Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatagtatgtccgttaagatagtgaaggcttagattgatacatttttttagagttatcttgatgagctgtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G844096_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g29690.1 (Oryza sativa), 3'ss of exon 2
gtatgtatagtatgtccgttaagatagtgaaggc----ttagattgatacatttttttagagttatcttgatgagctgtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
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--gtatgtaatttgctccttca-acagtgactgtccttttagattgatataaatgataggaaataatctca-aagtt----tcatgttcctatccctgtctata---------------------------gGTGACATGCTTGGTGGCCACGTTGATGACATGGAAGCAGATTGGAGTAAACCTATTGTAAGCATAAG
upper sequence: GRMZM5G844096_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA18G00970.1 (Glycine max), 3'ss of exon 4
gtatgtatagtatgtccgttaagatagtgaaggcttagattgatacatttttttagagttatcttgatgagctgtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
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-----------ctggttcttgagaaagaaaaccctt----ttaaacaaatttttagaacagtct-gcttcgttgt-ttactagtcaacctc-tcactttatct----------tctatattattccagGGGACACATTGGGTGGCCACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATAGTTAGTCTAAG
upper sequence: GRMZM5G844096_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA11G37040.1 (Glycine max), 3'ss of exon 4
gtatgtatagtatgtccgttaagatagtgaaggcttagattgatacatttttttagagttatcttgatgagctgtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
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------------------ttgtagtagtgaatgttt-------tccagttcttgagaaatttttagaacagtctgcttcat--tgtttaccagtcaacctctcattttatct-tttatattattccagGGGACACATTGGGTGGCCACCTTGATGACATGGAAGCAGATTGGAGCAAGCCTATTGTTAGTCTAAG
upper sequence: GRMZM5G844096_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0010g03650.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtatagtatgtccgttaagatagtgaaggcttagattgatacatttttttagagttatc-ttgatgagctgtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
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----------tgcactgataagctttgtaaccttttggtgggatggaggttt---gaggtatcattaatta--tggatttaagcaactggttttcacttt-------cattgttctt-------ttcagGTGATATGCTTGGGGGCCACCTAGATGACATGGAAGCAGATTGGACTAAACCTATAGTGAGCATGAGMapped 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|71763677|gb|DR961614.1|DR961614EST: TGGAGAAGAATTCAAGCCAGAAGCTGCTATAGTGAACTATTACGGTCCAA GTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAAC
genomic: TGGAGAAGAATTCAAGCCAGAAGCTGCTATAGTGAACTATTACGGTCCAAgtatgtatag ... attgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAAC
EST:
gi|71426132|gb|DR807182.1|DR807182EST: TGGAGAAGAATTCAAGCCAGAAGCTGCTATAGTGAACTATTACGGTCCAA GTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAAC
genomic: TGGAGAAGAATTCAAGCCAGAAGCTGCTATAGTGAACTATTACGGTCCAAgtatgtatag ... attgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
gattgat putative branch site (score: 4)
aaatactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatagtatgtccgttaagatagtgaaggcttagattgatacatttttttagagttatcttgatgagctgtattcatgctccttctcgtttctgtactgaaatactaagcttagattgatgtagGTGACATGCTTGGTGGCCATGTTGATGACATGGAAGCAGATTGGACAAAACCTATTGTAAGCATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT