Sequence
atgc intronic sequence ATGC exonic sequence...tgttttggttggaaattttaaatggagggtttatttcctgcgtttatctatgttttctctagtgaaaagtttcaaattttgttgtttcatttactttcagACACTGAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCATGAGTGTGCTGGGATCATAGAAGAAGTTGGTAGTCAGGTAAAGAGTTTGG
Basic information
species | Glycine max |
transcript | GLYMA16G32360.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G32360.3 (Glycine max), 3'ss of exon 1
lower sequence: AT5G51970.1 (Arabidopsis thaliana), 3'ss of exon 2
tgttttggttggaaattttaaatggagggtttatttcctgcgtttatctatgttttctctagtgaaaagtttcaaattt-tgttgtttcatttactttcagACACTGAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCATGAGTGTGCTGGGATCATAGAAGAAGTTGGTAGTCAGGTAAAGAGTTTGG
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-gtacttat--gatataatcagagagatatttggttttttctttgatttggtatggctcttgacattggtttttgatgggtgtgaatgttgcaaaacaaagACCATGAGATGTGCGGATTTTGTGGTGAAAGAGCCGATGGTGATTGGACATGAATGTGCTGGGATCATTGAAGAAGTAGGTGAAGAAGTGAAACATTTAG
upper sequence: GLYMA16G32360.3 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0100g00300.t01 (Vitis vinifera), 3'ss of exon 2
-tgttttggttggaaattttaaatggagggtttatttcctgcg---tttatctatgttttctctagtgaaaagtttcaaattttgttgtttcatttactttcagACACTGAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCATGAGTGTGCTGGGATCATAGAAGAAGTTGGTAGTCAGGTAAAGAGTTTGG
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attttctgagcaaccaaac-aaagggagtatttaaaataaaggggtcccccctttgttccctccatctattgacctctagtcttgtgattg---gtattttcagAAATTGAGATGTGCAGATTTTATTGTTAAAGAGCCTATGGTGATCGGCCATGAATGTGCTGGGATCATTGATGAAGTTGGTCCCCAGGTGAAGTCTCTGG
upper sequence: GLYMA16G32360.3 (Glycine max), 3'ss of exon 1
lower sequence: PP1S36_261V6.1 (Physcomitrella patens), 3'ss of exon 2
tgttttggttggaaatt-ttaaatggagggtttatttcctgcgtttatctatgttttctctagtgaaaagtttcaa---attttgttgtttcatttactttcagACACT-GAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCATGAGTGTGCTGGGATCATAGAAGAAGTTGGTAGTCAGGTAAAGAGTTTGG
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-----tgatttctaatggtttaatgaacccctcagctagtagcttgatatcgttacgaatcaatgacattttccgacacggttcaacatgctggcggcggtgcagCACTTGCAATGTGGGGATTTTATAGTGAAGGAACCCATGGTTATTGGCCATGAATGTGCTGGTACCATTGAGGAAGTTGGGAAGGCTGTGAAGAATGTTGMapped 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|209697632|gb|BW663887.1|BW663887EST: TGTTGGAATGAACACTCTCAAGATTCAGCCTTTCAAGCTTCCTTCTTTGG ACACTGAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCAT
genomic: TGTTGGAATGAACACTCTCAAGATTCAGCCTTTCAAGCTTCCTACTTTGGgtattcattc ... ttactttcagACACTGAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctatgttttctctagtgaaaagtttcaaattttgttgtttcatttactttcagACACTGAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCATGAGTGTGCTGGGATCATAGAAGAAGTTGGTAGTCAGGTAAAGAGTTTGG
tttcatttactttc CT-rich tract
aaaagtttcaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttttggttggaaattttaaatggagggtttatttcctgcgtttatctatgttttctctagtgaaaagtttcaaattttgttgtttcatttactttcagACACTGAGGTGTGCTCACTTTATAGTTAAAGAACCAATGGTTATTGGTCATGAGTGTGCTGGGATCATAGAAGAAGTTGGTAGTCAGGTAAAGAGTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - -tggttgg
- - - - - - - - - - - tggaggg
- - - - - - - - - - - - - - - - - ttcctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtt