Sequence
atgc intronic sequence ATGC exonic sequencegtaatgaaccgaagacaacgatagtctgagtctgagaatggtgttgtcttgttcacaatgtgtgctgattgatgatcttggtgttgtccattttaacgcgccgcgcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G028151_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g56050.1 (Oryza sativa), 3'ss of exon 4
---------------------------------------------gtaatgaaccgaagacaacgatagtctgagtctgagaatggtgttgtcttgttcacaatgtgtg-ctg-attgatgatcttggtgttgtc-----cattttaacgcgccgcgcgg-agtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
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gtgattaaattaccaactctgattagttcatttgttgcttttcttgcaagcaaacagtacacattttagtttagattttagagtgctagc-tcaagggcactgtgaatgactgtagttatgatgttacggctatcattgacgtttgttttcaccattttctgggcagTTGGAGGACTACCAGGAGGAGCTGGAGGAGATGAAGAACATGAGCAGGCAGGAGTATGTGGCTCACCTCAGAAG
upper sequence: GRMZM2G028151_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA06G05170.1 (Glycine max), 3'ss of exon 6
gtaatgaaccgaagacaacgatagtctgagtctgagaatggtgttgtcttgttcacaatgtgtgctgattgatgatcttggtgttgtccattttaacgcgccgcgcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
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-------------------gtatatttcatttcgtg--tagcatt-ttttttccttgattcgaatctcgt-atgctcgaaatcccattctttttgtt------cgctacggcagATAGAAAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAG
upper sequence: GRMZM2G028151_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 5
gtaatgaaccgaagacaacgatagtctgagtctgagaatggtgttgtcttgttcacaatgtgtgctgattgatgatcttggtgttgtccattttaacgcgccgcgcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
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-----------------------gtatatttcatttcgtgtagcatttttctccttgattcgaatcttttg-tgctcgaaatcacactctttttgtt------tactctggcagATAGAGAATTACCAAGTTCAACTTGAGGAAATGAAGAACATGAGCAGACAGGAATACGTTGCACACTTGAGAAG
upper sequence: GRMZM2G028151_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 4
gtaatgaaccgaagacaacgatagtctgagtctgagaatggtgttgtcttgttcacaatgtgtgctgattgatgatcttggtgttgtccattttaacgcgccgcgcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
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-----------------gtaataatttgaaccccattggagtgcagtgatctgttggttctttgc-aattgaaa----tgcagtcgtttgttttttggc-------------agTTGGAAAATTATCAACAAGAACTTGAAAATATGAAGAACATGACCAGACAGGAGTATGTTGCCCACTTGAGAAG
upper sequence: GRMZM2G028151_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S131_131V6.1 (Physcomitrella patens), 3'ss of exon 4
-------------------------------------gtaatgaaccgaagacaacgatagtctgagtctgagaatggtgt-tgtcttgttcacaatgtgtgctgattgatgatcttggtgt----tgtccattttaacgcgccgcgcggagt--cagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
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gtatgtcatagaacgtgtgccctcatgtcattttgctgcaagtaaatgtgtccacaactgttctgagcttgatgacaaggaatgtggtgggtgtgatgcttagtagttctgaggaatggtgcctcatgtacgtggaatggtggaatgttgtgcggcagCTTGATACATACGAACAAGAGCTGGAGGAGATGAAGAACATGTCTCGGCAGGAGTATGTTGCCTCGTTGAGAAG
upper sequence: GRMZM2G028151_T02 (Zea mays), 3'ss of exon 2
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------gtaatgaaccgaagacaacgatagtctgagtctgagaatggtgt-tgtcttgttcacaatg---tgtgctga------ttgatgatcttggtgttgtccattttaacgcgccgcgcggagt----cagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
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gtaagtcatgaatcgtgtgccgtcatgtcattctgccgctaattaat-gtgtccacaagtattctgagcttgacgccaaggcatgtggcgagcgtgatgctctgagcttagcagttctgaggaacggtgcctcatgcacgtggaatggtggaatgttgtgcgacagCTTGGTACATATGAAAAAGAGCTGGAGGAGATGAAGAACATGTCTCGGCAGGAGTATGTGGCCTCGTTGAGGAGMapped 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|78092257|gb|DV520631.1|DV520631EST: ACCTGGCGGCGCTCAAGTACTGGGGGACGTCCACGCACGTGAATTTCCCG GTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAG
genomic: ACCTGGCGGCGCTCAAGTACTGGGGGACGTCCACGCACGTGAATTTCCCGgtaatgaacc ... gcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAG
EST:
gi|76012118|gb|DT939288.1|DT939288EST: ACCTGGCGGCGCTCAAGTACTGGGGGACGTCCACGCACGTGAATTTCCCG GTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAG
genomic: ACCTGGCGGCGCTCAAGTACTGGGGGACGTCCACGCACGTGAATTTCCCGgtaatgaacc ... gcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtgctgattgatgatcttggtgttgtccattttaacgcgccgcgcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
ttttaac putative branch site (score: 2)
attttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgaaccgaagacaacgatagtctgagtctgagaatggtgttgtcttgttcacaatgtgtgctgattgatgatcttggtgttgtccattttaacgcgccgcgcggagtcagGTGGAGGACTACAGGGAAGAGCTGGAGGAGATGAAGAACATGACCAGACAGGAGTACGTCGCTCACCTGAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC