Sequence
atgc intronic sequence ATGC exonic sequencegtaattttctacttacaccccattttttgctgctttctgagtgggttcttttcttgtttcctttgagattgacttttctttttcttttttttaaaaggaatttcttaaaaatgtagtgcattcattgacattcctcattctgtttgtgctgtgaatagTATTGCAGAATATACTTTAGAAAATTCAGTCATCAAACCTACTTATATGTTGACATATGAGAGTGCAACTGAATTGCTTTACATGAACCTGGAAGAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G082260_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g62440.2 (Oryza sativa), 3'ss of exon 10
gtaattttctacttacaccccattttttgctgctttctgagtgggttcttttcttgtttcctttgagattgacttttctttttcttttttttaaaaggaatttcttaaaaatgtagtgcattcattgacattcctcattctgtttgtgctgtgaatagTATTGCAGAATATACTTTAGAAAATTCAGTCATCAAACCTACTTATATGTTGACATATGAGAGTGCAACTGAATTGCTTTACATGAACCTGGAAGAAGAG
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-------------------------------------------------------gtatcctactatcttaatattgcttttctcttgctt------------------gttatagcaaaattgttgaga------actatatttgtgttgttcatagTATTGCAGAATATAGTATAGAGAATTCAATCATAAAACCTACCTACATGTTAACATATGAGAGTGCAACTGAACTACTGTATATGAACCTGGAAGAAGAG
upper sequence: GRMZM2G082260_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT5G02250.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaattttctacttacaccccattttttgctgctttctgagtgggttcttttcttgtttcctttgagattgacttttctttttcttttttttaaaaggaatttcttaaaaatgtagtgcattcattgacattcctcattctgtttgtgctgtgaatagTATTGCAGAATATACTTTAGAAAATTCAGTCATCAAACCTACTTATATGTTGACATATGAGAGTGCAACTGAATTGCTTTACATGAACCTGGAAGAAGAG
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----------------------------------------------------------------gtaactcaataatcatag-ctcttttctggagttctaatctaccaaatgctgagaactaaa-aaagtaccttcaacttcttgt------aacagTATTACAGAATATTCAGTAGATAATTCAATCATCAGACCGACCTATATGTTGACGTATGAAAGTGCTTCTGAGCTGCTTCACTTGAACCTAGAAGAAGAA
upper sequence: GRMZM2G082260_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv08s0007g00460.t01 (Vitis vinifera), 3'ss of exon 10
gtaattttctacttacaccccattttttgctgctttctgagtgggttcttttcttgtttcctttgagattgacttttctttttcttttttttaaaaggaatttcttaaaaatgtagtgcattcattgacattcctcattctgtttg--tgctgtgaatagTATTGCAGAATATACTTTAGAAAATTCAGTCATCAAACCTACTTATATGTTGACATATGAGAGTGCAACTGAATTGCTTTACATGAACCTGGAAGAAGAG
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----------------------------------------------------------agactatagatttacttatatactggagcttgttacaagg--ttcatgaacagaatattctcttaacaacaattttataccctatatgggtactatatatagCATTGCAGAATGCACAGTAGATAACTCCATCATCAAACCAACCTATATGCTGACATATGAGAGTGCATCTGAACTTCTTCATTTGAACTTGGAAGAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttaaaaatgtagtgcattcattgacattcctcattctgtttgtgctgtgaatagTATTGCAGAATATACTTTAGAAAATTCAGTCATCAAACCTACTTATATGTTGACATATGAGAGTGCAACTGAATTGCTTTACATGAACCTGGAAGAAGAG
cattgac putative branch site (score: 3)
aaatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattttctacttacaccccattttttgctgctttctgagtgggttcttttcttgtttcctttgagattgacttttctttttcttttttttaaaaggaatttcttaaaaatgtagtgcattcattgacattcctcattctgtttgtgctgtgaatagTATTGCAGAATATACTTTAGAAAATTCAGTCATCAAACCTACTTATATGTTGACATATGAGAGTGCAACTGAATTGCTTTACATGAACCTGGAAGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG