Sequence
atgc intronic sequence ATGC exonic sequence...gatcttaagttaagagatccttttgaagatgaactaggtcatgtaatattctaaattcccattatcttgatttcttagggtgcatcttacattgtttcagGAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGCTGTGGTGTTTCTGGTATTG
Basic information
species | Glycine max |
transcript | GLYMA12G08490.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g57330.1 (Oryza sativa), 3'ss of exon 3
gatcttaagttaagagatccttttgaagatgaact--aggtcatgtaatattctaaattcccattatcttgatttcttagggtgca-tcttacattgtttcagGAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGCTGTGGTGTTTCTGGTATTG
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--ttttgatttcagtaactttacttgtttgggactttgagtcctatactcctattactgtcagtacacttgacatttaaggttttactcccatcctgtc-cagGAAAAGAATAGCAGAAAAGGTAGATTTTCTCCATCTAAACTGAAAGGAAAAAGGGTGATTGAGCTAGGAGCTGGTTGTGGTCTAGCTGGGCTTG
upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0061g00490.t01 (Vitis vinifera), 3'ss of exon 5
gatcttaagttaagagatccttttgaagatgaactaggtcatgtaatattctaaattcccattatcttgatttcttagggtgcatct--tacattgtttcagGAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGCTGTGGTGTTTCTGGTATTG
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--ctgcaatctgcatgggtcatgagttgtggacttacattgctttctgtgtgatactgtattcttctaaatctgcaaagttgcacttgtttgaatcactcagGAGAGGAATTGCAGAAAGGGAAGGTTTAGCCCATCTAAATTGAAAGGAAAACGTGTTATTGAACTTGGAGCAGGTTGTGGAGTAGCTGGATTTG
upper sequence: GLYMA12G08490.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv03s0017g01120.t01 (Vitis vinifera), 3'ss of exon 5
gatcttaagttaagagatccttttgaagatgaactaggtcatgtaatattctaaattcccattatcttgatttcttagggtgcatct--tacattgtttcagGAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGCTGTGGTGTTTCTGGTATTG
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--ctgcaatctgcatgggtcatgagttgtggacctacattgctttctgtgtgataccgtattcttctaaatctgcaaagttgcacttgtttgaatcactcagGAGAGGAATTGCAGAAAGGGAAGGTTTAGCCCATCTAAATTGAAAGGAAAACGTGTTATTGAACTTGGAGCAGGTTGTGGAGTAGCTGGATTTGMapped 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|213618377|gb|DB969375.1|DB969375EST: ACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT GAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAA
genomic: ACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTTgtaagctgtg ... attgtttcagGAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAA
EST:
gi|12773344|gb|BG238271.1|BG238271EST: ACTTANGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTT GAACGGAATTGCAGAAAGGGAAAAGTTT-CCCCAGCTTAACTTTAAGGAAA
genomic: ACTTAGGGACTACAGTATGGGATGCATCACTTGTGTTTGTCAAGTTTCTTgtaagctgtg ... attgtttcagGAACGGAATTGCAGAAAGGGAAA-GTTTTCCCCAGCTAAACTTAAAGGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattctaaattcccattatcttgatttcttagggtgcatcttacattgtttcagGAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGCTGTGGTGTTTCTGGTATTG
ttgtttc CT-rich tract
attatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatcttaagttaagagatccttttgaagatgaactaggtcatgtaatattctaaattcccattatcttgatttcttagggtgcatcttacattgtttcagGAACGGAATTGCAGAAAGGGAAAGTTTTCCCCAGCTAAACTTAAAGGAAAACGTGTAATTGAACTAGGAGCTGGCTGTGGTGTTTCTGGTATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT