Sequence
atgc intronic sequence ATGC exonic sequencegtatgttagaacttgaaaccttgttctcaacttttttttgtcaatttaaatctttttttctcatttgatctatatgttcgcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 3'ss of exon 5
gtatgttagaacttgaaaccttgttctcaactttttt--ttgtcaatttaaatctttttttctcatttgatctatatgttcgcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
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gtatgttgtagctt-aaatactattgccattttatgccatcactagtttgcttcagttttgcttattctaattgcattttc-------tagGCATGGGCGAGATTGTGTAAATGCCTTGGTCAGGACTTCTTACCATACATGAATGTTGTTATGCCTCCTCTGCTCCAGTCTGCTCAGCTTAAACCAGATG
upper sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA19G29010.1 (Glycine max), 3'ss of exon 6
--------------------gtatgttagaacttgaaaccttgttctcaacttttttttgtcaatttaaatctttttt--tctca---tttgatctatatgttcgcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
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gtatggtctttttacaagctttttgcatcaacttggaaatatatattta--ttttgtcgtttagttaaaattcttacgaatctcaaattttcacttggatgc-catgctttcagGCATGGGCACGGCTTTGCAAGTGCCTTGGGCAGGATTTTCTCCCATATATGGGTTTTGTGATGCCTCCTTTGCTCCAGTCTGCACAACTTAAGCCCGATG
upper sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA16G04400.2 (Glycine max), 3'ss of exon 6
---------gtatgttagaacttgaaaccttgttctcaac---ttttttttgtcaatt--taaatcttttt------ttctcatttg-atctatatgttcgcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
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gtatagtctttctaccagcttttggcatcaacttggaaatatatttattttgtcgtctagtaaaaattcttacaaatctcaaatttgcacttggatgc-catgctttcagGCATGGGCGCGGCTTTGCAAGTGCCTTGGGCAGGATTTTCTCCCATACATGGGTTTTGTCATGCCTCCTTTGCTCCAGTCTGCGCAACTTAAGCCCGATG
upper sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 6
gtatgttag-aacttgaaaccttgttctcaacttttttttgtcaatttaaatctttttttctcatttgatctatatgttcgcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
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gtatgcttgtgaattataatgtgtggatcacttttatatcttccacttgtttcacttctttgtgtgatgaatatttaattattgctgcagGCTTGGGCCAGACTCTGCAAGTGCCTGGGACAAGACTTCCTCCCTTACATGAGTGTTGTCATGCCCCCTTTGCTTCAATCTGCTCAACTTAAACCTGATG
upper sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv08s0007g07240.t01 (Vitis vinifera), 3'ss of exon 6
----------------------------------------------------------------------------------gtatgttagaacttgaaacc--ttgttctcaacttttttttgtcaatttaaatctttttttctcatttgatcta-tatgttcgcct-ctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
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gtatgctttttgcataagctacagagaccttcacttaaatgttctgcatttctttgtcttttaaatggacaaatgcttaggaatactttttgtctaacaaacaatttttttgataagtcttttgtctaac-aaacaattaaaaagaacaaaacataatatgtacctttgttgcagGCATGGGCCAGACTTTGCAAGTGCCTTGGCCAGGATTTCCTTCCTTACATGAATGTTGTCATGCCCCCCTTGCTTCAATCTGCTCAGCTTAAGCCTGATGMapped 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|22545771|gb|BU098145.1|BU098145EST: AAGGATCTCAGATGGAGGCTGATGACCCTATAACAAGCTACATGCTGCAA GCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATG
genomic: AAGGATCTCAGATGGAGGCTGATGACCCTATAACAAGCTACATGCTGCAAgtatgttaga ... gcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATG
EST:
gi|26558109|gb|CA830344.1|CA830344EST: AAGGATCTCAGATGGAGGCTGATGACCCTATAACAAGCTACATGCTGCAA GCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATG
genomic: AAGGATCTCAGATGGAGGCTGATGACCCTATAACAAGCTACATGCTGCAAgtatgttaga ... gcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgtcaatttaaatctttttttctcatttgatctatatgttcgcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
atttgat putative branch site (score: 5)
ttcgcctct putative PPT
aatttaaatctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttagaacttgaaaccttgttctcaacttttttttgtcaatttaaatctttttttctcatttgatctatatgttcgcctctgtagGCATGGGCAAGACTGTGTAAATGCCTTGGTCAGGATTTCTTACCATACATGAGTGTTGTTATGCCCCCTCTGCTCCAGTCTGCTCAGCTCAAACCAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG