Sequence
atgc intronic sequence ATGC exonic sequence...ggactctggactaatatcttcaaaatgcaaacagaggacagaggttaatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G107218_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g01490.1 (Oryza sativa), 3'ss of exon 7
-----------------------------------------------------------------ggactctggactaatatcttcaaa-atgcaaacagaggacagaggttaatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
|||| |||||||| || ||| | |||||||||||||| || |||||||||||||||||||||||||||||||||||||||| ||| ||||||||||||||||||||||||||||||||||||||| ||
ctggaaatgcaagattgtgtgtaaccgctaacctgttgcttcatctttttttactctgctgtccactgttctgaactaatattttgaaatgcgataacagAGGACAGAGATTTATGAATATGCGAAGGTGCTTGGTAATTCTCAATATATCCTGCTACCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGCGG----------------------------
upper sequence: GRMZM2G107218_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------------------------------------------------ggactctgg-actaatatcttcaaaatgcaaacagaggacagaggttaatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
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ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG----------------------------
upper sequence: GRMZM2G107218_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s2430g00010.t01 (Vitis vinifera), 3'ss of exon 1
----------------------------------------------------------------ggactctggactaata-tcttcaaaatgca-aacagaggacagaggttaatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
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ctttgtacctcaataaggatcccttcccctccccccttccttgcctccctctctctgctttgaattaaccttgcttaatggccttctgggtatatggcagAGGACCGAGTTGTATGAATACTCAAAGGTGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTG----------------------------
upper sequence: GRMZM2G107218_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 3'ss of exon 7
----------------------------------------------------------------ggactctggactaata-tcttcaaaatgca-aacagaggacagaggttaatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
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ctttgtacctcaataagggtctcttcctctccccccttccttgcatccctctctctgctttgaattaaccttgcttaatggccttctgggtatatggcagAGGACCGAGTTGTATGAATACTCAAAGGTGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTG---------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
ggttaat putative branch site (score: 4)
tcctactatcctttc putative PPT
taattctcaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggactctggactaatatcttcaaaatgcaaacagaggacagaggttaatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - -aatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttgg