Sequence
atgc intronic sequence ATGC exonic sequencegtaagaaagaatcttgatgatcccttttcactttcaaaaccggtcgaaactgaggaaaataaataataggagagttgcaaaatgaaacagATAATGGAGGTACCTAGTCTTTTGGAAGAAGGATCAAGCTCTGTGAAGAGAAAACCGGATTACCGAGCTCATCAAGGCCGGTGTTGCAGCTCGTGAGTCA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G09910.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G09910.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA13G20970.1 (Glycine max), 3'ss of exon 5
-----------------gtaagaaagaat--cttgatgatcccttttcactttcaaaaccggtcgaaactgaggaaaataaataataggagagttgcaaaatgaaacagATAATGGAGGTACCTAGTCTTTTGGAAGAAGGATCAAGCTCTGTGAAGAGAAAACCGGATTACCGAGCTCATCAAGGCCG-GTGTTGCAGCTCGTGAGTCA
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agtgatgatattcttgcgtgaataaaaattcttttgtagaatattttctgtgcaaatgcttttcctttcctatagtgacaaata---------tggcgccatttcatagATAATGGAAGTTCCTAGTCTTTTGGAAGAAGGATCTACAGCAGTTAAAAGGAATATTCTAAAGCAACAACAACAACCCCAAGCATCCGAATTTGGTGGTT-
upper sequence: AT3G09910.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA10G06780.1 (Glycine max), 3'ss of exon 5
------------------gtaagaaagaatcttgatgatcccttttcactttcaaaaccggtcgaaactgaggaaaataaataataggagagttgcaaaatgaaacagATAATGGAGGTACCTAGTCTTTTGGAAGAAGGATCAAGCTCTGTGAAGAGAAA---ACCGGATTACCGAGCTCATCAAGGCCGGTGTTGCAGCTCGTGAGTCA
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aagtgatgacattcttgcatgaataaaagttctgttgtagagtatttgctgt--gcactgcttttcctttcctatagtaacaaatatg------gcgccatttcatagATAATGGAAGTTCCTAGTCTTTTGGAAGAAGGATCTACAGCAGTAAAAAGGAATATTCTAAAGCAACAACAGGAACAACCCCAAGCATCCGAATTTGGTG---
upper sequence: AT3G09910.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA19G37020.1 (Glycine max), 3'ss of exon 5
-------gtaagaaagaatcttgatgatcccttttcactttcaaaaccggtcg--aaactgaggaaaataaataatagg-agagttgcaaaatgaaacagATAATGGAGGTACCTAGTCTTTTGGAAGAAGGATCAAGCTCTGTGAAGAGAAA-ACCGGATTACCGAGCTCATCAAGGCCGGTGTTGCAGCTCGTGAGTCA
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aattattacttggaaaatataagacatgatattttgaatgagtgaatcgtttgctgtgttttgtttttcctatcatgaccaatatggcatcattttgtagATAATGGAAGCTCCTAGTCTTTTGGAAGAAGGATCAACAGCAGTTAAAAGGAGTGTTTTAAAACCAAAACAAGAATCCCAAGCATCCCAAAATGGTGGTT-
upper sequence: AT3G09910.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA03G34330.1 (Glycine max), 3'ss of exon 5
-------gtaagaaagaatcttgatgatcccttttcactttcaaaaccggtcg--aaactgaggaaaataaataataggaga-gttgcaaaatgaaacagATAATGGAGGTACCTAGTCTTTTGGAAGAAGGATCAAGCTCTGTGAAGAGAAA-ACCGGATTACCGAGCTCATCAAGGCCGGTGTTGCAGCTCGTGAGTCA
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attacctggaaaatataagacagagataatattttgaatgagtgaattgtttgctgtgttttgtttttcctatcatgacaaatatggcaccatttcgtagATAATGGAAGCTCCTAGTCTTTTGGAAGAAGGATCAACAGCAGTTAAAAGGAGTGTTTTAAAACCAAAACAAGAATCCCAAGCATCCCAAAATGGTGGTT- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaccggtcgaaactgaggaaaataaataataggagagttgcaaaatgaaacagATAATGGAGGTACCTAGTCTTTTGGAAGAAGGATCAAGCTCTGTGAAGAGAAAACCGGATTACCGAGCTCATCAAGGCCGGTGTTGCAGCTCGTGAGTCA
aggaaaataaataata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaaagaatcttgatgatcccttttcactttcaaaaccggtcgaaactgaggaaaataaataataggagagttgcaaaatgaaacagATAATGGAGGTACCTAGTCTTTTGGAAGAAGGATCAAGCTCTGTGAAGAGAAAACCGGATTACCGAGCTCATCAAGGCCGGTGTTGCAGCTCGTGAGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC