Sequence
atgc intronic sequence ATGC exonic sequencegtgactcgtctttctttctttctacagaaaaagaaaaaaagggaagaaaatgaaatgatgacatgtaacagaaaaaaaacgagcagcttatgttttgaatattttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATCAGTGTCTCTCATTGCCAATGAGATACCTCTTTCATCCTCAGAGTTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0146g00120.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G155962_T03 (Zea mays), 3'ss of exon 9
gtgactcgtctttctttctttctacagaaaaagaaaaaaagggaagaaaatgaaatgatgacatgtaacagaaaaaaaacgagcagcttatgttttgaatattttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATCAGTGTCTCTCATTGCCAATGAGATACCTCTTTCATCCTCAGAGTTGGAG
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--------tattatattgaatatata-aataatataatccctttattctctggtacgagcac-tatcggtctatcgccatggattaattatgctctggacatgtt--tgcagTGACTTCCCCTATGTTGTTCCTGAATGTGGTTACAAAGGAGGAAGGGAGGCGATTTCTCATGTCGCCAGCAAGATACCAGTTTCCCAGTCAGATTTGGAA
upper sequence: Vv01s0146g00120.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G52130.1 (Glycine max), 3'ss of exon 9
--------------------------------------------------------------------------------gtgactcgtctttctttctttctacagaaaaagaaaaaaagggaagaaaatgaaatgatgacatgtaacagaaaaaaaacgagcagcttatgttttg-------aatattttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATCAGTGTCTCTCATTGCCAATGAGATACCTCTTTCATCCTCAGAGTTGGAG
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ggtaacttccaatcatacatgtgttcagctaatttttttttggaaggccaaccaaaatttgataaatatgatgtgttcagctaaaatagaactcaa-ctttgtgagtaaacagtagaatagggaaaggggtaagagaatcttatccataaacaaccaaattaactttttctttttccttttcccaccatgctgctacaGCGATTTTCCATTTGTTGTTGCTGAATGTGGTTACAAAGGAGCCAAAGAAGCAGTGCATCTTATTGCCAGTGAGATCTCTTTGCCTTTATCAGATTTAGA-
upper sequence: Vv01s0146g00120.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G35450.1 (Arabidopsis thaliana), 3'ss of exon 9
-----gtgactcgtctttctttctttct--acagaaaaagaaaaaaagggaagaaaatgaaatgatgacatgtaacagaaaaaaaacgagcagcttatgttttgaatattttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATCAGTGTCTCTCATTGCCAATGAGATACCTCTTTCATCCTCAGAGTTGGAG
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gtaaacatacttatttacctcgctttcccgactaaaaaccacaaaaaaccttctatatctactaacaatacatgatcatatacggattggc------tgttttccat---ctgctgcagTGACTTCCCATTTGTTGTTCTTGAATGTGGATATAAAGAAGCTAAAGAAGCTGTGACTATCATTGCAAAAGAAGCATCCTTGTCAAGTTCTGAGATGGACMapped 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|110382591|gb|EC946898.1|EC946898EST: CTTTCCCAAGTTGTTTCCAGCTTTGGTGCCAACCGTGTCATGTGGGGCAG TGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATC
genomic: CTTTCCCAAGTTGTTTCCAGCTTTGGTGCCAACCGTGTCATGTGGGGCAGgtgactcgtc ... tttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATC
EST:
gi|110367255|gb|EC931182.1|EC931182EST: CTTTCCCAAGTTGTTTCCAGCTTTGGTGCCAACCGTGTCATGTGGGGCAG TGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATC
genomic: CTTTCCCAAGTTGTTTCCAGCTTTGGTGCCAACCGTGTCATGTGGGGCAGgtgactcgtc ... tttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgacatgtaacagaaaaaaaacgagcagcttatgttttgaatattttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATCAGTGTCTCTCATTGCCAATGAGATACCTCTTTCATCCTCAGAGTTGGAG
atgtaac putative branch site (score: 3)
ttttgtt putative PPT
ttatgttttgaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgactcgtctttctttctttctacagaaaaagaaaaaaagggaagaaaatgaaatgatgacatgtaacagaaaaaaaacgagcagcttatgttttgaatattttgttgcagTGACTTCCCATTTGTTGTTCCTGAATGCGGATATAAAGGAGCAAAAGAATCAGTGTCTCTCATTGCCAATGAGATACCTCTTTCATCCTCAGAGTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG