Sequence
atgc intronic sequence ATGC exonic sequencegtgggtgatgagccgtcatatctcacaaagtacatcaatatatgacataaccatacggaattcatggtagacatcttgtttcttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G458548_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os05g01040.1 (Oryza sativa), 3'ss of exon 5
gtgggtgatgagccgtcatatctcacaaagtacatcaatatatgacataaccatacggaattcat-ggtagacatcttgtttcttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAA
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gttagtgaagtactggcaattttca-gaagcagatc------tgtcgtgatcttacagagataattaataaaattcgtttttccttgcagGTACATGGCTCCAGAGTATGCATCAAGTGGGAAATTGACTGAGAGATCTGATGTGTTCTCTTTTGGTGTTGTTCTCTTAGAGCTTATCACTGGTAGAAAA
upper sequence: GRMZM2G458548_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G26150.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgggtgatgagcc--gtcatatctcacaaagtacatcaatatatgacataaccatacggaattcatg--gtagacatcttgtt--tcttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAA
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gtaggtgctggttaaggtcccatatgacattgctcatgagcaaaacttctttctgtatatgttccatcttataaacgattggtaaatgttttcagCTACATGGCTCCGGAATATGCATCAAGTGGCAAATTAACCGAGAAATCAGACGTATTCTCCTTTGGGGTTGTTCTACTGGAGTTAATCACTGGACGTAAG
upper sequence: GRMZM2G458548_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv01s0011g02460.t01 (Vitis vinifera), 3'ss of exon 5
----------------gtgggtgatgagccgtcatatctcacaaagtacatcaatatatgacataaccatacggaattcatggtagacatcttgtttcttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAA
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cagagggcacttactatttagggatgaattgtccagaatgactaagatttgttttacatgccatatccatg-----ttcaaagattccaattgattgaatttcagATATATGGCTCCCGAGTATGCATCAAGTGGCAAGTTAACTGAGAAATCTGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAA
upper sequence: GRMZM2G458548_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv14s0083g00330.t01 (Vitis vinifera), 3'ss of exon 5
--------gtgggtgatgagccgtcatatctcacaaagtacatcaatatatgacataaccatacggaattcatg--gtagacatcttgttt--cttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAA
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ttattcaaatgtgtggtgaagtag-atatcttcaatgataagatgattattgttctcacttttgcctgtttatgtaatgaatgaattggatgattttccagATATATGGCTCCAGAGTATGCATCAAGTGGCAAGTTGACGGAAAAATCCGATGTTTATTCATTTGGGGTTGTGCTTTTAGAACTGATTACAGGTCGTAAAMapped 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|88755616|gb|DY539757.1|DY539757EST: GCTTTGGATGCTGTAACCCATGTGACAACCCGTGTTATGGGAACATTTGG GTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGA
genomic: GCTTTGGATGCTGTAACCCATGTGACAACCCGTGTTATGGGAACATTTGGgtgggtgatg ... ttcttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatatatgacataaccatacggaattcatggtagacatcttgtttcttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAA
acataac putative branch site (score: 3)
catcttgtttcttttc putative PPT
tttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggtgatgagccgtcatatctcacaaagtacatcaatatatgacataaccatacggaattcatggtagacatcttgtttcttttcagGTACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAGATCAGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT