Sequence
atgc intronic sequence ATGC exonic sequencegtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 5
---------gtatgcaaccttcaggaatcaacata---cttgtgttaagttcatagcccaagg---ttcattcttgtatctg-gtatggtatttaaaaaagtttgccatt-tttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
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gtaagctgaatctgcacaattcatgtatttgcataaatttcattattaattcttatttcaatgaaatttatgcaaatacgtgtacacctgatgtctaaaagctggcccccattcttgttgcctgcagTCCGATGATGAGCGTGAGATGTGTGCAAGGACTATTTACTGCACAAACATTGACAAGAAG
upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G40760.1 (Glycine max), 3'ss of exon 7
gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgcc------atttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
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----gtaatgtttcttctttgttagagttgcctattacatttag---aagattgaccagagtagctgataatgcatctattttgtctgacctatctaatggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G14030.2 (Glycine max), 3'ss of exon 7
gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgcc-attt-----ttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
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----gtaatgtttcttctttgttagagttgcctattacatttaaaagatgattgaccagagtagctgataatgcatctctttggtctgacctatctaacggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 6
gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgcc------atttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
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-----gtttcttctttgttagagttgcctat--tacatttaaaag--atgattgactagagtagctgataatgcatctctttggtctgacctatctaatggtgctatatttctcagTCTGAAGATGAAAGGGAGATGTGTTCAAGAACAATTTATTGCACAAATATTGACAAGAAG
upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT4G10610.2 (Arabidopsis thaliana), 3'ss of exon 5
gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtg---atctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
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--------------gtaaggttttttcttgtgtttcat-cacattctgac-tgcaaagttatggtt--ttttagactcaagaggtttgattttagtcctgtctttgttcttagACTGAAGATGAGCGTGAGATGTGTGCAAGAACTATCTACTGCACTAACATTGACAAGAAG
upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 6
gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
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acatgttggtgctagaaatgggtatagcttagaaacgtgc-cgatcaaacattgtttactatttct--tgtgcttgttaattaaat-----gttatcgtgtcatc--cagTCTGAAGATGAACGTGAAATGTGCGCCAGGACTATTTACTGTACAAATATTGATAAGAAG
upper sequence: GRMZM2G173428_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S62_224V6.1 (Physcomitrella patens), 3'ss of exon 5
gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaa--aagtttgccatttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
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----ggaattgtttcatacttgca-acgattgttag--tgatatgccatagttcttgaatacggctcggatgaattctggctctaacttagttactctcca-----ttacagTCTGAAGATGAGCGTGAAATGTGTGCACGGACCATCTACTGTACAAATATTGACAAGAAGMapped 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|9743159|gb|BE519307.1|BE519307EST: TGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGG TCTGACGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATT
genomic: TGCCATCGAAAACTGCCATTGCACCAGTCAATCCAACATTCCTACCCAGGgtatgcaacc ... tgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
tttttctgt CT-rich tract
tatttaaaaaagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcaaccttcaggaatcaacatacttgtgttaagttcatagcccaaggttcattcttgtatctggtatggtatttaaaaaagtttgccatttttctgtgatctgcagTCTGATGATGAACGGGAAATGTGTGCGAGGACTATTTACTGCACAAACATTGACAAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG