Sequence
atgc intronic sequence ATGC exonic sequencegtttgtggtcgtgttcatgtgttctcatttaccatttgtgctgtttgaatttattgccaggacccatcacatggcacttctaacttctttaatgtaatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGATGAGCAGTGACGGTGCTGAGGATGTTACTATTGCTATCAACTCTTCTCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G423337_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g43930.2 (Oryza sativa), 3'ss of exon 10
gtttgtggtcgtgttcatgtgttctcatttaccatttgtgctgtttgaatttattgccaggacccatcacatggcacttctaacttctttaatgtaatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGATGAGCAGTGACGGTGCTGAGGATGTTACTATTGCTATCAACTCTTCTCCA
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gtttgcagtagtgcttatgtgtc----------------actatgtgaaagagat------acccat-gcgtgctatggctaacgtcctcgatgctatttgcagAGGCTTCAATGATGCTGTCAATGGATTCCCGGATGATGGCTGGTCACTGATGAGCAGCGATGGTGCTGAGGATGTGACAATTGCTTTTAACTCATCTCCA
upper sequence: GRMZM2G423337_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA05G30000.1 (Glycine max), 3'ss of exon 10
gtttgtggtcgtgttcatgtgttctcatttaccatttgtgc---tgtttgaatttattgccaggacccatcacatggcacttctaacttctttaa-tgtaatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGATGAGCAGTGACGGTGCTGAGGATGTTACTATTGCTATCAACTCTTCTCCA
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--gtaaggccct-ttcatatttggtggttgcatagttggacatttgattaatcactttgtcttcatcaatccttgctgactaataattttttaaaatttgatttagAGGG--TTCAATGATGCTGTCAACGGGTTTGTGGATGATGGTTGGTCACTGATGGGTAATGATGGGGTGGAAGATGTGACCATAGCCATAAACTCGTCTCCC
upper sequence: GRMZM2G423337_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT2G34710.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttgtggtcgtgttcatgtgttctcatttaccatttgtgctgtttgaatttattgccagga-cccatcacatggcacttctaacttctttaatgt-----aatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGATGAGCAGTGACGGTGCTGAGGATGTTACTATTGCTATCAACTCTTCTCCA
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------------------------gtaagtatctactttacttaatagctttatcaccaagaatttcttttattcttattctaa-ttgttcaatatggatgaactttcagGGGTTTCAATGATGCTGTTAATGGTTTTGTGGATGATGGATGGTCACCAATGGGTAGCGATGGTGCAGAGGATGTTACTGTAATGATAAACTTGTCCCCT
upper sequence: GRMZM2G423337_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv10s0003g04670.t01 (Vitis vinifera), 3'ss of exon 10
gtttgtggtcgtgttcatgtgttctcatttaccatttgtgctgtttgaatttattgccaggacccatcacatggcacttct-aacttctttaatgtaatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGATGAGCAGTGACGGTGCTGAGGATGTTACTATTGCTATCAACTCTTCTCCA
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----gaattttttttaaaagagacaaaaatgaaatttg-gtctttaggaccttttttttttttttttctcgtaatgtttctcgactaatttaaaatgtatattagGGGGTTCAATGATGCTGTTAATGGGTTTGCGGATGATGGTTGGTCGCTCATGGGTAGTGATGGGGTGGAGGACGTAACCATTGTGATTAACTCATCTCCAMapped 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|211034587|gb|FL160210.1|FL160210EST: GGGGGCCGACAGCCAGCAGTTTTGAGAACATTTAGCCAGAGGCTTAGCAG GGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGAT
genomic: GGGGGCCGACAGCCAGCAGTTTTGAGAACATTTAGCCAGAGGCTTAGCAGgtttgtggtc ... taatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttattgccaggacccatcacatggcacttctaacttctttaatgtaatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGATGAGCAGTGACGGTGCTGAGGATGTTACTATTGCTATCAACTCTTCTCCA
taacttctttaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtggtcgtgttcatgtgttctcatttaccatttgtgctgtttgaatttattgccaggacccatcacatggcacttctaacttctttaatgtaatttacagGGGTTTCAATGATGCTGTCAATGGGTTTCCAGATGACGGTTGGTCACTGATGAGCAGTGACGGTGCTGAGGATGTTACTATTGCTATCAACTCTTCTCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG