Sequence
atgc intronic sequence ATGC exonic sequence...ttttggagatgatcaatgtcctaatgtatgttatatcttgtagttgctcctacattgcgttatggaatgttttttctgagtgccattttttttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACCCCATTGTCCCTTGGTTTGGAGACACTGGGTGGTGTTATGACCAAGATTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G111475_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g23740.1 (Oryza sativa), 3'ss of exon 6
--ttttggagatgatcaatgtcctaatgtatgttatatcttgtagttgctcctacattgcgttatggaatgttttttctgagtgccattttttttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACCCCATTGTCCCTTGGTTTGGAGACACTGGGTGGTGTTATGACCAAGATTA
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tgtctcactggtgttctaggattgattatcttctagagtcagaaa--gcaaatgtactctactgaactacagaatatctgactggcaaaattttgacaacagGCAGGAGTGTTGTCTGGTGATGTGAGCGACATTGTTCTTCTTGATGTAACACCACTTTCTCTGGGTTTGGAGACACTGGGTGGTGTGATGACCAAGATTA
upper sequence: GRMZM2G111475_T02 (Zea mays), 3'ss of exon 6
lower sequence: PP1S153_153V6.1 (Physcomitrella patens), 3'ss of exon 4
----ttttg---gagatgatcaatgtcctaatgtatgttatatcttgtagttgctcctacattgcgttatggaatgttttttctgagtgccattttttttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACCCCATTGTCCCTTGGTTTGGAGACACTGGGTGGTGTTATGACCAAGATTA
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gtggtttagcaagaggtgtcggggttggtggtgtgtgc-gtgcgttgtcattgttgcgggtgggcagcacgaatgagaaggacgggggg------tgttgaatgcagGCCGGTGTTTTGGCTGGTGAAGTGAGCGACATTGTTCTGCTGGACGTGACGCCTCTGTCTCTGGGTTTGGAGACGCTGGGGGGTGTGATGACGAAGATCA
upper sequence: GRMZM2G111475_T02 (Zea mays), 3'ss of exon 6
lower sequence: PP1S6_146V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------------------------------------ttttggagatgatcaatgtcctaat----gtatgttatatcttgtagttgctcctacattgcgtt--atggaatgtt-------ttttctg-agtgccatttttt-----ttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACCCCATTGTCCCTTGGTTTGGAGACACTGGGTGGTGTTATGACCAAGATTA
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gtttgaaattttacctcgatacctactcatctctgtcacgagtatggatggctaaggggtttagtttgttattcctaatggggggtatcctgaggttgttttagtagtctgatgaatggcttatcatcgacattttctgtattaacaattgtgggaaattactacagGCTGGTGTTTTGGCTGGTGAAGTCAGCGACATTGTTCTTCTGGATGTGACGCCTCTGTCTTTGGGTTTGGAGACGTTGGGTGGTGTGATGACGAAGATTAMapped 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|13490628|gb|BG517392.1|BG517392EST: ATGTGACAGTCAACCCTGATGAGGTTGTTGCACTTGGAGCAGCTGTGCAG GCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACC
genomic: ATGTGACAGTCAACCCTGATGAGGTTGTTGCACTTGGAGCAGCTGTGCAGgtcagttcac ... tttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACC
EST:
gi|67028777|gb|CO457526.1|CO457526EST: ATGTGACAGTCAACCCTGATGAGGTTGTTGCACTTGGAGCAGCTGTGCAG GCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTTGATGTGACC
genomic: ATGTGACAGTCAACCCTGATGAGGTTGTTGCACTTGGAGCAGCTGTGCAGgtcagttcac ... tttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctcctacattgcgttatggaatgttttttctgagtgccattttttttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACCCCATTGTCCCTTGGTTTGGAGACACTGGGTGGTGTTATGACCAAGATTA
ccattttttttact CT-rich tract
attttttttactaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttggagatgatcaatgtcctaatgtatgttatatcttgtagttgctcctacattgcgttatggaatgttttttctgagtgccattttttttactacagGCTGGAGTTTTGTCTGGTGATGTTAGCGACATTGTCCTTCTCGATGTGACCCCATTGTCCCTTGGTTTGGAGACACTGGGTGGTGTTATGACCAAGATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA