Sequence
atgc intronic sequence ATGC exonic sequencegtaagccttttcgcctgcattaattctggcatcgctgcaccgcatcttgctccaatccaatcgctaatcttctcttacaaaacctgaacgacagGTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGCAGAGGGCGATGCTGGAGAACATCATGAGGGCCTGCGTTGGCTTGGCCCCAGAGAACAACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g09250.2 (Oryza sativa), 3'ss of exon 9
gtaagccttttcgcctgcattaattctggcatcgctgcaccgcatcttgctccaatccaatcgctaatcttctcttacaaaacctgaacgacagGTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGCAGAGGGCGATGCTGGAGAACATCATGAGGGCCTGCGTTGGCTTGGCCCCAGAGAACAACA
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-------gtactgcc--cattaaccgttatgttctttcatgatataccaa-ctgatttacttatgtcacgaaaaattcgtctcctgga--acagGTTCCTCCTGGCACACCAGTGGTGAACGCCCTGGCAAAGCAGAGGGCAATGCTTGAGAACATCATGAGGGCCTGCGTTGGGCTGGCCCCCGAGAACAACA
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g09250.3 (Oryza sativa), 3'ss of exon 8
----gtaagccttttcgcctgcattaattctggcatcgctgcaccgcatcttgctccaatccaatcgctaatcttctcttacaaaa-------cctgaacgacagGTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGCAGAGGGCGATGCTGGAGAACATCATGAGGGCCTGCGTTGGCTTGGCCCCAGAGAACAACA
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gtgagtgcatacatgcatctgtactgcccatta-accgttatgttctttcatgatata--ccaactgatttacttatgtcacgaaaaattcgtctcctggaacagGTTCCTCCTGGCACACCAGTGGTGAACGCCCTGGCAAAGCAGAGGGCAATGCTTGAGAACATCATGAGGGCCTGCGTTGGGCTGGCCCCCGAGAACAACA
upper sequence: GRMZM2G145638_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G02210.3 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------------------------------------------gtaagccttttcgcctgcattaattctggcatcgctgcaccgcatcttgctccaatccaatcgctaatcttctcttacaaaacctgaacgacagGTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGCAGAGGGCGATGCTGGAGAACATCATGAGGGCCTGCGTTGGCTTGGCCCCAGAGAACAACA
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gtgagtttaatctaatcttattcaatgttgagtgcatatccttatttttatataggaattaagttgaaagaaatatgagttttagtattgagatacaattgtgaagttaaatcattgttcagtgaatttcccttttttccccttatcatttttttatcaaaaaagttggcaaggttactc--acaacataactcttgcagGTTCCACCGGGTACACCAGTGGTGAATGCATTGTCAAAGCAGCGTGCAATGCTGGAAAACATAATGAGGGCTTGTGTTGGATTGGCCCCAGAGAATAACAMapped 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|6056712|gb|AW091117.1|AW091117EST: CTTAGCTACCTCACCAAGGCACCACTG GTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGTAGAGGGCGATG
genomic: CTTAGCTACCTCACCAAGGCACCACTAgtaagccttt ... tgaacgacagGTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGCAGAGGGCGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccgcatcttgctccaatccaatcgctaatcttctcttacaaaacctgaacgacagGTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGCAGAGGGCGATGCTGGAGAACATCATGAGGGCCTGCGTTGGCTTGGCCCCAGAGAACAACA
ctcttac putative branch site (score: 3)
ttacaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagccttttcgcctgcattaattctggcatcgctgcaccgcatcttgctccaatccaatcgctaatcttctcttacaaaacctgaacgacagGTTCCGCCCGGCACACCGGTGGTGAACGCTCTGGCAAAGCAGAGGGCGATGCTGGAGAACATCATGAGGGCCTGCGTTGGCTTGGCCCCAGAGAACAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA