Sequence
atgc intronic sequence ATGC exonic sequence...tcctcactaatcggcgtttttctatagaagttcttttggttgtatgagacatgttctcctgggccatgaagttaagtgtttttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G302245_T01 (Zea mays), 3'ss of exon 1
tcctcactaatcggcgtttttctatagaagttcttttggttgtatgagacatgttctcctgggccatgaagttaagtgtttttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
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-------------gtatttagcgatccaagttccta-gtttcgatcatatacaatcatatttgtggtattgttct-tataatttttttgctggaa--cagATGAAGGTGATGTTTATACATGGGGTTGGAAAGAGTGTGTTCCAACTGGAAGGGTTATTGGAGACCAATCTTCAGTTGGAACCAAGGAGAAGGATGAAAG
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G41810.2 (Glycine max), 3'ss of exon 3
tcctcactaatcggcgtttttctatagaagttcttttggttgtatgagacatgttctcctgggccatgaagt-taagtgtttttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
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-attgggcaagagttttttttttttttttttttcttgtccaataagcaaagttttctttcgagtatcaccctacaaatatatttttgtttttccttcgcagAACATGGAGAAGTTTATACATGGGGATGGAAAGAATGCATTCCCTCTGGGAAGGTATTTGGTGAATCATCAACAGGGGTAAGTCTTGAAAAAGATGTGCC
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 3
tcctcactaatcggcgtttttctatagaagttcttttggttgtatga--gacatgttctcctggg-ccatgaagttaagtgttt-ttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
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--ttcac-aattaat-taatccaaaatggattctggagattgtatgtccatcatgttttcttacttctgccatcctacatacctgttttgttgttcctatgcagATTGTGGAGAAGTTTACACATGGGGATGGAGGGAATGTGTACCCTCTGGGAAGGTGTTTGGTGAATCATTAACTGGGGTAAGCCCTGAAAAGGATGTACC
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G34470.1 (Glycine max), 3'ss of exon 3
tcctcactaatcggcgtttttctatagaagttcttttggttgtatga--gacatgttctcctggg-ccatgaagttaagtgttt-ttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
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--ttcacaaataattaatccaaaatgga--ttcaagagattgtatgtccatcgtgttttcttacttctgccatcctacatacctgttttgttgttcctatgcagATTGTGGAGAAGTTTACACATGGGGATGGAGGGAATGTGTACCCTCTGGGAAGGTGTTTGGTGAATCATTAACTGGGGTAAGCCCCGAAAAGGATGTACC
upper sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G07160.1 (Glycine max), 3'ss of exon 3
tcctcactaatcggcgtttttctatagaagttc-ttttggttgtatgagaca---tgttctcctgggccatgaagt-taagtgtttttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
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---acaata-tcatcctattgggaaagagttttatgtcttttccattaagcaaagttttcttttgagtatcaatctataaatatgttttgtttttcctta-gcagAACATGGAGCAGTTTATACATGGGGATGGAAAGAATGTATTCCCTCTGGGAGGGTATTTGGTGAACCATCAACAGGGGTAAGTCTTGAGAAAGATGTGCCMapped 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|110385026|gb|EC949508.1|EC949508EST: TTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAG AGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAA
genomic: TTCTATAGTGAAAGCTGCAGCAGGTTGGGCCCATTGTGCTTCTGTCACAGgtactactga ... tgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagacatgttctcctgggccatgaagttaagtgtttttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
tgtttttctttttct CT-rich tract
tttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctcactaatcggcgtttttctatagaagttcttttggttgtatgagacatgttctcctgggccatgaagttaagtgtttttctttttctgaaatacagAGAATGGAGAAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGAAAGGTCTTTGGAGATCCATCAGTAGGAGGAAGCCTAGAAAAGGATGTATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
tcctcac
- - - - - - - - - - - - - - - - - - tggttgt
- - - - - - - - - - - - - - - - - - - - - - - - -catgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgaa