Sequence
atgc intronic sequence ATGC exonic sequence...tgattccttctgccctccctgagttttctcttacttttccaacatttggatgcttttcatgtggttcctatgagtgaattgcttgggatattttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 11
tgattccttctgccctccctgagttttctcttacttttccaacatttggatgcttttcatgtggttcctatgagtgaattgcttgggata-------ttttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG
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---atctcactgctcattcc---ttctccagtgcatgtg-gatatttattttgcaacgatattgatattatgaggtaatcactgaagatatgcaccttactttgcagCTTGCTTGGACATGTTATAACTTCTACCAATCAACTCCAACAAAATTGGCTGGAGAGAACTATTTCTTTCATTCTGGGCAG
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 10
tgattccttctgccctccctgagttttctcttacttttccaacatttggatgcttttcatgtggttcctatgagtgaattgcttgggata-------ttttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG
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------atcacactgtgcattccttctccagtgcatgtggatatttatggtgcaatg-atattgatattatgaggtaatcactgaagatatgtacctttctttgcagCTTGCTTGGACATGTTATAACTTCTACCAATCAACTCCAACAAAATTGGCTGGGGAGAACTATTTCTTTCATTCTGGGCAG
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 11
---------------------------------------tgattccttctgccctccctgagttttctcttact-tttccaacatttggatgcttttcatgtggttcctatgagtgaattgcttgggatattttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG
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gtaaacttatgacttgaatgatctttgatcatagcgtcgtaagtgcttcagatctttcgaatttttcgctctctgcttttctgatttaggctgctgagatatagcctttattgctattttcc-----acatattttgcagCTTGCGTGGACATGTTATAACTTTTACCAATCAACTCCAACAAAACTGGCTGGGGAGAATTATTTCTTCAACTCTGGGAGT
upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 11
tgattccttctgccctccctgagttttctcttacttttccaacatttggatgcttttcatgtggttcctatgagtgaattgcttgggatattttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG
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-------------gtgccttagaatctcaattgtatgttgagtata-----actttctgctgtgtccttattgctgtttccctcac----tttactgcagCTTGCCTGGACTTGTTATAACTTTTACCAATCGACACCAACGAAACTTGCTGGAGAGAACTATTTCTTCACTGCAGGGCAGMapped 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|33402283|gb|CF207910.1|CF207910EST: TTGGTTATGGTCCTGAAGAATCTCAGAAATTCCTATCCCTTGCCGAAGAG CTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCT
genomic: TTGGTTATGGTCCTGAAGAATCTCAGAAATTCCTATCCCTTGCCGAAGAGgtattcttaa ... ttttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCT
EST:
gi|71863682|gb|DT012737.1|DT012737EST: TTGGTTATGGTCCTGAAGAATCTCAGAAATTCCTATCCCTTGCCGAAGAG CTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCT
genomic: TTGGTTATGGTCCTGAAGAATCTCAGAAATTCCTATCCCTTGCCGAAGAGgtattcttaa ... ttttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggatgcttttcatgtggttcctatgagtgaattgcttgggatattttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG
tatttttt CT-rich tract
atatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattccttctgccctccctgagttttctcttacttttccaacatttggatgcttttcatgtggttcctatgagtgaattgcttgggatattttttgcagCTTGCCTGGACATGCTATAATTTCTACCAGTCAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
tgattcc
- - - - - - ccctccc
- - - - - - - - - - - - - - - - - - -tccaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcctatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgg