Sequence
atgc intronic sequence ATGC exonic sequence...atttatcttttcctctgctgtatttccgatttgtcttttcttttcactcaattttatatgtttttaactatgagagacttatattctgtatgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTGATGAAAATGTTCCTGCAAACAGTTTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01970.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
-----atttatcttttcctctgctgtatttccgatttgtcttttcttttcactcaattttatatgtttttaactatgagagacttatattctgtatgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTGATGAAAATGTTCCTGCAAACAGTTTCCTG
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gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagccta---ccggatattatcatgtattaagattctttatgctgtggacttc--agAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
upper sequence: Vv14s0030g01970.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G40680.1 (Glycine max), 3'ss of exon 4
atttatcttttcctctgctgtatttccgatttgtcttttcttttcactcaat---tttatatgtttttaactatgagagacttat-attctgtatgtt---ttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTGATGAAAATGTTCCTGCAAACAGTTTCCTG
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------ttatttgtgta-tacacgaccaagttctttgttttcctgacctagtgcttttccatgtccttcgtgaatcttcattaatgactttggaagcaacacttcagGGAACTTGGAATTGGAATAGTACCATACAGCCCCCTTGGCCGTGGATTTTTTGGTGGCAAGGCTGTCGTAGAAAGTATACCTGCAAACAGTTTTCTG
upper sequence: Vv14s0030g01970.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G30360.1 (Glycine max), 3'ss of exon 4
atttatcttttcc--tctgctgtatttccgatttgtcttttcttttcactcaattttatatgtttttaactatgagagacttatattctgt---atgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTGATGAAAATGTTCCTGCAAACAGTTTCCTG
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-tgtagctcagcaagtttgtttcattcc---tttcttcctacctgtccatatccttaataaatcttca-ctaaataattttggtgaacggtgacaacttttacagGGAACTTGGAATTGGAATAGTACCATTCAGTCCCCTTGGCCGTGGATTTTTTGGTGGTAAGGGGGTCATAGAAAGTATACCTGCAGACAGTTATCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcaattttatatgtttttaactatgagagacttatattctgtatgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTGATGAAAATGTTCCTGCAAACAGTTTCCTG
ttttaac putative branch site (score: 2)
attttatatgttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttatcttttcctctgctgtatttccgatttgtcttttcttttcactcaattttatatgtttttaactatgagagacttatattctgtatgttttgtagAGAACTTGGAATTGGGATAGTTCCATACAGTCCTCTTGGACGTGGGTTTTTTGGTGGCAAGGCTGTTGATGAAAATGTTCCTGCAAACAGTTTCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - -tctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgag