Sequence
atgc intronic sequence ATGC exonic sequencegtatgtccaatgattgcttattttggcatcacaattttttttacctttttttttgtctcccttcttggaatttgacatttttcatttgttttacagTACGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 7
gtatgtccaatgattgcttattttggcatcacaattttttttacctttttttttgtctcccttcttggaatttgacatttttcatttgttttacagTACGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAA
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gtaagttgagtccttgcatgccttt---ttaggacgcctttcacatttgttat-gttgttcttat----gtcctgtgccttttgtgt---taacagTATGAGCCAGAACTCTTTCCTGGTCTGATATATCGGATGAAGCAACCAAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAA
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 3'ss of exon 6
gtatgtccaatgattgcttattttggcatcacaattttttttacctttttttttgtctcccttcttggaatttgacatttttcatttgttttacagTACGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAA
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gtaagttgaatccttgcatgtttttttaggata-tttctttcacatatgttatg----ctattctcatgtcttg-----tgccttttgtcttccagTATGAGCCTGAACTCTTTCCTGGTCTGATATATCGGATGAAGCAACCGAAGATTGTTCTTCTGATTTTTGTTTCAGGCAAGATTGTTTTGACCGGAGCAA
upper sequence: GRMZM2G149238_T04 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0004g00180.t01 (Vitis vinifera), 3'ss of exon 7
----gtatgtccaatgattgcttattttggcatcacaattttttttacctttttttttgtctcccttcttggaatttgacatttttcatttgttttacagTACGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAA
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aaatttaaattgaatcattttaaaaaaaatcatgtaaatgttgtctgtgttctctactgtgccttattgtattgaatatagtttggattttgttgggcagTATGAACCAGAATTGTTCCCTGGCTTGATCTATCGAATGAAACAACCAAAGATTGTGCTGCTTATCTTTGTGTCAGGGAAAATTGTTCTCACTGGAGCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacctttttttttgtctcccttcttggaatttgacatttttcatttgttttacagTACGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAA
atttgac putative branch site (score: 4)
tttttcatttgtttt CT-rich tract
atttttcatttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtccaatgattgcttattttggcatcacaattttttttacctttttttttgtctcccttcttggaatttgacatttttcatttgttttacagTACGAACCAGAACTCTTTCCTGGCCTTATCTATCGGATGAAACAACCAAAGATTGTTCTTTTAATTTTTGTTTCAGGCAAGATTGTTTTGACTGGAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA