Sequence
atgc intronic sequence ATGC exonic sequence...tgattttgttcttatgtgttatgaataccatcttaacatatgcatgattcttccatgttcagatagctctctaaccctttgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAGTCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G04060.2 (Glycine max), 3'ss of exon 10
----------------------------------------------------------------------------------------tgattttgttcttatgtgttatgaataccatcttaacatatgcatgattcttccatgtt-cagatagctctctaaccctttgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAGTCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC----
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gtaattatttcttgcttgcattaccgctacattctctgaatatgtgcatgaataggagatacacacctgaactaccctgccaattatatgcctttagttgcatactttactgtttacttttgatctgctaaggtattacgttacattacgtgtagtttgccaac---tgggtcatgtaatttgttgcagAGAGGAGAATTGCTGCTCAGTCTCCTCATCCTGCTTAGGTGGGCATAGAAAGTTGT----TTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTCCTCTCTTTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G14550.1 (Glycine max), 3'ss of exon 11
----------------------------tgattt-tgttcttatgtg---ttatgaat-accatcttaacatatgcatgattc----------ttccatgttcagatagctctctaaccctt----tgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAG---TCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC
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gtacttactccttctatatatcatctcttcatttgcattctcacacgatcttatatttcagcatccgtgcatgtgcacaacacgacatacacacttgaagaccaagccattctcctgcttctaatatgcacatgtaatttgttgcagAAAGGAGAATAGCTGCTCAGGCTCCTCCTCAACCTGCTTAGGTGG-CTTAGAAAAATAATC--TTGTACAGCTAACTGAGGCTAGTGTGAGCTTCTTTCTTTG
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G14530.1 (Glycine max), 3'ss of exon 9
tgattttgttcttatg--tgttatgaataccatcttaacatatgcatgattctt-ccatgttcagatagctctctaaccctttgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAG---TCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC
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-gcttgtaattgtatcattattatatgtgcacatttaatttcaagattattcttatcatatgttga-gttattattatattatgt-catgtaatttgttgcagAAAGGAGAATAGCTGCTCAGGCTCCTCCTCAACCTGCTTAGGTGG-CTTAGAAAAATAATC--TTGTACAGCTAACTGAGGCTAGTGTGAGCTTCTTCCTCTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G06450.3 (Glycine max), 3'ss of exon 8
----tgattttgttcttatgtgttatgaataccatc-ttaacatatgcatgattcttccatgttcagatagctctctaaccctttgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAG---TCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC--
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tgtgttatgatatgcacatttaatttcaagcttatggttatcatatgtgaagttattt-atgat-atatagttttatgaaccggt---catgtaatttattgcagAAAGGAGAATTGCTGCTCAGGCTCCTCCTCAACCCGCTTAGGTG--CTTAGAAAATAATC---TTGTACAGCTAACTGAGGCTAGTGTGCCGCTTCTTCTTCCTC
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G14500.1 (Glycine max), 3'ss of exon 10
----------------------------tgattt-tgttcttatgtg---ttatgaat-accatcttaacatatgcatgattcttc-----catgt-----tcagatagctctctaaccctt----tgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAG---TCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC
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gtacttactccttccatatatcatctcttcatttgcattctcacacgatcttatatttcagcatccgtgcatgtgcacaacacgacatacacacgtgaagaccaagccattctcctgcttctaatatgcacatgtaatttgttgcagAAAGGAGAATAGCTGCTCAGGCTCCTCCTCAACCTGCTTAGGTGG-CTTAGAAAAATAATC--TTGTACAGCTAACTGAGGCTAGTGTAAGCTGCTGCTGCTT
upper sequence: Vv06s0004g05100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G06430.1 (Glycine max), 3'ss of exon 8
-----tgattttgttcttatgtgttatgaataccatc-ttaacatatgcatgattcttccatgttcagatagctctctaaccctttgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAG---TCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC
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tgtatcactaatatgcacatttaatttcaattttattgttatcatatgttaaggtatttattat--atatagtgtatgaaccggt----catttaatttcttgcagAAAGGAGAATTGCTGCTCAGGCTCCTCCTCAACCTGCTTAGGTGG-CTTAGAAAAATAA--ACTTGTACAGCTAACTGAGGCTAGTGAGAGCTGCTTCTTCGGMapped 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|32458085|gb|CD799259.1|CD799259EST: TTATGGAAAGCATATTGTTGCACGTGTAGAGAAACTCGTTGCTGCTGGGG AAAGGAGAATTGCTATTCAGTCTCCACACCCTGCTTAGGTGGGCATAGGAA
genomic: TTATGGAAAGCATATTGTTGCACGTGTAGAGAAACTCGTTGCTGCTGGGGgtacctatcc ... ttgtttgcagAAAGGAGAATTGCTATTCAGTCTCCACACCCTGCTTAGGTGGGCATAGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattcttccatgttcagatagctctctaaccctttgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAGTCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC
ctctaac putative branch site (score: 2)
aaattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattttgttcttatgtgttatgaataccatcttaacatatgcatgattcttccatgttcagatagctctctaaccctttgtacatcaaattgtttgcagAAAGGAGAATTGCTATTCAGTCTCCACACCCTGCTTAGGTGGGCATAGGAAAGAAAGAAGTTGTACAGCTAACTGAGGCTAGTGTGAGCTTCCTTTCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - -aatacca
- - - - - - - - - - - - - - - - - - catatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatcaa