Sequence
atgc intronic sequence ATGC exonic sequencegtaaggcctcacctggtgctactatgctagttaggcatgtataccattaaaatagtaacaaaacagtatgtttttggttatagATGGAATACTCTCAACAGTTGAAACACTGGCATCGACTGCGATATGTGGCATCATACATTCAATTCTTGGAGGGCAGCCTTTGTTGATTGTTGGAGTTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G051753_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g08020.1 (Oryza sativa), 3'ss of exon 3
------------------------gtaaggcctcacc----tggtgctactatgctagttaggcat----gtataccattaaaatagtaacaaaacagtatgtttttggttatagATGGAATACTCTCAACAGTTGAAACACTGGCATCGACTGCGATATGTGGCATCATACATTCAATTCTTGGAGGGCAGCCTTTGTTGATTGTTGGAGTTGC
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gtaaatgcttaccttcttaccactatgagtctatgctacagtcgtgctatttcttgagttattgttcttagtatttaatcacatttctaataaaagaaaa-gtggttcatttcagATGGTATACTCACCACAGTAGAAACACTGGCATCTACTGCATTATGTGGCATCATACATTCAATTCTTGGAGGGCAGCCTCTGTTGATAGTTGGAGTTGC
upper sequence: GRMZM2G051753_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 2
--------------gtaaggcctcacctgg-----tgctactatgctagttaggcatgtataccattaaaata-gtaacaaaacagtatgtttttggttatagATGGAATACTCTCAACAGTTGAAACACTGGCATCGACTGCGATATGTGGCATCATACATTCAATTCTTGGAGGGCAGCCTTTGTTGATTGTTGGAGTTGC
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gcaagcgccaaatcataaatctatggatgagaacttttcaccatcttcttttcccatgggtatgattgtttttcatgattgaaacttttgtttttg---ttagATGGGCACTTGAGCTCAGTTCAAACTCTAGCTTCTACTGCTATATGTGGAATCATCCACTCAATTTTCGGTGGGCAGCCTTTGTTGATTTTAGGAGTTGC
upper sequence: GRMZM2G051753_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv11s0016g04740.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------------------------------------------------------------------gtaaggcctcacctggtgc-tactatgctagttagg-catgtataccattaaaatagtaacaaaacagtat----gtttttggtt------------atagATGGAATACTCTCAACAGTTGAAACACTGGCATCGACTGCGATATGTGGCATCATACATTCAATTCTTGGAGGGCAGCCTTTGTTGATTGTTGGAGTTGC
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gttggtttatatgctttatttatttatttttgtgtattaatgccatttaaaatttacaaattttcattgtataagtgagtatatgtatgtccacgactttatctcttgagtggttggggacttagggtatctgctttccacagatggttctgagattttttttttgtttttatttttctttttctctgtagATGGACACTTGAGCACAGTTGAAACTTTAACTTCCACTGCCATATGTGGTATCATACACTCGATATTTGGTGGGCAGCCTTTGTTGATATTAGGAGTGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttaggcatgtataccattaaaatagtaacaaaacagtatgtttttggttatagATGGAATACTCTCAACAGTTGAAACACTGGCATCGACTGCGATATGTGGCATCATACATTCAATTCTTGGAGGGCAGCCTTTGTTGATTGTTGGAGTTGC
tagtaac putative branch site (score: 1)
tgttttt putative PPT
attaaaatagtaacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggcctcacctggtgctactatgctagttaggcatgtataccattaaaatagtaacaaaacagtatgtttttggttatagATGGAATACTCTCAACAGTTGAAACACTGGCATCGACTGCGATATGTGGCATCATACATTCAATTCTTGGAGGGCAGCCTTTGTTGATTGTTGGAGTTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG