Sequence
atgc intronic sequence ATGC exonic sequencegtatgtactcccatcctttgttgtttgtatgtccattatttattatttttttttgtctccaaaattttcctgatccttgaatgtcctcctgtctctatcctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGCCTATCAGTGGTGGGAAGGTTCAGTTTTTAGCATCCTATGTATACTTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os05g09360.1 (Oryza sativa), 3'ss of exon 13
---------------------------------------------------------gtatgtactcccatcctttgttgtttgtatgtccattatttattatttttttttgtctccaaaattttcctgatccttgaatgtcctcctgtctctatcctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGCCTATCAGTGGTGGGAAGGTTCAGTTTTTAGCATCCTATGTATACTTTCA
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gtacgtagatctgtccacaagtaaatcaagattatttttgaacaacatgcattcagcctttgggctcttttgtcattcttttttccttatctttactggttttgctttttttgccacaaattttacctgtctcatttaagattatgtttatcgtatttttgttagGTATGAGGATGCATTTAACAAGTTTGTCGATGAGATAAATGCTCTCGCAGCATATCAGTGGTGGGAAGGATCAATTTATAGTATCCTGTGTATACTTTCA
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 8
lower sequence: PP1S45_273V6.1 (Physcomitrella patens), 3'ss of exon 14
-----------------------------------------------------gtatgtactcccatcctttgttgtt-tgtatgtccattatttattatttttttttgtctccaaaattttcctgatc-----cttgaatgtcctcctgtctctatcctt---tttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGCCTATCAGTGGTGGGAAGGTTCAGTTTTTAGCATCCTATGTATACTTTCA
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gtaagctctaaccctctattgtatctatgcctcagttataacattctggtgtgtcatgatgttcaagccttgattgttctctgagagcagggttgagcatgtttctagtacttgatttccttgttgaagaggggttctcgtggtctcacatgtttgttcttaattcgcagTTACGAAGATGCTTTTAATAGATTTGCTGAGGAAATCAACTTTCTGGCAGCTTATCAATGGTGGGAAGGTTCAGTGCACAGCATTTTGTCAGTTTTAGCA
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 8
lower sequence: EFJ14465 (Selaginella moellendorffii), 3'ss of exon 15
gtatgtactcccatcctttgttgtttgtatgtccattatttattatttttttttgtctccaaaattttcctgatccttgaatgtcctcctgtctctatccttttt-cagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGCCTATCAGTGGTGGGAAGGTTCAGTTTTTAGCATCCTATGTATACTTTCA
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------------------------------------------------------gtacgttgaatacttca---ccttcaatttactgtcgactaagtttcttgtacagGTACGAAGACGCTTTCAACAGATTCGTTGATGAGATCAATTGCCTTGCAGCGTACCAGTGGTGGGAAGGGTCTGTGTACAGCATACTGTGCTTTGCTGCA
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 8
lower sequence: EFJ26064 (Selaginella moellendorffii), 3'ss of exon 15
gtatgtactcccatcctttgttgtttgtatgtccattatttattatttttttttgtctccaaaattttcctgatccttgaatgtcctcctgtctctatcctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGCCTATCAGTGGTGGGAAGGTTCAGTTTTTAGCATCCTATGTATACTTTCA
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------------------------------------------------------gtacgttgaatacttc--atcttcaatttactgtcgactaagtttcttgtacagGTACGAAGACGCTTTCAACAGATTCGTTGATGAGATCAATTGCCTTGCAGCGTACCAGTGGTGGGAAGGGTCTGTGTACAGCATACTGTGCTTTGCTGCAMapped 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|67015716|gb|CO444465.1|CO444465EST: CTCCC-CACACCCCGCCAGAGCAGATTTCAGAGATTGT GTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGC
genomic: CTCCCACACACCCCGCCAGAGCAGATTTCAGAGATTGTgtatgtactc ... cctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGC
EST:
gi|31348714|gb|CD433071.1|CD433071EST: CAGAGCAGATTTCAGAGATTGT GTACGAAGATGCCTTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGC
genomic: CAGAGCAGATTTCAGAGATTGTgtatgtactc ... cctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGC
EST:
gi|33770943|gb|CF273237.1|CF273237EST: GAACCTTGGCATCTCCCACACACCCCGCCAGAGCAGATTTCAGAGATTGT GTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGC
genomic: GAACCTTGGCATCTCCCACACACCCCGCCAGAGCAGATTTCAGAGATTGTgtatgtactc ... cctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtctccaaaattttcctgatccttgaatgtcctcctgtctctatcctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGCCTATCAGTGGTGGGAAGGTTCAGTTTTTAGCATCCTATGTATACTTTCA
tcctgat putative branch site (score: 3)
tgtcctcctgtctcta putative PPT
aaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtactcccatcctttgttgtttgtatgtccattatttattatttttttttgtctccaaaattttcctgatccttgaatgtcctcctgtctctatcctttttcagGTACGAAGATGCATTTAACAAATTTGTTGATGAGATCAATGCTCTTGCAGCCTATCAGTGGTGGGAAGGTTCAGTTTTTAGCATCCTATGTATACTTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG