Sequence
atgc intronic sequence ATGC exonic sequencegtaagataacttcgtaccaaccttagaattttccactggttatcagtaactagaaacaacccatgtcataatcatgttgcttatttgtagctccagctctgctgtgttcgataagtcatcttttaatcgatgtgaatacatgattaatggatctaccaatcttgcagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCACAACTTGAGAGTGGTACTGCCGTCCAGGATTGCTGATGTCAGAGTGATTTTTTAAAAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G051032_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os07g06440.1 (Oryza sativa), 3'ss of exon 11
gtaagataacttcgtacca-accttagaattttccactggttatcagtaactagaaacaac----ccatgtcataatcatg-ttgcttatttgtagctccagctctgctgtgttcgataagtcatcttttaatcgatgtgaat-acatgattaatggatctaccaatcttgcagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCACAACTTGAGAGTGGTACTGCCGTCCAGGATTGCTGATGTCA---GAGTGATTTTTTAAAAAAA
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gtaagctgtccgtgcgtcatgccttgctgtctggtctaagtactcatctaatgcagtcaatttctctaaattttactagtaattttgtccttgatgctacagctctgc-atgtct--ccaattttcatcagatc-atgttattgagctcaatctttcatttctctaccttgcagGCTCTTCTTCCCTCAGGACCTGGATGCTTCTGCTGATGCACAGCTTGAGAGTGGTGCGTTTATTCAAAATAGCTGATGGGACATGACAGAGCGTTTGTTA---
upper sequence: GRMZM2G051032_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os08g06880.1 (Oryza sativa), 3'ss of exon 6
gtaagataacttcgtaccaaccttagaattttcca---ctggtt--atcagtaactagaaacaacccatgtca-taatcatgttgcttatttgtagctccagctctgctgtgttcgataagtcatcttttaatcg----atgtgaat-acatgattaatggatctaccaatcttgcagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCACAACTTGAGAGTGGTACTGCCGTCCAGGATTGCTGATGTCA---GAGTGATTTTTTAAAAAAA
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gtaagctgtccgtgcgtcatgccgaaactttttgctgtctggtccaagtactcatctaatgcagtcaatttctctaaatttcacgagtaattttgcccttgatgctacagctctgcacgtctccaatttccatcagatcatgttattgagctcaatctttcatttctctgccttgcagGTTCTTCTTCCCTCAGGACCTGGATGCTTCTGCTGATGCACAGCTTGAGAGTGGTGCGGCTATTCAAAATAGCTGATGGGACATGACAGAGCGTTTGCTA--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtcatcttttaatcgatgtgaatacatgattaatggatctaccaatcttgcagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCACAACTTGAGAGTGGTACTGCCGTCCAGGATTGCTGATGTCAGAGTGATTTTTTAAAAAAA
gattaat putative branch site (score: 3)
aatacatgattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagataacttcgtaccaaccttagaattttccactggttatcagtaactagaaacaacccatgtcataatcatgttgcttatttgtagctccagctctgctgtgttcgataagtcatcttttaatcgatgtgaatacatgattaatggatctaccaatcttgcagGCTCTTCTTTCCTCAGGATCTTGACGCGTCTGCTAATGCACAACTTGAGAGTGGTACTGCCGTCCAGGATTGCTGATGTCAGAGTGATTTTTTAAAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT