Sequence
atgc intronic sequence ATGC exonic sequencegtgagtagtgagtactccctctgtcgactcagatctccattcctagcaagcatcttgaattcttgacgagggaaactctctgtttccctaataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAGACAATGGACATGTACAGCACGGCCTGCAAGGAGGCGCTGACGGCGAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G165433_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os06g09230.2 (Oryza sativa), 3'ss of exon 3
gtgagtagtgagtactccctctgtcgactcagatctccattcctagcaagcatcttgaattcttgacgagggaaactctctgtttccctaataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAGACAATGGACATGTACAGCACGGCCTGCAAGGAGGCGCTGACGGCGAAAC---
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------------------gtgagctgagctcgatcacg--ccattgccaccacctcgatcattgctcatgacatgttcgacgaattgcttgcgc-----gcagGACGACGTGGAGACGGAGATGAAGAGGCTTCGGCTGGAGCTGAAGCAGACCATGGACATGTACAGCACGGCGTGCAAGGAGGCGCTGAACGCGAAGCAGA
upper sequence: GRMZM2G165433_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv11s0065g00390.t01 (Vitis vinifera), 3'ss of exon 7
--gtgagtagtgagtactccctc-tgtcgactcagatctccattcctagcaagcatcttgaattcttgacgagggaaactctctgtttccctaataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAGACAATGGACATGTACAGCACGGCCTGCAAGGAGGCGCTGACGGCGAAAC---
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atattcatatagcttggtatcacatgtagaaacatgtaaaaatcacatgcacacg-cctacacaattga--agactaacacttaaatgttgcaatgatcacag-
upper sequence: GRMZM2G165433_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0008g02910.t01 (Vitis vinifera), 3'ss of exon 6
gtgagtag-tgagtactccctctgtcgactcagatctccattcctagcaagcatcttgaattcttgacgagggaaactctctgtttccctaataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAGACAATGGACATGTACAGCACGGCCTGCAAGGAGGCGCTGACGGCGAAAC---
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-tgaattgatcgctaaattccattacaattgagaagatt-tttctatggggatttatcaacttttg--gagggaccaagtatgataaagtaatgaaactaacagGAAGATGTGGAAGCTGAAATGAGGAGGCTAAAGCTGGAGCTCAAGCAGACAATGGATATGTACAGTACAGCCTGCAAAGAAGCACTCTCAGCGAAACAGAMapped 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|91875978|gb|EB405935.1|EB405935EST: ACACCACCTTCTCGCAGAGCAGCAGCTCTTCCTTCTGCTCCCTCGGCATG CAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAG
genomic: ACACCACCTTCTCGCAGAGCAGCAGCTCTTCCTTCTGCTCCCTCGGCATGgtgagtagtg ... ataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaagcatcttgaattcttgacgagggaaactctctgtttccctaataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAGACAATGGACATGTACAGCACGGCCTGCAAGGAGGCGCTGACGGCGAAAC
ccctaat putative branch site (score: 3)
taataataaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtagtgagtactccctctgtcgactcagatctccattcctagcaagcatcttgaattcttgacgagggaaactctctgtttccctaataataacagCAGGACGACGTGGAGGCGGAGATGAAGAGGCTTCGCCTGGAGCTCAAGCAGACAATGGACATGTACAGCACGGCCTGCAAGGAGGCGCTGACGGCGAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG