Sequence
atgc intronic sequence ATGC exonic sequencegtaaatattgaactatgacacttttgttaaggaaactatatttatgccctataattgctagaattgcctattactttcctgtgttgtgcttttatattttgagcattaaataacctgtgtatactgtagCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g69130.2 (Oryza sativa), 3'ss of exon 8
gtaaatattgaactatgacacttttgttaaggaaactatatttatgccctataattgctagaattgcctattactttcctgtgttgtgcttttatattttgagcattaaataacctgtgtatactgtagCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA
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-------gcgacttataata--tgaaacggagggagtgtgtctattcttt-----tgtttaagctgtatgtga------taaattgtgccattttaagttga---------aacatttttatgttatagCTTTCTCCTCAATGGTGGAGGGAAAAAATGAGGACATATCAACAATTGAGCTTTGTGGTGGAGCAAGGATCCATTATATTTTTCAATCTATATATGTAAA
upper sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA04G16340.1 (Glycine max), 3'ss of exon 8
-------------gtaaatattgaactatgacacttttgttaaggaaactatatttatgccctataattgctagaattgcctattactttcctgtgttgt-gcttttatattttgagcattaaataacctgtgtatactgt--------agCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA
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gtacctaactatcccaactgtgtggtttcttatcttttattcacgaacttgtattt-tcttttgcttttgtatttgttaactggtattctac-atattgttacctttcccgattaagcaa-atgctatctccattttctttttgataacagCTTTCTCCTCCATGGTTGAGGGAAATAATGAGGAGATTTCTACATCTGAACTATTTGGTGGAGCACGAATCCATTACATTTTTCAATCTATCTTTGTCAG
upper sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G06380.1 (Glycine max), 3'ss of exon 8
------------gtaaatattgaactatgacacttttgttaagga--aactatatttatgccctataattgctagaattgcctattactttcctgtgttgt-gcttttatattttgagcattaaataacctgtgtatactgt-------agCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA---
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gtacctaactatccaaccaaccagtttcttatcttttattcatcatgaacttgtcttttcttttccttttgtattttttgactggta-ttccacatattgttaccttttccgattaaatgctatcttgattttcttttttttggaaaacagCATTCTCCTCCATGCTTGAGGGAAAGAATGAG---ATGTCTACATCCGAGCTATCTGGTGGAGCACGAATCCATTACATTTTTCAATCCATCTTTGTCAAAAG
upper sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA13G32940.1 (Glycine max), 3'ss of exon 8
----gtaaatattgaactatga-------cacttttgttaa--ggaaactatatttatgccctataattgctagaattgcctattactttcctgtgttgt-gcttttatattttgagcattaaat--aacctgtgtatactg-----tagCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA---
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gtacctaactatccggccatctagtttcttatctttattcatcataaacttgtcttttcttttccttttgtattttttgaccagta-ttccacatattgttacctttcccaattaaatgctatcttcattttccttcttttggaaaacagCGTTCTCCTCCATGCTTGAGGGAAAGAATGAG---ATGTCTACATCCGAGCTATCTGGTGGAGCACGAATCCATTACATTTTTCAATCCATCTTTGTCAGAAG
upper sequence: GRMZM2G129155_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S82_15V6.1 (Physcomitrella patens), 3'ss of exon 9
---------------------------gtaaatattgaactatgacacttttgttaaggaaactatatttatgccctataattgctagaattgc-ctattactttcctgtgttgtgcttttatattttgagcattaaataacctgtgtat--------actgtagCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA
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gtgaatgctattgctggcccctctctcacaaccatcatcttgctattctttttaaacagtcaatgtgatgatatcgttcattagctcttagtatgctcctactgttatgtacggttcttatccaaacagatccatgagaaacacagttctcacttccgactgcagATTATCAGTCAATTGTGGAAGGAAATTATGAAGAGATGTCCACAACTGAACTTTCTGGAGGAGCACGTATACACTACATTTTCCAAGAAATTTTTGTCAGMapped 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|32832868|gb|CD972546.1|CD972546EST: GCTGGCCAAGGTGCTAAGCTTTTGAACATACTAGCTAAATACTGTGAAG CTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAAC
genomic: GCTGGCCAAGGTGCTAAGCTTTTGAACATACTAGCTAAATACTGTGAAGgtaaatattg ... tatactgtagCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcctgtgttgtgcttttatattttgagcattaaataacctgtgtatactgtagCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA
aaataac putative branch site (score: 2)
ttttatattttgagca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatattgaactatgacacttttgttaaggaaactatatttatgccctataattgctagaattgcctattactttcctgtgttgtgcttttatattttgagcattaaataacctgtgtatactgtagCTTTCTCCTCAATGGTGGAAGGAAAAAATGAAGATATATCGACAATTGAACTCTCTGGTGGAGCAAGGATCCATTACATTTTCCAGTCTATCTTTGTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG