Sequence
atgc intronic sequence ATGC exonic sequence...tgtaaattataatgtagttatcacaactttgaatcactagaaagcttgctttccatgaccttactatgcagcctcacctgtatttttattttttgttgcaGATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTTATTGGATGGACTGAGTACAAC
Basic information
species | Glycine max |
transcript | GLYMA18G51920.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G51920.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g26834.1 (Oryza sativa), 3'ss of exon 9
-tgtaaattataatgtagttatcacaactttgaatca---ctagaaagct--tgctttccatgacc--ttac-tatgcagcctcacctgtatttttattttttgttgcaGATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTTATTGGATGGACTGAGTACAAC-
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gtttgtcttgctcagcacatg-caaatcctttactcaatgttatatatctgatgtttttttagaactgttatatatatgatgttcgtgctattacctgttttttttccagATCTGGTCCTTTCAAATAAGTTAGTTGTCTATGACCTGGAAAATCAAGTCATTGGCTGGACTGAGTACAACT
upper sequence: GLYMA18G51920.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G05840.1 (Arabidopsis thaliana), 3'ss of exon 8
-------------------------------------------------------------------------tgtaaattataatgtag-------ttatcacaactttgaatcactagaaagcttgctttccatgaccttactatgcagcctcacctgtatttt-tattttttgttgcaGATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTTATTGGATGGACTGAGTACAAC-
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gtaccttaaattggatacatagtttgcagtcacattatacaaaagcatgacttagtgacaaagtttaattgcatgcaattcagtttgtggaaaaagcccattgtgttctcttgctgtcagtgacaatgaaccccgtgtgatt-taatccaatgcccacaatatcttacattctcttttgcagATTTGGTGCTTTCAAACAAGCTTGTTCTCTACGATCTCGAAAATCAGCTCATTGGGTGGACTGAATACAACT
upper sequence: GLYMA18G51920.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0062g01370.t01 (Vitis vinifera), 3'ss of exon 8
tgtaaattataatgtagttatcacaactttgaatcactagaaagcttgctttccatgaccttactatg---cagcctcacctgtatttttattttttgttgcaGATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTTATTGGATGGACTGAGTACAAC-
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-gtcaaatctgata-aattataa--gttttccataactaaagaatgagtgtttcttggtatttatctgagccatttttttttttgtttcaatgttctattgcagATTTAGCACTTTCAAATAAGCTAGTCTTGTATGATCTAGAAAATCAGGTCATTGGATGGACCGAATATAACTMapped 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|18732856|gb|BM527287.1|BM527287EST: AAAATAGTGGGACACAATCAAGAGATAGCAAAAATATGACCTTATTGGGA GATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTT
genomic: AAAATAGTGGGACACAATCAAGAGATAGCAAAAATATGACCTTATTGGGAggtattctct ... ttttgttgcaGATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgctttccatgaccttactatgcagcctcacctgtatttttattttttgttgcaGATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTTATTGGATGGACTGAGTACAAC
gcctcac putative branch site (score: 3)
tttttattttttgtt putative PPT
tgtatttttatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaaattataatgtagttatcacaactttgaatcactagaaagcttgctttccatgaccttactatgcagcctcacctgtatttttattttttgttgcaGATTTAGTGCTTTCAAATAAACTTGTCTTCTATGACCTTGAAAATCAGGTTATTGGATGGACTGAGTACAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - aatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcacc