Sequence
atgc intronic sequence ATGC exonic sequence...cgagggctgtttcgttcccgatggagtgtggcaaaggaatagagaataaattgctgtctttggttgtgtttcagtaaataattttggttgttgattgcagGTTCTGAAGAGGGACATCCCATGGGAGACGTACATGACTACGAAGCTAATAACTGGAACATGTCTTCAGCTGTTGAGGCGTTACGATAACAGATCTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G25740.1 (Glycine max), 3'ss of exon 1
-----------------------------------------------------cgagggctgtt--tcgttcccgatggagtgt-ggcaaaggaatagagaat--aaattgctgtctttggttg-----tgtttcagtaa-ataattttggttgttgattgcagGTTCTGAAGAGGGACATCCCATGGGAGACGTACATGACTACGAAGCTAATAACTGGAACATGTCTTCAGCTGTTGAGGCGTTACGATAACAGATCTGAGA
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gtacttcccgatccgtttttcactccctttgtttcttcatccatcgatctgattgcaaattgccgatcgtgttcgattccgtttcgatttagttttcgtgcattttaattgtcgatgtagattgaaaacttttacgctgacattgtgtccgtgttttcgcgaagGTTCTGAGGAGGGACATCCCATGGGAGACCTACATGTCCACCAAGCTCATCTCAGGCACCAGCCTTCAGCTCTTAAGGCGCTACGATCACCGGCCAGAGA
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G06710.1 (Glycine max), 3'ss of exon 1
------------------------------------------cgagggctgtttcgttcccgatggagtgtggcaaa----ggaatagagaataaattgctgtctttggttgtgtttcagt----------aaataattttggttgttgattgcagGTTCTGAAGAGGGACATCCCATGGGAGACGTACATGACTACGAAGCTAATAACTGGAACATGTCTTCAGCTGTTGAGGCGTTACGATAACAGATCTGAGA
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gtacttcccgatccgttttctctccctttcgatctgattgcaaaactacgattccgtttcgatttagttttcgtgcattttaatgtcgtcgatcgatcgtcgatgtggattgaaattgaatttctacgctgacattgtgtccgttttttcgcgaagGTTCTGAGGAGGGACATCCCATGGGAGACCTACATGTCCACCAAGCTCATCTCAGGGACGAGCCTTCAGCTCTTAAGGCGCTACGATCACCGACCAGAAA
upper sequence: Vv16s0039g01610.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S21_158V6.1 (Physcomitrella patens), 3'ss of exon 1
cgagggctgtttcgttcccgatggagtg--tggcaaaggaatagagaataaatt--gctgtctttggttgtgtttcagtaaataattttggttgttgattgcagGTTCTGAAGAGGGACATCCCATGGGAGACGTACATGACTACGAAGCTAATAACTGGAACATGTCTTCAGCTGTTGAGGCGTTACGATAACAGATCTGAGA
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----ttaggtttaatggtagggagattggttttttgagtgatggatggtgggtttggttgtgcgcaatagtaggactgatggagagatgatttgattgttgtagGTGTTGAAAAGGGATATCCCATGGGAGACGTACATGACAGCCAAGCTGATCAACAGCACTGGATTGCAACTACTCAGGCGGTATGACCACCGTCCGGACAMapped 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|71855866|gb|DT004921.1|DT004921EST: ATTCTTAGCTTCAATTCTCAATGGACCGTGCCGAGCTCACTACTGACCAG GTTCTGAAGAGGGACATCCCATGGGAGACTTACATGACTACGAAGCTAATA
genomic: ATTCTTAGCTTCAATTCTCAATGGACCGTGCCGAGCTCACTACTGACCAGgtcggcgatc ... ttgattgcagGTTCTGAAGAGGGACATCCCATGGGAGACGTACATGACTACGAAGCTAATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaattgctgtctttggttgtgtttcagtaaataattttggttgttgattgcagGTTCTGAAGAGGGACATCCCATGGGAGACGTACATGACTACGAAGCTAATAACTGGAACATGTCTTCAGCTGTTGAGGCGTTACGATAACAGATCTGAGA
tgttgat putative branch site (score: 4)
tttcagtaaataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgagggctgtttcgttcccgatggagtgtggcaaaggaatagagaataaattgctgtctttggttgtgtttcagtaaataattttggttgttgattgcagGTTCTGAAGAGGGACATCCCATGGGAGACGTACATGACTACGAAGCTAATAACTGGAACATGTCTTCAGCTGTTGAGGCGTTACGATAACAGATCTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- -gggctgt
- - - - - - cgttccc
- - - - - - - - - - - - - - - - aaaggaa
- - - - - - - - - - - - - - - - - - - - - -gaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataat