Sequence
atgc intronic sequence ATGC exonic sequence...tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g48370.1 (Oryza sativa), 3'ss of exon 2
----------------tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
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atatttttccttctggtttttgtac--caactgcaatgccatatggactttttcaccatcaaatgtgcttgatgattaatatatacttttt--------------gtatatgatagCAACTGTGGATAAAGGGAAGTTCCTCATGGCTGCTAGAAGGTTTAGACGTGGTCCCCATACCGAGTACATCGTATCCCTTGATGCTGATGACCTTTCACA
upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA13G34470.1 (Glycine max), 3'ss of exon 2
-tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgatta-ataccttt---tctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
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atggtaatgcac-atatttggtttctcttttaagtttcc----tttgatgtgctcaaaatttatgtctctttatgtctcctcttttctcctccacccattgccagCATTCACAGATAAAGGGAAGTTTCTGCTAGCAGCTAGGAGATATAGGTGTGGTACTCATACCGAGTATATAATTTCACTTGATGCTGATGATTTATCCCA
upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G35920.1 (Glycine max), 3'ss of exon 2
tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctct--ctctctctttgggcatc---tgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
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tcataatgcacatattttggtttctcttttaagttttc----ttggatgtgcttga-aatttatgcctctttattgttactcttttctcccccacccattgccagCATTCACAGATAAAGGGAAGTTTCTGCTAGCAGCTAGGAGATATAGGTGTGGTACCCATACTGAGTATATAATTTCACTTGATGCTGATGACTTATCCCA
upper sequence: GRMZM2G068586_T04 (Zea mays), 3'ss of exon 2
lower sequence: Vv19s0014g01250.t01 (Vitis vinifera), 3'ss of exon 2
----tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
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ctttgatgtatatatataatgcatattttctcctttaatgttggta-catgtgttgtaaatgtttcaatcctggctcatctgagtgtcctt---tttccctcagCATTCACAGATAAGGGGAAGTTTCTCTTAGCTGCTCGAAGATATAGGCATGGTGCTCACACCGAGTACATAATATCACTTGATGCTGATGACATATCTCAMapped 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|148990843|gb|EE032261.2|EE032261EST: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTT CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
EST:
gi|67022110|gb|CO450859.1|CO450859EST: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGCT CACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
genomic: GAGGAATAAGAACAACTCTACATTCTACCTCTACCTTGGCTTCACAAGTTgtaagtagaa ... catctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
gattaat putative branch site (score: 3)
ccttttctctctctct CT-rich tract
atgattaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttgtacattagatgtattttttcttcagccttttcaccgtcagatatacttgatgattaataccttttctctctctctctctttgggcatctgacagCACCTGTGGATAAAGGGAAGTTTCTCATGGCTGCTAGAAGATTTAGGCGTGGTCCCCATACCGAGTACATTATATCTCTTGATGCAGAAGACTTATCACA
- - - - - - - -tgtattt
- - - - - - - - - - - - -cttcagc
- - - - - - - - - - - - - - - - - - - - - - - - - - ttgatga