Sequence
atgc intronic sequence ATGC exonic sequencegttgctgctgcttaccctttccatttcttttatggatatcttcctttatcacttaacctcttattcttttctttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGCTGGTGGAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G438673_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g74520.1 (Oryza sativa), 3'ss of exon 2
-gttgctgctgcttaccctttccatttc-ttttatggatatcttcctttatcacttaacctcttattcttttctttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGCTGGTGGAACAG
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gtttgcttccaatctcctcctcctcctcctttttttcatgtcaggctt-accacatt-cctctt-ctctattttttaagGCTCATCTCAAAGCTTAATCCTTTTCCTGGGATGAAGCATCTAGATGTGGCTGGTGGAACAG
upper sequence: GRMZM2G438673_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G22890.1 (Glycine max), 3'ss of exon 2
-------------gttgctgctgctt--accctttccatttcttt--tatggatatcttcctttatcacttaacctcttattcttttct-ttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGCTGGTGGAACAG
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gttacagcattacattctcatttcttcaattgtttcaatcttgttgctattgctgttggactttgc--ttaaatctgtgattattttctgctcagGTTAGTTTCCAAGCTGAATCCGTTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAG
upper sequence: GRMZM2G438673_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G03210.2 (Glycine max), 3'ss of exon 1
--------------gttgctgctgcttaccctttccatttcttttatggatatcttcctttatcacttaacctcttattcttttct-ttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGCTGGTGGAACAG
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gttacaacattacattctcattttcataatagtttcaatcatattactgttgctttggactttgcttaaatctgtgattattttctgctcagGTTAGTTTCGAAGCTGAATCCATTTCCTGGAATGAAGCATCTTGATGTTGCTGGTGGCACAG
upper sequence: GRMZM2G438673_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv16s0039g01590.t01 (Vitis vinifera), 3'ss of exon 3
-----gttgctgctgcttaccctttccatttcttttatggatatcttcctttatcact-taacctcttattcttttctttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGCTGGTGGAACAG
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gtttgaatcttgctgttgtgctcaaatagttatttca-aattatgatgctttgcttctatattagtttatttttgcttaacagGTTGGTCTCTAAATTGCATCCATTTCCTGGAATGAAGCATCTTGATGTGGCTGGTGGAACAGMapped 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|8367775|gb|BE050720.1|BE050720EST: CTCATGAACGATCTCATGAGTGTCGGCCTGCATAGGCTGTGGAAGGACAG GCTTATTTCCAAGCTGAACCCCTTTCCGGCGATGAAGCATCTCGATGTGGC
genomic: CTCATGAACGATCTCATGAGTGTCGGCCTGCATAGGCTGTGGAAGGACAGgttgctgctg ... tttctttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGC
EST:
gi|76919519|gb|DV167756.1|DV167756EST: CATAGGCTGTGGAAGGACAG GCTTATTTCCAAGCTGACCCCCTTTCCGGCAATGAAGCATCTCGATGTGGC
genomic: CATAGGCTGTGGAAGGACAGgttgctgctg ... tttctttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcttttatggatatcttcctttatcacttaacctcttattcttttctttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGCTGGTGGAACAG
acttaac putative branch site (score: 3)
tcttcctttatcactt CT-rich tract
ttattcttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgctgctgcttaccctttccatttcttttatggatatcttcctttatcacttaacctcttattcttttctttcagGCTTATTTCCAAGCTGAACCCCTTTCCGGCAATGAAGCATCTCGATGTGGCTGGTGGAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA