Sequence
atgc intronic sequence ATGC exonic sequence...tattattccatattttctagaaacattaattcattcgtcaatcactcacactcacaaaatactcatcttttcttgaaaattgggttcaacggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAGTCGGGAGCTGGGTCTGGTACCCCTCCAGGTCAAGTTCTGGTTCCAGAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G001289_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ37532 (Selaginella moellendorffii), 3'ss of exon 1
tattattccatattttctagaaacattaattcattcgtcaatcactcacactcacaaaatactcatcttttcttgaaaattgggttcaacggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAGTCGGGAGCTGGGTCTGGTACCCCTCCAGGTCAAGTTCTGGTTCCAGAAC
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-----------------------------------------------gtaagtactgcaagccgagagcatgatgagaacttatctttcttcgtg-ccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAAT
upper sequence: GRMZM2G001289_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ10492 (Selaginella moellendorffii), 3'ss of exon 2
tattattccatattttctagaaacattaattcattcgtcaatcactcacactcacaaaatactcatcttttcttgaaaattgggttcaacggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAGTCGGGAGCTGGGTCTGGTACCCCTCCAGGTCAAGTTCTGGTTCCAGAAC
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-----------------gtaagagattggtt--ttggt--gttgttctcgattg-gaagtcctcaaggtggattttttcttcgttttctcgcg----cagCTTGTTCAAGGAGTGCCCGCATCCGGATGACAAGCAGCGGCAGGAGCTCAGCCGGGAGCTCGGATTGGAGCCGCGGCAAGTCAAGTTTTGGTTCCAGAAT
upper sequence: GRMZM2G001289_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ34024 (Selaginella moellendorffii), 3'ss of exon 1
tattattccatattttctagaaacattaattcattcgtcaatcactcacactcacaaaatactcatcttttcttgaaaattgggttcaacggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAGTCGGGAGCTGGGTCTGGTACCCCTCCAGGTCAAGTTCTGGTTCCAGAAC
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-----------------------------------------------gtaagtactacaagccgagagcatgatgagaacttatctttcttcgtg-ccagGTTGTTCAAGGAGTGTCCTCATCCCGACGATAAGCAGCGCCAGGAGCTGAGCCGGGAGCTAGGACTGGAGCCTCGGCAAGTCAAGTTCTGGTTCCAGAATMapped 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|78092032|gb|DV520406.1|DV520406EST: AAGAAGCGCTACCACCGCCACACCCTGCATCAGATCCAGGAGATGGAAGC TTTCTTCAAGGAATGCCCGCACCCGGACGACTAGCAGCGTCA-GGAGCTGA
genomic: AAGAAGCGCTACCACCGCCACACCCTGCATCAGATCCAGGAGATGGAAGCgtaatgaccc ... ggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCG-CAAGGAGCTGA
EST:
gi|71449408|gb|DR830458.1|DR830458EST: AAGAAGCGCTACCACCGCCACACCCTGCATCAGATCCAGGAGATGGAAGC TTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAG
genomic: AAGAAGCGCTACCACCGCCACACCCTGCATCAGATCCAGGAGATGGAAGCgtaatgaccc ... ggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacactcacaaaatactcatcttttcttgaaaattgggttcaacggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAGTCGGGAGCTGGGTCTGGTACCCCTCCAGGTCAAGTTCTGGTTCCAGAAC
cactcac putative branch site (score: 2)
ttttcttgaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattattccatattttctagaaacattaattcattcgtcaatcactcacactcacaaaatactcatcttttcttgaaaattgggttcaacggatggccagTTTCTTCAAGGAATGCCCGCACCCGGACGACAAGCAGCGCAAGGAGCTGAGTCGGGAGCTGGGTCTGGTACCCCTCCAGGTCAAGTTCTGGTTCCAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT