Sequence
atgc intronic sequence ATGC exonic sequencegtatgatcttttacacttctgggtctactttgctgatctgcttgttaaataattctttttaaacacaattttggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 9
gtatgatcttttacacttctgggtctactttgctgatctgcttgttaaataattctttttaaacacaattt-tggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
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gtatgttctcctgccctt---aaattacttggcttatgtgcttgcta--ttatcgtttttaa-cacattttgttttatgcagTTAAATAACCTTGAACTAGCTGTAAATCTTGCCAAAAGAGCTAATCTTCCTGGGGCAGAGAACTTG
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 9
gtatgatcttttacacttctgggtctactttgctgatctgcttgttaaataattctttttaaacacaattt-tggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
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gtatgttctcctgctctt---aaattacttggcttatgtgcttgcta--ttatcgtttttaa-cacattttgttttatgcagTTAAATAACCTTGAACTAGCTGTAAATCTTGCCAAAAGAGCTAATCTTCCTGGGGCAGAGAACTTA
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 9
gtatgatcttttacacttctgggtctactttgctg---atctgcttgttaaataattctttt-taaacacaattttggtat----gcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
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gtatg-tttctgaccttgttataacttttttgttgtaaagtggggtatgaaatggcatttttacaaattccatttggttattatcacagTTAAACAATTTGGAGCTAGCAGTTAGTCTTGCCAAAAGAGGAAATCTTCCTGGTGCTGAGAAGCTG
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 9
gtatgatcttttacacttctgggtctactttgctgatctgcttgttaaataattctttt-taaacacaattttggtat----gcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
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gtatg-tttctgatcttgtcaattttgtaatgtaaagtgggaaacaaagtgacatttctacaaattttatttgtttattatcacagCTAAACAATTTGGAGCTAGCAGTTAATCTCGCCAAGAGAGGAAATCTTCCTGGTGCTGAGAAACTG
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 9
------gtatgatcttttacacttctgg-gtctactttgctgatctgcttgttaaataattctttttaaacacaattttggtat-gcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
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gtatgtttctgatcttat-cacttttgttatgtaaagtgggaaagtgacatttcaataaattttatttg-------tttattaccacagTTAAACAATTTGGAGCTAGCAGTTAATCTTGCCAAGCGAGGAAATCTTCCTGGTGCTGAGAAACTG
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 9
gtatgatcttttaca-----cttctgggtctactttgctgatctgcttgttaaataattctttttaaacacaattttggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
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gtatgtttctgagctgatttcctttgtggcatgtcagaaaattatcttctgtgcttatggatgtta--tctgattcttat-tgtagTTGAACAACTTGGAGCTAGCTGTCAATCTCGCAAAAAGGGGAAATCTCCCTGGTGCAGAGAACTTG
upper sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 9
gtatgatcttttacacttctgggtctactttgctgatctgcttgttaaataat-----tctttttaaacacaattt--tggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
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gtacaatttgtttttcctcc--tctttctttgattactggaggaaaaaaaaaactttgttttttaaaatgttatttgatgttttgcagTTGAATAACTTGGAGCTTGCCGTTAATCTTGCCAAAAGAGGAAACCTTCCTGGTGCAGAAAACCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttgctgatctgcttgttaaataattctttttaaacacaattttggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
tgctgat putative branch site (score: 3)
ttgttaaataattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatcttttacacttctgggtctactttgctgatctgcttgttaaataattctttttaaacacaattttggtatgcagCTGAACAACCTTGAGCTTGCTGTTAATCTTGCCAAGAGAGCAAATCTTCCTGGTGCAGAGAACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA