Sequence
atgc intronic sequence ATGC exonic sequence...attagttccatgcaatgttttcttatttcgagtattcatttctagcacacagtagagtttgtttgaacttaaacatttaacttgaccttaatctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTCAATATTGCCCTTGATGATGTGTCAATTACTAGTCTGACTTTTGGCAAGG
Basic information
species | Glycine max |
transcript | GLYMA13G36940.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G36940.1 (Glycine max), 3'ss of exon 4
lower sequence: AC217358.3_FGT005 (Zea mays), 3'ss of exon 3
---------attagt-tccatgcaatgttttct-tatttcgagtattcatttctagcacacagtagagtttgtttgaacttaaacatttaacttgaccttaatctt--tgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTCAATATTGCCCTTGATGATGTGTCAATTACTAGTCTGACTTTTGGCAAGG
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gtaccattcatgcgtctagacacgatgttccccatataacaactgtc--ttgctaggattggatgagattaggatatgttaacagttcattcatgcattcgattccgatgcagGCTGTGAGCAGGGAGATTAGGAAGATTCTGACTGAGAGGGCCAACAACTTCAATATTGCTCTGGATGATGTGTCCATCACAAGCCTCAGCTTTGGAAAAG
upper sequence: GLYMA13G36940.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G28510.1 (Arabidopsis thaliana), 3'ss of exon 4
----attagttccatgcaatgttttcttatttcgagtattcatttctagcacacagtagagtttgtttgaacttaaacatttaacttgaccttaatctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTCAATATTGCCCTTGATGATGTGTCAATTACTAGTCTGACTTTTGGCAAGG
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gtatacaaatgactgtgaatatatgatcatctttt-ttctctttcttagta---agtgaagtt--------cttaaagatttattccgggctt----ctctcagGCGGTCAGTAGGGAGATCAGGAAGATTCTGACTGAACGAGCAGCAAACTTCAATGTTGCGCTTGACGATGTGTCCATCACAAACCTGACATTCGGGAAGG
upper sequence: GLYMA13G36940.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0085g00730.t01 (Vitis vinifera), 3'ss of exon 5
attagttccatgcaatgttttcttatttcgagtattcatttctagcac-acagtagagtttgtttgaacttaaacatttaacttgacct-taatctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTCAATATTGCCCTTGATGATGTGTCAATTACTAGTCTGACTTTTGGCAAGG
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--tattttagcatggtataataattgtggaaggataggttgttaggattacgataaaattttaaatatatcaagttctgagcaatccatatgttctttatagACTGTTAGTAGGGAAATACGTAAGTTATTGACAGAAAGGGCAGCCAATTTCAACATTGCTCTGGATGATGTGTCCATTACAAGCCTTACTTTTGGGAGGG
upper sequence: GLYMA13G36940.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0048g02350.t01 (Vitis vinifera), 3'ss of exon 5
attagttccatgcaatgttttcttatttcgagtattcatttctagcacacagtagagtttgtttgaacttaaacatttaacttgacct---taatctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTCAATATTGCCCTTGATGATGTGTCAATTACTAGTCTGACTTTTGGCAAGG
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--tattttagcttggtgtaataactgtggaagaataggttgttaggattagataaaaaat-tttaaattactgagttctgagcaatttgtatgttctttatagGCTGTTAGCAGGGAAATACGTAAGATATTGACAGAAAGGGCAGCCAATTTCAACATCGCTCTGGATGATGTGTCCATCACAAGCCTTACTTTTGGGAAGGMapped 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|192307653|gb|FG999692.1|FG999692EST: AAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAG GCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTC
genomic: AAGCCGTGGTTGCCCAGTACAATGCCAGCCAGCTTATTACTCAGCGAGAGgtaaggagca ... atctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacacagtagagtttgtttgaacttaaacatttaacttgaccttaatctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTCAATATTGCCCTTGATGATGTGTCAATTACTAGTCTGACTTTTGGCAAGG
tctttgt CT-rich tract
aacttaaacatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attagttccatgcaatgttttcttatttcgagtattcatttctagcacacagtagagtttgtttgaacttaaacatttaacttgaccttaatctttgtagGCTGTTAGTCGGGAAATCCGGAAGATTCTGACTGAAAGGGCTGCTAACTTCAATATTGCCCTTGATGATGTGTCAATTACTAGTCTGACTTTTGGCAAGG
- - - -ccatgca
- - - - - - - - - - - - - - - - - - - - - - -cacacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttgacc