Sequence
atgc intronic sequence ATGC exonic sequencegtactcttctctctcctctctcttttgttgctgctatgcattcagttctctaaattaaaataactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTGGGGAAGTTCCTAGAACATGCTGTGGACTCAGGGCTGCTGCTTCTTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g00310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G23830.1 (Glycine max), 3'ss of exon 1
-----------------------gtactcttctctctcctctctcttttg-ttgctgctatgcatt---cagttctctaaattaaaa----taactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTGGGGAAGTTCCTAGAACATGCTGTGGACTCAGGGCTGCTGCTTCTTCAAG
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tcacattagtgctcagatggcttctgctttggcttgtgccttttctaatgattggtttttagttttaaacagttttgagattttggacttttgtttcaagGGAACGCCTGGAGTAACTGGAGCAGTGATGTGGGACAGTGGAGTTGTACTGGGAAAGTTTCTAGAGCATGCTGTTGACTCAGGGATGCTTGTCCTTCAGG
upper sequence: Vv16s0039g00310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G16200.1 (Glycine max), 3'ss of exon 1
-----------------------gtactcttctctctcctctctcttttg-ttgctgctatgcatt---cagttctctaaattaaaa----taactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTGGGGAAGTTCCTAGAACATGCTGTGGACTCAGGGCTGCTGCTTCTTCAAG
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tcacattagtgctcagatggcttctgctttagcttgtgccttttctaatgattggtttttagtcttaaacagttttgacatttaggacttttgtttcaagGGAACGCCTGGAGTAACTGGAGCAGTGATGTGGGACAGTGGAGTTGTACTGGGAAAGTTTCTAGAGCATGCTGTTGACTCAGGGATGCTTGTCCTTCAGG
upper sequence: Vv16s0039g00310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G33600.1 (Glycine max), 3'ss of exon 2
-----------------------gtactcttctctct-cctctctcttttgttgctgctatgcatt---cagttctctaaattaaaa----taactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTGGGGAAGTTCCTAGAACATGCTGTGGACTCAGGGCTGCTGCTTCTTCAAG
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tcacattagtgctcaaatgacttctgctctagcttgtgcctcttctaatggttggtttttagttttaaacagttttgacattttggacttttgttttaagGGAACGCCTGGAGTAACTGGAGCAGTGATGTGGGACAGTGGAGTTGTACTGGGAAAGTTTCTAGAACATGCTGTTAACTCAGGGATGCTTGTCCTTCAGG
upper sequence: Vv16s0039g00310.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G29060.1 (Glycine max), 3'ss of exon 1
----------------------------gtactcttctctctcctctctcttttgttgc-tgctat-gcattcagttctctaaattaaa---ataactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTGGGGAAGTTCCTAGAACATGCTGTGGACTCAGGGCTGCTGCTTCTTCAAG
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aattgttggtttttagttttcagatttaatggtgaaatggccatcataccatgaattggatattgttgaattcagttcat--agttagacttttgatttaagGGGACGCCTGGAGTTACTGGAGGAGTGAGGTGGGACAGTGGAGTTGTATTGGGGAAGTTTCTAGAGCATTCTGTTGACTCAGGGATGCTTGTTTTCCAGGMapped 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|110430181|gb|EC996719.1|EC996719EST: TCGACGCCTGCGGCCACTCTCTCTCCATTTTCCAATCCCCTTCTTCATTG GGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTG
genomic: TCGACGCCTGCGGCCACTCTCTCTCCATTTTCCAATCCCCTTCTTCATTGgtactcttct ... ataactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTG
EST:
gi|28960899|gb|CB340457.1|CB340457EST: TCGACGCCTGCGGCCACTCTCTCTCCATTTTCCAATCCCCTTCTTCATTG GGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTG
genomic: TCGACGCCTGCGGCCACTCTCTCTCCATTTTCCAATCCCCTTCTTCATTGgtactcttct ... ataactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctctctcttttgttgctgctatgcattcagttctctaaattaaaataactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTGGGGAAGTTCCTAGAACATGCTGTGGACTCAGGGCTGCTGCTTCTTCAAG
aaataac putative branch site (score: 2)
ttctctaaattaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactcttctctctcctctctcttttgttgctgctatgcattcagttctctaaattaaaataactccagGGCAAACCTGGAGTGACTGGATCTGTGATGTGGGATAGTGGAGTTGTATTGGGGAAGTTCCTAGAACATGCTGTGGACTCAGGGCTGCTGCTTCTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT