Sequence
atgc intronic sequence ATGC exonic sequence...atttcctaccattctgtagtagagtagtatgattctgctaattccataacaaatagtacctacattggtgcatgaacgcttcaactacctccttttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAGAAGAGAGATGCAATCGACACCAAAAACCAGGCGGACTCAGTGGTCTACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G001500_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g14070.1 (Oryza sativa), 3'ss of exon 7
atttcctaccattctgtagtagagtagtatgattctgctaattccataacaaatagtacctacattggtgcatga-----acgcttcaactacctcct---tttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAGAAGAGAGATGCAATCGACACCAAAAACCAGGCGGACTCAGTGGTCTACC
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--------agttcctctagggaaacaacactatgctcctgtaagcgaagatacaaatgcctacattgaagcataacattcaatctgaaacaacattttgtgtttgtagGTTGAGAGAATGGTGGAAGAGGCTGACAAGTTTGCTCAGGAGGACAAAGAGAAAAGAGATGCCATTGATACCAAAAACCAGGCAGACTCTGTGGTCTACC
upper sequence: GRMZM2G001500_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA16G00410.1 (Glycine max), 3'ss of exon 6
-----------------------------------------------------------------------------atttcctaccattctgtagtagagtagtatgattctgctaattccataacaaatagtacctaca--ttggtgcatgaacgcttcaactacctcct------tttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAGAAGAGAGATGCAATCGACACCAAAAACCAGGCGGACTCAGTGGTCTACC
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gtatccactatctctgacaatcaattactttaatagcctttttatgttgtttgtgtgtgtttttttttttaattgccagttgcttgcttcttttatgaagaaaaaaaaaaagtgccaatgtgaagggtcatttgagttaggagtctttttatgatgcttaggactaactctggaatgacatacagGTGGAGAGAATGGTAAACGAAGCTGAGAAATTTTCAAAGGAAGACAAAGAAAAGAGGGATGCCATTGACACAAAGAACCAGGCAGATTCTGTGGTGTACC
upper sequence: GRMZM2G001500_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA12G28750.1 (Glycine max), 3'ss of exon 2
atttcctaccattctgtagtagagtagtatgattctgctaattccataacaaatagtacctacattggtgcatgaacgcttcaactacctccttt------tgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAGAAGAGAGATGCAATCGACACCAAAAACCAGGCGGACTCAGTGGTCTACC
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-gcttcttttatgatgaa--agaaataaatggcaatgcggat---gggacatttgatgtaggaaattttttatgatgcttataactatctctggaatgaaatacagGTGGAGAGAATGGTAAACGAAGCTGAGAAATTTTCGAAGGAAGACAAAGAGAAGAGGGATGCTATTGACACAAAGAACCAGGCAGACTCTGTGGTATACC
upper sequence: GRMZM2G001500_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv17s0000g03310.t01 (Vitis vinifera), 3'ss of exon 7
atttcctaccattctgtagtagagtagtatgattctgctaattccataacaaatagtacctacattggtgcatgaacg-cttcaactacctcct------tttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAGAAGAGAGATGCAATCGACACCAAAAACCAGGCGGACTCAGTGGTCTACC
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-----ttagggtttcttggggagtcgacatagttct--tactcaacttctaatttgcacctataatgggacagctctgacagaaaatgtgttgtgggaaatatgcagGTGGAGAGGATGGTTAGCGAAGCAGAGAGGTTTGCAAAGGAGGACAAGGAGAAGAGAGATGCCATAGATACAAAGAATCAAGCTGATTCTGTGGTCTACCMapped 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|166606561|gb|EG185527.1|EG185527EST: CTACCTAAGGATGAG GTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAG
genomic: CTACCTAAGGATGAGgtatgttgat ... ccttttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAG
EST:
gi|67030463|gb|CO459212.1|CO459212EST: AGAAACAGGACATCACCATCACTGGTGCTAGTACGCTACCTAAGGATGAG GTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAG
genomic: AGAAACAGGACATCACCATCACTGGTGCTAGTACGCTACCTAAGGATGAGgtatgttgat ... ccttttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataacaaatagtacctacattggtgcatgaacgcttcaactacctccttttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAGAAGAGAGATGCAATCGACACCAAAAACCAGGCGGACTCAGTGGTCTACC
ccataac putative branch site (score: 3)
ctacctccttttgc putative PPT
aaatagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttcctaccattctgtagtagagtagtatgattctgctaattccataacaaatagtacctacattggtgcatgaacgcttcaactacctccttttgcagGTTGAGAGAATGGTAGAAGAAGCCGATAAGTTTGCCAAGGAGGACAAAGAGAAGAGAGATGCAATCGACACCAAAAACCAGGCGGACTCAGTGGTCTACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG