Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgtttgatacattttgtgcatcttttccatgatatcttcagctaagatctcctttttggaaactcatcagctaacatgtttcttacttcaccgcagTCGGAGTATCCAGATGTCCCTTTCTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTGTCACTGATCTGCAACTCAATGCTGTGGGATCCATACTCTCCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063511_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g07670.1 (Oryza sativa), 3'ss of exon 4
gtttgtgtttgatacattttgtgcatcttttccatgatatcttcagctaagatctcctttttggaaactcatcagctaacatgtttcttacttcaccgcagTCGGAGTATCCAGATGTCCCTTTCTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTGTCACTGATCTGCAACTCAATGCTGTGGGATCCATACTCTCCTTG
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gtttgtgttttatac-ctttgtgcgcccgtgtgatgatgtcttgagctaa---cccttgtctgga----------ttgaca--------------ctgtagCCGGAGTATCCAACTGTCCCTTTCAGTGCTCCTCTTTGGTGTCGGTGTTGCAACAGTGACTGATCTGCAACTCAATGCTGTGGGATCCGTATTGTCCTTG
upper sequence: GRMZM2G063511_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G14980.1 (Glycine max), 3'ss of exon 4
gtttgtgtttgatacattttgtgcatcttttccatgatatcttcagctaagatctcct--ttttgga--aactcatcagctaacatgtttcttacttcaccgcagTCGGAGTATCCAGATGTCCCTTTCTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTGTCACTGATCTGCAACTCAATGCTGTGGGATCCATACTCTCCTTG
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cattgtgagataaggatgttgt-----tgttgtatggcattaccttagtagttctactaattttgaattgtgttattaattgttttaccattattgtcattgcagTAAAAGAGTGCAATTTTCTCTTTCTATCCTCCTTCTGGGTGTTGGAATTGCAACCGTTACTGATCTGCAACTCAATGCTTTGGGCTCTTTCTTATCTTTG
upper sequence: GRMZM2G063511_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 3'ss of exon 5
gtttgtgtttgatacattttgtgcatcttttccatgatatcttcagctaagatctcctttttggaaactcatcagctaacatgtttcttactt--caccgcagTCGGAGTATCCAGATGTCCCTTTCTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTGTCACTGATCTGCAACTCAATGCTGTGGGATCCATACTCTCCTTG
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-tttaagtttgg-atattccaatcatttaatcttgtctatcatctgattattttgtctggttacagctttatgtactgata-atttcttattcactaccgcagCCGGAGTATCCAGCTTTCTCTTTCTATCCTTCTTTTGGGTGTTGGGATTGCAACGGTGACTGATTTGCAGCTCAATGCCCTGGGTTCTGTCTTATCTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaagatctcctttttggaaactcatcagctaacatgtttcttacttcaccgcagTCGGAGTATCCAGATGTCCCTTTCTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTGTCACTGATCTGCAACTCAATGCTGTGGGATCCATACTCTCCTTG
ttcttac putative branch site (score: 2)
tttcttacttcacc CT-rich tract
tttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgtttgatacattttgtgcatcttttccatgatatcttcagctaagatctcctttttggaaactcatcagctaacatgtttcttacttcaccgcagTCGGAGTATCCAGATGTCCCTTTCTGTGCTCCTTCTTGGTGTTGGTGTTGCAACTGTCACTGATCTGCAACTCAATGCTGTGGGATCCATACTCTCCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG