattgtaccataatgagacattctgtgttcccat-acagAATGAAGGAGATGTCAAAATTGTTGTTGGAAAAAACCTAGATCAGATTGTTTTGGATGAATCAAAAGATGCCCTTTTGGAG
upper sequence: GLYMA12G07260.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G60640.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaa-gttattttgttgtacatccatgttctgttggccagatttttcgtgtctgacatttgctaact-tgatgacagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTTTTGGATGAGTCAAAGGATGTTTTGCTTGAG
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gtaaagccgttttattattaatttccaaccgtcttgttggctcatgtaacaccgaaacttaattttggtggctacagAACGATGAAGATGTGAAAATAGTGGTTGGAGATAACTTTGATGAAATTGTTCTGGACGATTCTAAAGATGTGCTTCTCGAG
upper sequence: GLYMA12G07260.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g02890.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtta-----ttttgttgtacatccat-gttctgttggccagatttttcgtgtctgacatttgc-taacttgatg---acagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTTTTGGATGAGTCAAAGGATGTTTTGCTTGAG
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gtgagttacctaattttgttgtactgttattaaattgtcatttcatgttctaatccattatccttctatattttgattgacacagAATGATGAGGATGTGAAAATAGTGGTCGGGGATAACTTCGATGAAATTGTTTTGGATGAATCAAAGGATGTTCTTCTTGAGMapped 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|151396998|gb|EV266871.1|EV266871EST: TTGAAGAAAAGCTGAAACCTTTCCTCAAGTCTGATCCAGTTCCTGAAAGT AATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTT
genomic: TTGAAGAAAAGCTAAAACCTTTCCTCAAGTCTGATCCAGTTCCTGAAAGTgtaagttatt ... ttgatgacagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTT
EST:
gi|27423459|gb|CA934979.1|CA934979EST: TTGAAGAAAAGCTAAAACCTTTCCTCAAGTCTGATCCAGTTCCTGAAAGT AATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTT
genomic: TTGAAGAAAAGCTAAAACCTTTCCTCAAGTCTGATCCAGTTCCTGAAAGTgtaagttatt ... ttgatgacagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatgttctgttggccagatttttcgtgtctgacatttgctaacttgatgacagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTTTTGGATGAGTCAAAGGATGTTTTGCTTGAG
agattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttattttgttgtacatccatgttctgttggccagatttttcgtgtctgacatttgctaacttgatgacagAATGACGGTGATGTGAAAATAGTTGTTGGGAATAACTTTGATGAAATTGTTTTGGATGAGTCAAAGGATGTTTTGCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG