Sequence
atgc intronic sequence ATGC exonic sequence...gaaattttcagcattttcccatttcctttccccttctctggggattcagaaagagccttggtattcttgataacaatgtcttttatttgttgtgttttagGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 18
---------------------gaaattttcagcattttcccatttcctttccccttctctggggattcagaaagagccttggtattcttgataacaatgt-ctttta--------tttgttgtgtttt-agGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG---------------------------------
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gttttttgatattgtttggcccaaattgattgaatgtttt-atttgattcacaattgactttgctttgtgagata---ctgtttttcattaaagtaatgtgcatttagccagctgttcggtttatttccagGTTCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAAGCAGGTGA
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA03G40440.3 (Glycine max), 3'ss of exon 17
-gaaattttcagcattt---tcccatttcctttccccttctctggggat-tcagaaagagccttggtattcttgataacaatgtcttttatttgttgtgttttagGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG----------------------------------
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tgaatgttgttttatttgattcacagttgattttactttgtatgatactatttttcattaaagtaatgtgcttt-tagccagctgttcggtttatt----tccagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGTTGAC
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 17
-gaaattttcagcattt---tcccatttcctttccccttctctggggat-tcagaaagagccttggtattcttgataacaatgtcttttatttgttgtgttttagGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG---------------------------------
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tgaatgttgttttatttgattcacagttgattttactttgtatgatactgtttttcattgaagtaatgtgcttt-tagccagctgtttggtttatt----tccagGTGCTGTCTCCTGAAATGAGCTTAGCCACAGTTCGAGCTTATGTATGGAAGAAATCAGATGACTTGGTTCTAAATTACAGACTAGTTCAAGGCAGGTGA
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 18
---------------------gaaattttcagcattttcccatttcctttccccttctctggggattcagaaagagccttggtattcttgataa----caat--gtcttttatttgttgtgtttt-agGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG---------------------------------
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gttttttaatattgtttggcccaaattgattgcatgtttt-atttgattcacaattgactttgctttgtgtgatactatttttcatttaagtaatgtgcatttagccagctgtttggtttatttccagGTGCTGTCTCCTGAAATGAGCTTAGCCACTGTGCGAGCTTATATATGGAAGAAATCAGATGACTTGGTTTTAAATTACCAACTACTTCAAAGCAGGTGAMapped 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|33402527|gb|CF208154.1|CF208154EST: AGCCTTGGCAAAAGCTTAAGCCCTCAATAGAGATCTTGTGCAATAACCAG GTCTTATCCCCCTGACATGAGCTTAGCCACAGTCCGTGCTTATATATGGAA
genomic: AGCCTTGGCAAAAGCTTAAGCCCTCAATAGAGATCTTGTGCAATAACCAGgcaagttgat ... tgtgttttagGTCTTATCCCC-TGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAA
EST:
gi|33402504|gb|CF208131.1|CF208131EST: AGCCTTGGCAAAAGCTTAAGCCCTCAATAGAGATCTTGTGCAATAACCAG GTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGTGCTTATATATGGAAG
genomic: AGCCTTGGCAAAAGCTTAAGCCCTCAATAGAGATCTTGTGCAATAACCAGgcaagttgat ... tgtgttttagGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagaaagagccttggtattcttgataacaatgtcttttatttgttgtgttttagGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG
tgataac putative branch site (score: 2)
aatgtcttttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaattttcagcattttcccatttcctttccccttctctggggattcagaaagagccttggtattcttgataacaatgtcttttatttgttgtgttttagGTCTTATCCCCTGACATGAGCTTAGCCACAGTCCGCGCTTATATATGGAAGAAACCTGAGGACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - cagcatt
- - - - - - - -ttcccat
- - - - - - - - - - - - cctttcc
- - - - - - - - - - - - - - - -ccttctc
- - - - - - - - - - - - - - - - - - - - - - - -agaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataacaa