Sequence
atgc intronic sequence ATGC exonic sequence...cttgattctgcacatcaattattagctaatttggtagcattggcttcacttttctattgcttcaaaggggcagtgttaaccatcttttcttttgtaacagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G094039_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g40840.2 (Oryza sativa), 3'ss of exon 5
-----------cttgattctgcacatcaattattagctaatttggtagcattggcttcacttttctattgcttcaaaggggcagtgttaaccatcttttcttttgt---------aacagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
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gtgtgtgattgtttgattctgcatatcaattcttaacaaattcggtagctgctgattcattcttctgttgctgaaaaggagcatgcttgaccatcttttcctttctttcttctaaaatagATATGCATGAATTACGCCTTATTCACACTGATCTGAAGCCAGAAAACATACTCCTTGTGTCTTCGGAGTATATAAGGGTTCCAGGTTCCAAG
upper sequence: GRMZM2G094039_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G08480.2 (Glycine max), 3'ss of exon 5
-----------------------------------------------------cttgattctgcacatcaattattagctaatttggtagcattggcttcacttttctattgcttcaaagg-----ggcagtgt----------taacca---tcttttcttttgtaa----cagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
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gtctgtggattattcttggccttcagtttatttctcatgtttcattcttaagtctcttgcttacaaattaaaccatggctttttccttggcct--gctttctttgtccagggatgcagtgtatcttggttgtgtctgcttactttaacttctttcttgttctttatcatattcagATATGCATGAACTACGCCTAATCCACACTGACCTAAAGCCAGAAAATATACTTCTTGTTTCCTCTGAATATGTAAAGCTCCCTAGCTATAAG
upper sequence: GRMZM2G094039_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv04s0008g04220.t01 (Vitis vinifera), 3'ss of exon 6
-------------------------------------------------------------cttgattctgcacatcaattattag---ctaatttggtagcattgg-cttcacttttctattgcttcaaaggggca---gtgttaaccatcttttcttt-----------tgtaacagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
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gtgtgtgcattgtccttggcccttgctttatctctcattctgtattttattttctaacctaaccaattacccagatctgttttttgggcctgttttgtttgtccaggactgtacctctgtattatgtttgtgtcctttttgttttaacatgattttccttgctttacaatatccaacagATGTGCATGATTTATGCTTAATCCATACTGACCTGAAGCCAGAAAATATACTTCTTGTATCATCTGAGTGTATAAAGCTTCCTAGCTCCAAGMapped 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|148969962|gb|EE020875.2|EE020875EST: TTGTGTTCAAATTCAGAGATGGTTTGACTATCGTAATCATATATGCATT ATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGA
genomic: TTGTGTTCAAATTCAGAGATGGTTTGACTATCGTAATCATATATGCATTgtaagtacta ... tttgtaacagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacttttctattgcttcaaaggggcagtgttaaccatcttttcttttgtaacagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
tgttaac putative branch site (score: 2)
ccatcttttcttttgt CT-rich tract
ttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgattctgcacatcaattattagctaatttggtagcattggcttcacttttctattgcttcaaaggggcagtgttaaccatcttttcttttgtaacagATATGCATGAGTTGCGGCTTATCCACACTGATCTGAAGCCAGAAAACATACTACTTGTCTCTTCTGAGTATATAAAAGTTCCAAGTACAAAG
- - - tctgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttcaa