Sequence
atgc intronic sequence ATGC exonic sequence...ttcttatagtttatatgagcatatacatattgtgcaaactcatgttatttcaactgacaattccatcacttctaattatgaagcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os02g49570.1 (Oryza sativa), 3'ss of exon 7
ttcttatagtttatatgagcatatacatattgtgcaaactcatgttatttca--------actgacaattcca-tcacttctaattatgaa--gcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
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----------ttattt-agcatgtgtatatagtgcaaatttctgttagttcacccatttaacagtgaattctacttgctatttgtaacgaagagttccttatccttgccagAGTCAGAAAAGTATAAAGCTGTTATCCTCCGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA06G22870.1 (Glycine max), 3'ss of exon 8
ttcttatagtttatatgagcatatacatattgtgcaaactcatgttatttcaactgacaattcca--tcacttctaattatgaagcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
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tgcctatcaatgatgtt-gtttgcctaaatcgcaacctttgacagtgtcattattcattattttaattcactcacgactcacaagtgttct-ttcccctcagAGTCAAAAGAATTCAAGGCTGCTATCATCAGAATTGACAGTCCTGGAGGTGATGCTCTTGCTTCTGATTT
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA04G31180.1 (Glycine max), 3'ss of exon 7
-----ttcttatagtttatatgagcatatacatattgtgcaaactcatgttatttcaactgacaattccatcacttctaattatgaagcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
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tttagtgtccatcaattatgct-gtttgccaaaaaaatgcaacctt-tgacagtgttattattcattattttaattccc-tcatcagtgttctttcccct--cagAATCAAAAAAATTTAAGGCTGCTATCATCAGAATTGACAGTCCTGGAGGTGATGCTCTTGCTTCTGATTT
upper sequence: GRMZM2G122843_T02 (Zea mays), 3'ss of exon 12
lower sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 3
--ttcttatagtttatatgagcatatacatattgtgcaaactcatgttatttcaactgacaattccatcacttctaattatgaagcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
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ttcttttgcatatggaaaacaaattttgacttccaatgagtgcttattacatgatttaggtcttgctttaag-ctaatgctgg-gcctttttttctttccagATTCAAAAAGATATAAGGCTGTTATCATTCGCATTGACAGCCCTGGAGGTGATGCTCTTGCTTCTGATTTMapped 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|9461487|gb|BE453757.1|BE453757EST: TCAGGCATTGTCGCTGAGCAGTTAATTGAGAAGATACGAACTGTGTAGAG AATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGT
genomic: TCAGGCATTGTCGCTGAGCAGTTAATTGAGAAGATACGAACTGT-TAGAGgtaattttgc ... ctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttcaactgacaattccatcacttctaattatgaagcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
ttctaat putative branch site (score: 2)
cttcttgct putative PPT
ttctaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttatagtttatatgagcatatacatattgtgcaaactcatgttatttcaactgacaattccatcacttctaattatgaagcttcttgctatttgcagAATCAGAAAAGTACAAAGCTGTTATCCTACGTATAGACAGCCCTGGTGGTGATGCTCTTGCTTCTGATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG