Sequence
atgc intronic sequence ATGC exonic sequence...tgaggtctactgataagtgcgcattttgattgtttccttgtttttgctcttttctgcattgttctgtttcaacttattggctgatttaaatgttctgtagGATGGCAACACCCTTTATAATGAGCTTGAAGTTGTGGAGGGTATGAAACTTGACAGAGGTTACATCTCTCCGTACTTCATTACCAACTCAAAAACACATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G126878_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 3'ss of exon 6
---------------------------tgaggtctactgataagtgcgcattttgattgtttccttgtttttgctct---tttctgc-attgttctg--tttcaacttattggctgatttaaatgttctgtagGATGGCAACACCCTTTATAATGAGCTTGAAGTTGTGGAGGGTATGAAACTTGACAGAGGTTACATCTCTCCGTACTTCATTACCAACTCAAAAACACATG
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gtaagttgatccaagttaaaactgaacttggcctctcttatctctatttggttggtagacttcctttagttaaaactgaacttgtgccaacactctggtttttcgttaatttgtttgcttaaacatttggtagGATGGTAACACCCTTTACAATGAGCTTGAAGTTGTGGAAGGCATGAAACTTGACAGAGGCTACATCTCTCCTTACTTTGTTACCAACCCAAAGACCCAGA
upper sequence: GRMZM2G126878_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT2G33210.1 (Arabidopsis thaliana), 3'ss of exon 5
tgaggtctactgataagtgcgcattttgattgtttccttgtttttgctcttttctgcattgttctgtttcaacttattggctgatttaaatgttc-tgtagGATGGCAACACCCTTTATAATGAGCTTGAAGTTGTGGAGGGTATGAAACTTGACAGAGGTTACATCTCTCCGTACTTCATTACCAACTCAAAAACACATG
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------------------gtgagttgaattttatccctaaatgtcaaattattttgc-ttattcc--ttaaggtgaccaatgttatcatctcttgattcagGATGGCAAGACCTTGTTTAATGAGCTGGAAGTTGTTGAGGGTATGAAGATTGACAGGGGATACATCTCCCCGTACTTCATAACTAACCCGAAAACACAAA
upper sequence: GRMZM2G126878_T01 (Zea mays), 3'ss of exon 1
lower sequence: PP1S378_9V6.2 (Physcomitrella patens), 3'ss of exon 6
-tgaggtctactgataagt-gcgcattttgattgtttccttgtttttgctcttttc-tgcattgttctgtttcaacttattggctgatttaaatgttctgtagGATGGCAACACCCTTTATAATGAGCTTGAAGTTGTGGAGGGTATGAAACTTGACAGAGGTTACATCTCTCCGTACTTCATTACCAACTCAAAAACACATG
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ttgaaataagataccaatttgtgcattatacgcctcaggatatgatagataagtgaatgcaacctagtgctcc--cgtgatggacggtt-acgttccttgcagGACGGAAAAACTCTGTTTAATGAGTTGGAGGTTGTGGAGGGTATGAAGCTCGACAGAGGATATATCTCTCCCTATTTCATCACCAATTCTAAGACTCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctcttttctgcattgttctgtttcaacttattggctgatttaaatgttctgtagGATGGCAACACCCTTTATAATGAGCTTGAAGTTGTGGAGGGTATGAAACTTGACAGAGGTTACATCTCTCCGTACTTCATTACCAACTCAAAAACACATG
ggctgat putative branch site (score: 4)
atttaaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaggtctactgataagtgcgcattttgattgtttccttgtttttgctcttttctgcattgttctgtttcaacttattggctgatttaaatgttctgtagGATGGCAACACCCTTTATAATGAGCTTGAAGTTGTGGAGGGTATGAAACTTGACAGAGGTTACATCTCTCCGTACTTCATTACCAACTCAAAAACACATG
- - -tctactg
- - - - - - - - - - - - -ttgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggctgat