Sequence
atgc intronic sequence ATGC exonic sequencegtatgcttcagttatccgtgttattgcccacactcaggtgaggtttgaatttacttgtcattgtacgacagtttagttataaattgtgctatgctcacatgctatattctttatctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G361049_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT1G43170.7 (Arabidopsis thaliana), 3'ss of exon 4
gtatgcttcagttatccgtgttattgcccacactcaggtgaggtttgaatttacttgtcattgtacgacagttta-gttataaatt-----gtgctatgctcacatgctatattctttat-----ctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
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--------------------------------------------gtaagtttgctt---attgaatggaagtgtatatcataaactcttctgcactacgttcttactgacaattctatgtgacctctaattacagATCAGGAAGATGAAGGGATTGAAGCAGAAGAAGGCTCACATGATGGAGATCCAGATCAATGGTGGTACCATTGCCCAGAAGGTTGACTTTGCCTACAGTT
upper sequence: GRMZM2G361049_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv18s0072g00340.t01 (Vitis vinifera), 3'ss of exon 4
gtatgcttcagttatccgtgttattgcccacactcaggtgaggtttgaatttacttgtcattgtacgacagtttagttataaattgtgctatgctcacatgctatattctttatctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
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-----------ttatttg-acgcttgtcaatactt---caaaatttagttccagctctcat------atcccctaaatgatccttatcctctaactaatttctctggtcatggtgttat---agATTAGGAAGATGAAGGGATTGAAGCAGAAGAAAGCACACTTGATGGAGATCCAGGTCAATGGTGGAACCATTGCTCAGAAAGTGGATTATGCTTATGGTT
upper sequence: GRMZM2G361049_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv12s0035g01020.t01 (Vitis vinifera), 3'ss of exon 3
gtatgcttcagttatccgtgttattgcccacactcaggtgaggtttgaatttacttgtcattgtacgacagtttagttataaattgtgctatgctcacatgctatattctttatctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
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gtagttttccatcaccaatatt-tgggattcaaagactttaggtttca---catttataaatgca---------agttaccaattatttggcactgacatatcctatatggaatggatttgtagATTAGAAAAATGAAGGGCCTGAAGCAGAAAAAGGCTCACCTTATGGAGATTCAGGTGAATGGTGGAGATGTTGCTAAGAAGGTTGACTATGCCTATGGTT
upper sequence: GRMZM2G361049_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ23085 (Selaginella moellendorffii), 3'ss of exon 3
gtatgcttcagttatccgtgttattgcccacactcaggtgaggtttgaatttacttgtcattgtacgacagtt-tagttataaattgtgctatgctcacatgcta-tattctttatctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
||| || | | | | | | | | || | | ||||| | || | || ||| || | || | ||||| | |||||||||||||| || ||||||||||| ||||| ||||| ||||| | || || ||||| |||| || || || |
--------------------------------------------------------------gtatgaaaactctcgatccagaa---acaattgactcgtgctaatgtttgagaactatccccagGTTCGCAACCTCAAGGGCATCAAGCAGAAGAAGGCCCATCTCATGGAGATTCAGGTGAACGGAGGCACGACCGCGGAGAAGGTTGACTTTGCGTATAACT
upper sequence: GRMZM2G361049_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ30452 (Selaginella moellendorffii), 3'ss of exon 3
gtatgcttcagttatccgtgttattgcccacactcaggtgaggtttgaatttacttgtcattgtacgacagtt-tagttataaattgtgctatgctcacatgcta-tattctttatctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
||| || | | | | | | | | || | | ||||| | || | || | ||| || | || | ||||| | |||||||||||||| || ||||||||||| ||||| ||||| ||||| | || || ||||| |||| || || || |
--------------------------------------------------------------gtatgaaaactctcgatccagaa---acaattgactcgtgctaatgtttgagaactatctccagGTTCGCAACCTCAAGGGCATCAAGCAGAAGAAGGCCCATCTCATGGAGATTCAGGTGAACGGAGGCACGACCGCGGAGAAGGTTGACTTTGCGTATAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttagttataaattgtgctatgctcacatgctatattctttatctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
ttctttatct CT-rich tract
tatattctttatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcttcagttatccgtgttattgcccacactcaggtgaggtttgaatttacttgtcattgtacgacagtttagttataaattgtgctatgctcacatgctatattctttatctgatttcagATTAGAAAGATGAAGGGTTTGAAGCAGAAGAAGGCTCACCTCATGGAGATCCAGGTCAACGGTGGCACTATAGCAGACAAGGTGGACTATGGTTACAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA